Things we are aware of and understand.
It is possible that authors did not identify, want to identify, or acknowledge potential limitations or were unaware of what limitations existed. Cumulative complexity is the result of the presence of multiple limitations because of the accumulation and interaction of limitations and their components. Just mentioning a limitation category and not the specific parts that are the limitation(s) is not enough. Authors telling readers of their known research limitations is a caution to discount the findings and conclusions. At what point does the caution for each limitation, its ramifications, and consequences become a warning? When does the piling up of mistakes, bad and missing data, biases, small sample size, lack of generalizability, confounding factors, etc., reach a point when the findings become s uninterpretable and meaningless? “Caution” indicates a level of potential hazard; a warning is more dire and consequential. Authors use the word “caution” not “warning” to describe their conclusions. There is a point when the number of limitations and their cumulative effects surpasses the point where a caution statement is no longer applicable, and a warning statement is required. This is the reason for establishing a limitations risk score.
Limitations put medical research articles at risk. The accumulation of limitations (variables having additional limitation components) are gaps and flaws diluting the probability of validity. There is currently no assessment method for evaluating the effect(s) of limitations on research outcomes other than awareness that there is an effect. Authors make statements warning that their results may not be reliable or generalizable, and need more research and larger numbers. Just because the weight effect of any given limitation is not known, explained, or how it discounts findings does not negate a causation effect on data, its analysis, and conclusions. Limitation variables and the ramifications of their effects have consequences. The relationship is not zero effect and accumulates with each added limitation.
As a result of this research, a limitation index score (LIS) system and assessment tool were developed. This limitation risk assessment tool gives a scores assessment of the relative validity of conclusions in a medical article having limitations. The adoption of the LIS scoring assessment tool for authors, researchers, editors, reviewers, and readers is a step toward understanding the effects of limitations and their causal relationships to findings and conclusions. The objective is cleaner, tighter methodologies, and better data assessment, to achieve more reliable findings. Adjustments to research conclusions in the presence of limitations are necessary. The degree of modification depends on context. The cumulative effect of this burden must be acknowledged by a tangible reduction and questioning of the legitimacy of statements made under these circumstances. The description calculating the LIS score is detailed in Appendix 1 .
A limitation word or phrase is not one limitation; it is a group of limitations under the heading of that word or phrase having many additional possible components just as an individual named influence. For instance, when an admission of selection bias is noted, the authors do not explain if it was an exclusion criterion, self-selection, nonresponsiveness, lost to follow-up, recruitment error, how it affects external validity, lack of randomization, etc., or any of the least 263 types of known biases causing systematic distortions of the truth whether unintentional or wanton. 40 , 76 Which forms of selection bias are they identifying? 63 Limitations have branches that introduce additional limitations influencing the study’s ability to reach a useful conclusion. Authors rarely tell you the effect consequences and extent limitations have on their study, findings, and conclusions.
This is a sample of limitations and a few of their component variables under the rubric of a single word or phrase. See Table 3 .
A Limitation Word or Phrase is a Limitation Having Additional Components That Are Additional Limitations. When an Author Uses the Limitation Composite Word or Phrase, They Leave out Which One of Its Components is Contributory to the Research Limitations. Each Limitation Interacts with Other Limitations, Creating a Cluster of Cross Complexities of Data, Findings, and Conclusions That Are Tainted and Negatively Affect Findings and Conclusions
Small Sample Size | Retrospective Study | Selection Bias |
---|---|---|
Low statistical power | Missing information | Affects internal validity |
Estimates not reliable | Recall bias | Nonrandom selection |
Prone to biased samples | Observer bias | Leads to confounding |
Not generalizable | Misclassification bias | Not generalizable |
Prone to false negative error | Observer bias | Inaccurate relation to variables |
Prone to false positive error | Evidence less robust than prospective study | Observer bias |
Sampling error | Missing data | Sampling bias |
Confounding factors | Volunteer bias | |
Selection bias | Survivorship bias |
Limitations rarely occur alone. If you see one there are many you do not see or appreciate. Limitation s components interact with their own and other limitations, leading to complex connections interacting and discounting the reliability of findings. By how much is context dependent: but it is not zero. Limitations are variables influencing outcomes. As the number of limitations increases, the reliability of the conclusions decreases. How many variables (limitations) does it take to nullify the claims of the findings? The weight and influence of each limitation, its aggregate components, and interconnectedness have an unknown magnitude and effect. The result is a disorderly concoction of hearsay explanations. Table 4 is an example of just two single explanation limitations and some of their components illustrating the complex compounding of their effects on each other.
An Example of Interactions between Only Two Limitations and Some of Their Components Causes 16 Interactions
Retrospective Study | Small Sample Size |
---|---|
The novelty of this paper on limitations in medical science is not the identification of research article limitations or their number or frequency; it is the recognition of the multiplier effect(s) limitations and the influence they have on diminishing any conclusion(s) the paper makes. It is possible that limitations contribute to the inability of studies to replicate and why so many are one-time occurrences. Therefore, the generalizability statement that should be given to all readers is BEWARE THERE IS A REDUCTION EFFECT ON THE CONCLUSIONS IN THIS ARTICLE BECAUSE OF ITS LIMITATIONS.
Journals accept studies done with too many limitations, creating forking path situations resulting in an enormous number of possible associations of individual data points as multiple comparisons. 79 The result is confusion, a muddled mess caused by interactions of limitations undermining the ability to make valid inferences. Authors know and acknowledge but rarely explain them or their influence. They also use incomplete and biased databases, biased methods, small sample sizes, and not eliminating confounders, etc., but persist in doing research with these circumstances. Why is that? Is it because when limitations are acknowledged, authors feel justified in their conclusions? It wasn’t my poor research design; it was the limitation(s). How do peer reviewers score and analyze these papers without a method to discount the findings and conclusions in the presence of limitations? What are the calculus editors use to justify papers with multiple limitations, reaching compromised or spurious conclusions? How much caution or warning should a journal say must be taken in interpreting article results? How much? Which results? When? Under what circumstance(s)?
Since a critical component of research is its limitations, the quality and rigor of research are largely defined by, 75 these constraints making it imperative that limitations be exposed and explained. All studies have limitations admitted to or not, and these limitations influence outcomes and conclusions. Unfortunately, they are given insufficient attention, accompanied by feeble excuses, but they all matter. The degrees of freedom of each limitation influence every other limitation, magnifying their ramifications and confusion. Limitations of a scientific article must put the findings in context so the reader can judge the validity and strength of the conclusions. While authors acknowledge the limitations of their study, they influence its legitimacy.
Not only are limitations not properly acknowledged in the scientific literature, 8 but their implications, magnitude, and how they affect a conclusion are not explained or appreciated. Authors work at claiming their work and methods “overcome,” “avoid,” or “circumvent” limitations. Limitations are explained away as “Failure to prove a difference does not prove lack of a difference.” 60 Sample size, bias, confounders, bad data, etc. are not what they seem and do not sully the results. The implication is “trust me.” But that’s not science. Limitations create cognitive distortions and framing (misperception of reality) for the authors and readers. Data in studies with limitations is data having limitations. It was real but tainted.
Limitations are not a trivial aspect of research. It is a tangible something, positive or negative, put into a data set to be analyzed and used to reach a conclusion. How did these extra somethings, known unknowns, not knowns, and unknown knowns, affect the validity of the data set and conclusions? Research presented with the vagaries of explicit limitations is intensified by additional limitations and their component effects on top of the first limitation s , quickly diluting any conclusion making its dependability questionable.
This study’s analysis of limitations in medical articles averaged 3.9% per article for JSLS and 7.4% for Surg Endosc . Authors admit to some and are aware of limitations, but not all of them and discount or leave out others. Limitations were often presented with misleading and hedging language. Authors do not give weight or suggest the percent discount limitations have on the reliance of conclusion(s). Since limitations influence findings, reliability, generalizability, and validity without knowing the magnitude of each and their context, the best that can be said about the conclusions is that they are specific to the study described, context-driven, and suspect.
Limitations mean something is missing, added, incorrect, unseen, unaware of, fabricated, or unknown; circumstances that confuse, confound, and compromise findings and information to the extent that a notice is necessary. All medical articles should have this statement, “Any conclusion drawn from this medical study should be interpreted considering its limitations. Readers should exercise caution, use critical judgement, and consult other sources before accepting these findings. Findings may not be generalizable regardless of sample size, composition, representative data points, and subject groups. Methodologic, analytic, and data collection may have introduced biases or limitations that can affect the accuracy of the results. Controlling for confounding variables, known and unknown, may have influenced the data and/or observations. The accuracy and completeness of the data used to draw a conclusion may not be reliable. The study was specific to time, place, persons, and prevailing circumstances. The weight of each of these factors is unknown to us. Their effect may be limited or compounded and diminish the validity of the proposed conclusions.”
This study and findings are limited and constrained by the limitations of the articles reviewed. They have known and unknown limitations not accounted for, missing data, small sample size, incongruous populations, internal and external validity concerns, confounders, and more. See Tables 2 and and 3 . 3 . Some of these are correctible by the author’s awareness of the consequences of limitations, making plans to address them in the methodology phase of hypothesis assessment and performance of the research to diminish their effects.
Limitations in research articles are expected, but they can be reduced in their effect so that conclusions are closer to being valid. Limitations introduce elements of ignorance and suspicion. They need to be explained so their influence on the believability of the study and its conclusions is closer to meeting construct, content, face, and criterion validity. As the number of limitations increases, common sense, skepticism, study component acceptability, and understanding the ramifications of each limitation are necessary to accept, discount, or reject the author’s findings. As the number of hedging and weasel words used to explain conclusion(s) increases, believability decreases, and raises suspicion regarding claims. Establishing a systematic limitation scoring index limitations for authors, editors, reviewers, and readers and recognizing their cumulative effects will result in a clearer understanding of research content and legitimacy.
How to calculate the Limitation Index Score (LIS). See Tables 5 – 5 . Each limitation admitted to by authors in the article equals (=) one (1) point. Limitations may be generally stated by the author as a broad category, but can have multiple components, such as a retrospective study with these limitation components: 1. data or recall not accurate, 2. data missing, 3. selection bias not controlled, 4. confounders not controlled, 5. no randomization, 6. no blinding, 7. difficult to establish cause and effect, and 8. cannot draw a conclusion of causation. For each component, no matter how many are not explained and corrected, add an additional one (1) point to the score. See Table 2 .
The Limitation Scoring Index is a Numeric Limitation Risk Assessment Score to Rank Risk Categories and Discounting Probability of Validity and Conclusions. The More Limitations in a Study, the Greater the Risk of Unreliable Findings and Conclusions
Number of limitations | Word description of discounting | Proposed percent discounting of conclusions | Outcome probability | Increasing level of less reliable conclusions |
---|---|---|---|---|
0 | Unknown unknowns | 1–10% | May have valid conclusion(s) | Warning |
1–2 | Some | 15–25% | ↓ | ↓ |
3–4 | Probable | 35–45% | ↓ | Caution |
5–6 | Likely | 70–80% | ↓ | ↓ |
7–8 | Highly likely | 85–95% | ↓ | ↓ |
>8 | Certain | 97–100% | Very questionable conclusion(s) | Danger |
Limitations May Be Generally Stated by the Author but Have Multiple Components, Such as a Retrospective Study Having Disadvantage Components of 1. Data or Recall Not Accurate, 2. Data Missing, 3. Selection Bias Not Controlled, 4. Confounders Not Controlled, 5. No Randomization, 6. No Blinding, 7 Difficult to Establish Cause and Effect, 8. Results Are Hypothesis Generating, and 9. Cannot Draw a Conclusion of Causation. For Each Component, Not Explained and Corrected, Add an Additional One (1) Point Is Added to the Score. Extra Blanks Are for Additional Limitations
One point for each limitation | |
---|---|
One additional point for each component of each limitation | |
Retrospective study | |
Small sample size | |
Not generalizable | |
Selection bias | |
Not controlling for confounders | |
Not controlling for comorbidities | |
Incomplete or missing data | |
No long-term follow-up | |
Reporting errors | |
Measurement problems | |
Study design problems | |
Lack of standardized treatment | |
Subtotal for Table 2 |
An Automatic 2 Points is Added for Meta-Analysis Studies Since They Have All the Retrospective Detrimental Components. 44 Data from Insurance, State, National, Medicare, and Medicaid, Because of Incorrect Coding, Over Reporting, and Under-Reporting, Etc. Each Component of the Limitation Adds One Additional Point. For Surveys and Questionnaires Add One Additional Point for Each Bias. Extra Blanks Are for Additional Limitations
Two points for these limitations | |
---|---|
One additional point for each limitation and one additional point for each limitation component. | |
Meta-analysis | |
Data from Medicare, Medicaid, insurance companies, disease, state, and national databases | |
Surveys and questionnaires | |
Each limitation not admitted to | |
Subtotal for Table 3 |
Automatic Five (5) Points for Manufacturer and User Facility Device Experience (MAUDE) Database Articles. The FDA Access Data Site Says Submissions Can Be “Incomplete, Inaccurate, Untimely, Unverified, or Biased” and “the Incidence or Prevalence of an Event Cannot Be Determined from This Reporting System Alone Due to Under-Reporting of Events, Inaccuracies in Reports, Lack of Verification That the Device Caused the Reported Event, and Lack of Information” and “DR Data Alone Cannot Be Used to Establish Rates of Events, Evaluate a Change in Event Rates over Time or Compare Event Rates between Devices. The Number of Reports Cannot Be Interpreted or Used in Isolation to Reach Conclusions” 80
Five points for MAUDE based articles | |
---|---|
One additional point for each additional limitation and one point for each of its components. | |
Subtotal for Table 4 |
Total Limitation Index Score
Limitations | Calculation |
---|---|
Subtotal for Table 2 | |
Subtotal for Table 3 | |
Subtotal for Table 4 | |
Total Limitation Index Score |
Each limitation not admitted to = two (2) points. A meta-analysis study gets an automatic 2 points since they are retrospective and have detrimental components that should be added to the 2 points. Data from insurance, state, national, Medicare, and Medicaid, because of incorrect coding, over-reporting, and underreporting, etc., score 2 points, and each component adds one additional point. Surveys and questionnaires get 2 points, and add one additional point for each bias. See Table 3 .
Manufacturer and User Facility Device Experience (MAUDE) database articles receive an automatic five (5) points. The FDA access data site says, submissions can be “incomplete, inaccurate, untimely, unverified, or biased” and “the incidence or prevalence of an event cannot be determined from this reporting system alone due to underreporting of events, inaccuracies in reports, lack of verification that the device caused the reported event, and lack of information” and “MDR data alone cannot be used to establish rates of events, evaluate a change in event rates over time or compare event rates between devices. The number of reports cannot be interpreted or used in isolation to reach conclusions.” 80 See Table 4 . Add one additional point for each additional limitation noted in the article.
Add one additional point for each additional limitation and one point for each of its components. Extra blanks are for additional
limitations and their component scores.
Funding sources: none.
Disclosure: none.
Conflict of interests: none.
Acknowledgments: Author would like to thank Lynda Davis for her help with data collection.
All references have been archived at https://archive.org/web/
Educational resources and simple solutions for your research journey
The limitations of the study convey to the reader how and under which conditions your study results will be evaluated. Scientific research involves investigating research topics, both known and unknown, which inherently includes an element of risk. The risk could arise due to human errors, barriers to data gathering, limited availability of resources, and researcher bias. Researchers are encouraged to discuss the limitations of their research to enhance the process of research, as well as to allow readers to gain an understanding of the study’s framework and value.
Limitations of the research are the constraints placed on the ability to generalize from the results and to further describe applications to practice. It is related to the utility value of the findings based on how you initially chose to design the study, the method used to establish internal and external validity, or the result of unanticipated challenges that emerged during the study. Knowing about these limitations and their impact can explain how the limitations of your study can affect the conclusions and thoughts drawn from your research. 1
Table of Contents
Researchers are probably cautious to acknowledge what the limitations of the research can be for fear of undermining the validity of the research findings. No research can be faultless or cover all possible conditions. These limitations of your research appear probably due to constraints on methodology or research design and influence the interpretation of your research’s ultimate findings. 2 These are limitations on the generalization and usability of findings that emerge from the design of the research and/or the method employed to ensure validity internally and externally. But such limitations of the study can impact the whole study or research paper. However, most researchers prefer not to discuss the different types of limitations in research for fear of decreasing the value of their paper amongst the reviewers or readers.
Writing the limitations of the research papers is often assumed to require lots of effort. However, identifying the limitations of the study can help structure the research better. Therefore, do not underestimate the importance of research study limitations. 3
All studies have limitations to some extent. Including limitations of the study in your paper demonstrates the researchers’ comprehensive and holistic understanding of the research process and topic. The major advantages are the following:
The limitations of your research can be stated at the beginning of the discussion section, which allows the reader to comprehend the limitations of the study prior to reading the rest of your findings or at the end of the discussion section as an acknowledgment of the need for further research.
There are different types of limitations in research that researchers may encounter. These are listed below:
All possible limitations of the study cannot be included in the discussion section of the research paper or dissertation. It will vary greatly depending on the type and nature of the study. These include types of research limitations that are related to methodology and the research process and that of the researcher as well that you need to describe and discuss how they possibly impacted your results.
Limitations of research due to methodological problems are addressed by identifying the potential problem and suggesting ways in which this should have been addressed. Some potential methodological limitations of the study are as follows. 1
Limitations related to the researcher can also influence the study outcomes. These should be addressed, and related remedies should be proposed.
Limitations are an inherent part of any research study. Issues may vary, ranging from sampling and literature review to methodology and bias. However, there is a structure for identifying these elements, discussing them, and offering insight or alternatives on how the limitations of the study can be mitigated. This enhances the process of the research and helps readers gain a comprehensive understanding of a study’s conditions.
Restrict limitations to what is pertinent to the research question under investigation. The specific limitations you include will depend on the nature of the study, the research question investigated, and the data collected.
Stating the limitations of the research is considered favorable by editors and peer reviewers. Connecting your study’s limitations with future possible research can help increase the focus of unanswered questions in this area. In addition, admitting limitations openly and validating that they do not affect the main findings of the study increases the credibility of your study. However, if you determine that your study is seriously flawed, explain ways to successfully overcome such flaws in a future study. For example, if your study fails to acquire critical data, consider reframing the research question as an exploratory study to lay the groundwork for more complete research in the future.
Strategies to minimize limitations of the research should focus on convincing reviewers and readers that the limitations do not affect the conclusions of the study by showing that the methods are appropriate and that the logic is sound. Here are some steps to follow to achieve this:
Admit limitations openly and, at the same time, show how they do not affect the main conclusions of the study.
Limitations in your research can arise owing to restrictions in methodology or research design. Although this could impact your chances of publishing your research paper, it is critical to explain your study’s limitations to your intended audience. For example, it can explain how your study constraints may impact the results and views generated from your investigation. It also shows that you have researched the flaws of your study and have a thorough understanding of the subject.
The limitations of a study give you an opportunity to offer suggestions for further research. Your study’s limitations, including problems experienced during the study and the additional study perspectives developed, are a great opportunity to take on a new challenge and help advance knowledge in a particular field.
References:
R Discovery is a literature search and research reading platform that accelerates your research discovery journey by keeping you updated on the latest, most relevant scholarly content. With 250M+ research articles sourced from trusted aggregators like CrossRef, Unpaywall, PubMed, PubMed Central, Open Alex and top publishing houses like Springer Nature, JAMA, IOP, Taylor & Francis, NEJM, BMJ, Karger, SAGE, Emerald Publishing and more, R Discovery puts a world of research at your fingertips.
Try R Discovery Prime FREE for 1 week or upgrade at just US$72 a year to access premium features that let you listen to research on the go, read in your language, collaborate with peers, auto sync with reference managers, and much more. Choose a simpler, smarter way to find and read research – Download the app and start your free 7-day trial today !
It is for sure that your research will have some limitations and it is normal. However, it is critically important for you to be striving to minimize the range of scope of limitations throughout the research process. Also, you need to provide the acknowledgement of your research limitations in conclusions chapter honestly.
It is always better to identify and acknowledge shortcomings of your work, rather than to leave them pointed out to your by your dissertation assessor. While discussing your research limitations, don’t just provide the list and description of shortcomings of your work. It is also important for you to explain how these limitations have impacted your research findings.
Your research may have multiple limitations, but you need to discuss only those limitations that directly relate to your research problems. For example, if conducting a meta-analysis of the secondary data has not been stated as your research objective, no need to mention it as your research limitation.
Research limitations in a typical dissertation may relate to the following points:
1. Formulation of research aims and objectives . You might have formulated research aims and objectives too broadly. You can specify in which ways the formulation of research aims and objectives could be narrowed so that the level of focus of the study could be increased.
2. Implementation of data collection method . Because you do not have an extensive experience in primary data collection (otherwise you would not be reading this book), there is a great chance that the nature of implementation of data collection method is flawed.
3. Sample size. Sample size depends on the nature of the research problem. If sample size is too small, statistical tests would not be able to identify significant relationships within data set. You can state that basing your study in larger sample size could have generated more accurate results. The importance of sample size is greater in quantitative studies compared to qualitative studies.
4. Lack of previous studies in the research area . Literature review is an important part of any research, because it helps to identify the scope of works that have been done so far in research area. Literature review findings are used as the foundation for the researcher to be built upon to achieve her research objectives.
However, there may be little, if any, prior research on your topic if you have focused on the most contemporary and evolving research problem or too narrow research problem. For example, if you have chosen to explore the role of Bitcoins as the future currency, you may not be able to find tons of scholarly paper addressing the research problem, because Bitcoins are only a recent phenomenon.
5. Scope of discussions . You can include this point as a limitation of your research regardless of the choice of the research area. Because (most likely) you don’t have many years of experience of conducing researches and producing academic papers of such a large size individually, the scope and depth of discussions in your paper is compromised in many levels compared to the works of experienced scholars.
You can discuss certain points from your research limitations as the suggestion for further research at conclusions chapter of your dissertation.
My e-book, The Ultimate Guide to Writing a Dissertation in Business Studies: a step by step assistance offers practical assistance to complete a dissertation with minimum or no stress. The e-book covers all stages of writing a dissertation starting from the selection to the research area to submitting the completed version of the work within the deadline. John Dudovskiy
APA Citation Generator
MLA Citation Generator
Chicago Citation Generator
Vancouver Citation Generator
The limitations of a study are the elements of methodology or study design that impact the interpretation of your research results. The limitations essentially detail any flaws or shortcomings in your study. Study limitations can exist due to constraints on research design, methodology, materials, etc., and these factors may impact the findings of your study. However, researchers are often reluctant to discuss the limitations of their study in their papers, feeling that bringing up limitations may undermine its research value in the eyes of readers and reviewers.
In spite of the impact it might have (and perhaps because of it) you should clearly acknowledge any limitations in your research paper in order to show readers—whether journal editors, other researchers, or the general public—that you are aware of these limitations and to explain how they affect the conclusions that can be drawn from the research.
In this article, we provide some guidelines for writing about research limitations, show examples of some frequently seen study limitations, and recommend techniques for presenting this information. And after you have finished drafting and have received manuscript editing for your work, you still might want to follow this up with academic editing before submitting your work to your target journal.
Although limitations address the potential weaknesses of a study, writing about them toward the end of your paper actually strengthens your study by identifying any problems before other researchers or reviewers find them.
Furthermore, pointing out study limitations shows that you’ve considered the impact of research weakness thoroughly and have an in-depth understanding of your research topic. Since all studies face limitations, being honest and detailing these limitations will impress researchers and reviewers more than ignoring them.
Some limitations might be evident to researchers before the start of the study, while others might become clear while you are conducting the research. Whether these limitations are anticipated or not, and whether they are due to research design or to methodology, they should be clearly identified and discussed in the discussion section —the final section of your paper. Most journals now require you to include a discussion of potential limitations of your work, and many journals now ask you to place this “limitations section” at the very end of your article.
Some journals ask you to also discuss the strengths of your work in this section, and some allow you to freely choose where to include that information in your discussion section—make sure to always check the author instructions of your target journal before you finalize a manuscript and submit it for peer review .
There are several reasons why limitations of research might exist. The two main categories of limitations are those that result from the methodology and those that result from issues with the researcher(s).
Limitations of research due to methodological problems can be addressed by clearly and directly identifying the potential problem and suggesting ways in which this could have been addressed—and SHOULD be addressed in future studies. The following are some major potential methodological issues that can impact the conclusions researchers can draw from the research.
Sampling errors occur when a probability sampling method is used to select a sample, but that sample does not reflect the general population or appropriate population concerned. This results in limitations of your study known as “sample bias” or “selection bias.”
For example, if you conducted a survey to obtain your research results, your samples (participants) were asked to respond to the survey questions. However, you might have had limited ability to gain access to the appropriate type or geographic scope of participants. In this case, the people who responded to your survey questions may not truly be a random sample.
When conducting a study, it is important to have a sufficient sample size in order to draw valid conclusions. The larger the sample, the more precise your results will be. If your sample size is too small, it will be difficult to identify significant relationships in the data.
Normally, statistical tests require a larger sample size to ensure that the sample is considered representative of a population and that the statistical result can be generalized to a larger population. It is a good idea to understand how to choose an appropriate sample size before you conduct your research by using scientific calculation tools—in fact, many journals now require such estimation to be included in every manuscript that is sent out for review.
Citing and referencing prior research studies constitutes the basis of the literature review for your thesis or study, and these prior studies provide the theoretical foundations for the research question you are investigating. However, depending on the scope of your research topic, prior research studies that are relevant to your thesis might be limited.
When there is very little or no prior research on a specific topic, you may need to develop an entirely new research typology. In this case, discovering a limitation can be considered an important opportunity to identify literature gaps and to present the need for further development in the area of study.
After you complete your analysis of the research findings (in the discussion section), you might realize that the manner in which you have collected the data or the ways in which you have measured variables has limited your ability to conduct a thorough analysis of the results.
For example, you might realize that you should have addressed your survey questions from another viable perspective, or that you were not able to include an important question in the survey. In these cases, you should acknowledge the deficiency or deficiencies by stating a need for future researchers to revise their specific methods for collecting data that includes these missing elements.
Study limitations that arise from situations relating to the researcher or researchers (whether the direct fault of the individuals or not) should also be addressed and dealt with, and remedies to decrease these limitations—both hypothetically in your study, and practically in future studies—should be proposed.
If your research involved surveying certain people or organizations, you might have faced the problem of having limited access to these respondents. Due to this limited access, you might need to redesign or restructure your research in a different way. In this case, explain the reasons for limited access and be sure that your finding is still reliable and valid despite this limitation.
Just as students have deadlines to turn in their class papers, academic researchers might also have to meet deadlines for submitting a manuscript to a journal or face other time constraints related to their research (e.g., participants are only available during a certain period; funding runs out; collaborators move to a new institution). The time available to study a research problem and to measure change over time might be constrained by such practical issues. If time constraints negatively impacted your study in any way, acknowledge this impact by mentioning a need for a future study (e.g., a longitudinal study) to answer this research problem.
Researchers might hold biased views due to their cultural backgrounds or perspectives of certain phenomena, and this can affect a study’s legitimacy. Also, it is possible that researchers will have biases toward data and results that only support their hypotheses or arguments. In order to avoid these problems, the author(s) of a study should examine whether the way the research problem was stated and the data-gathering process was carried out appropriately.
When you discuss the limitations of your study, don’t simply list and describe your limitations—explain how these limitations have influenced your research findings. There might be multiple limitations in your study, but you only need to point out and explain those that directly relate to and impact how you address your research questions.
We suggest that you divide your limitations section into three steps: (1) identify the study limitations; (2) explain how they impact your study in detail; and (3) propose a direction for future studies and present alternatives. By following this sequence when discussing your study’s limitations, you will be able to clearly demonstrate your study’s weakness without undermining the quality and integrity of your research.
The first step is to identify the particular limitation(s) that affected your study. There are many possible limitations of research that can affect your study, but you don’t need to write a long review of all possible study limitations. A 200-500 word critique is an appropriate length for a research limitations section. In the beginning of this section, identify what limitations your study has faced and how important these limitations are.
You only need to identify limitations that had the greatest potential impact on: (1) the quality of your findings, and (2) your ability to answer your research question.
After identifying your research limitations, it’s time to explain the nature of the limitations and how they potentially impacted your study. For example, when you conduct quantitative research, a lack of probability sampling is an important issue that you should mention. On the other hand, when you conduct qualitative research, the inability to generalize the research findings could be an issue that deserves mention.
Explain the role these limitations played on the results and implications of the research and justify the choice you made in using this “limiting” methodology or other action in your research. Also, make sure that these limitations didn’t undermine the quality of your dissertation .
After acknowledging the limitations of the research, you need to discuss some possible ways to overcome these limitations in future studies. One way to do this is to present alternative methodologies and ways to avoid issues with, or “fill in the gaps of” the limitations of this study you have presented. Discuss both the pros and cons of these alternatives and clearly explain why researchers should choose these approaches.
Make sure you are current on approaches used by prior studies and the impacts they have had on their findings. Cite review articles or scientific bodies that have recommended these approaches and why. This might be evidence in support of the approach you chose, or it might be the reason you consider your choices to be included as limitations. This process can act as a justification for your approach and a defense of your decision to take it while acknowledging the feasibility of other approaches.
The following phrases are frequently used to introduce the limitations of the study:
For more articles on research writing and the journal submissions and publication process, visit Wordvice’s Academic Resources page.
And be sure to receive professional English editing and proofreading services , including paper editing services , for your journal manuscript before submitting it to journal editors.
Proofreading & Editing Guide
Writing the Results Section for a Research Paper
How to Write a Literature Review
Research Writing Tips: How to Draft a Powerful Discussion Section
How to Captivate Journal Readers with a Strong Introduction
Tips That Will Make Your Abstract a Success!
APA In-Text Citation Guide for Research Writing
Pearson-Stuttard, J., Kypridemos, C., Collins, B., Mozaffarian, D., Huang, Y., Bandosz, P.,…Micha, R. (2018). Estimating the health and economic effects of the proposed US Food and Drug Administration voluntary sodium reformulation: Microsimulation cost-effectiveness analysis. PLOS. https://journals.plos.org/plosmedicine/article?id=10.1371/journal.pmed.1002551
Xu, W.L, Pedersen, N.L., Keller, L., Kalpouzos, G., Wang, H.X., Graff, C,. Fratiglioni, L. (2015). HHEX_23 AA Genotype Exacerbates Effect of Diabetes on Dementia and Alzheimer Disease: A Population-Based Longitudinal Study. PLOS. Retrieved from https://journals.plos.org/plosmedicine/article?id=10.1371/journal.pmed.1001853
During the process of writing your thesis or dissertation, you might suddenly realize that your research has inherent flaws. Don’t worry! Virtually all projects contain restrictions to your research. However, being able to recognize and accurately describe these problems is the difference between a true researcher and a grade-school kid with a science-fair project. Concerns with truthful responding, access to participants, and survey instruments are just a few of examples of restrictions on your research. In the following sections, the differences among delimitations, limitations, and assumptions of a dissertation will be clarified.
Delimitations are the definitions you set as the boundaries of your own thesis or dissertation, so delimitations are in your control. Delimitations are set so that your goals do not become impossibly large to complete. Examples of delimitations include objectives, research questions, variables, theoretical objectives that you have adopted, and populations chosen as targets to study. When you are stating your delimitations, clearly inform readers why you chose this course of study. The answer might simply be that you were curious about the topic and/or wanted to improve standards of a professional field by revealing certain findings. In any case, you should clearly list the other options available and the reasons why you did not choose these options immediately after you list your delimitations. You might have avoided these options for reasons of practicality, interest, or relativity to the study at hand. For example, you might have only studied Hispanic mothers because they have the highest rate of obese babies. Delimitations are often strongly related to your theory and research questions. If you were researching whether there are different parenting styles between unmarried Asian, Caucasian, African American, and Hispanic women, then a delimitation of your study would be the inclusion of only participants with those demographics and the exclusion of participants from other demographics such as men, married women, and all other ethnicities of single women (inclusion and exclusion criteria). A further delimitation might be that you only included closed-ended Likert scale responses in the survey, rather than including additional open-ended responses, which might make some people more willing to take and complete your survey. Remember that delimitations are not good or bad. They are simply a detailed description of the scope of interest for your study as it relates to the research design. Don’t forget to describe the philosophical framework you used throughout your study, which also delimits your study.
Limitations of a dissertation are potential weaknesses in your study that are mostly out of your control, given limited funding, choice of research design, statistical model constraints, or other factors. In addition, a limitation is a restriction on your study that cannot be reasonably dismissed and can affect your design and results. Do not worry about limitations because limitations affect virtually all research projects, as well as most things in life. Even when you are going to your favorite restaurant, you are limited by the menu choices. If you went to a restaurant that had a menu that you were craving, you might not receive the service, price, or location that makes you enjoy your favorite restaurant. If you studied participants’ responses to a survey, you might be limited in your abilities to gain the exact type or geographic scope of participants you wanted. The people whom you managed to get to take your survey may not truly be a random sample, which is also a limitation. If you used a common test for data findings, your results are limited by the reliability of the test. If your study was limited to a certain amount of time, your results are affected by the operations of society during that time period (e.g., economy, social trends). It is important for you to remember that limitations of a dissertation are often not something that can be solved by the researcher. Also, remember that whatever limits you also limits other researchers, whether they are the largest medical research companies or consumer habits corporations. Certain kinds of limitations are often associated with the analytical approach you take in your research, too. For example, some qualitative methods like heuristics or phenomenology do not lend themselves well to replicability. Also, most of the commonly used quantitative statistical models can only determine correlation, but not causation.
Assumptions are things that are accepted as true, or at least plausible, by researchers and peers who will read your dissertation or thesis. In other words, any scholar reading your paper will assume that certain aspects of your study is true given your population, statistical test, research design, or other delimitations. For example, if you tell your friend that your favorite restaurant is an Italian place, your friend will assume that you don’t go there for the sushi. It’s assumed that you go there to eat Italian food. Because most assumptions are not discussed in-text, assumptions that are discussed in-text are discussed in the context of the limitations of your study, which is typically in the discussion section. This is important, because both assumptions and limitations affect the inferences you can draw from your study. One of the more common assumptions made in survey research is the assumption of honesty and truthful responses. However, for certain sensitive questions this assumption may be more difficult to accept, in which case it would be described as a limitation of the study. For example, asking people to report their criminal behavior in a survey may not be as reliable as asking people to report their eating habits. It is important to remember that your limitations and assumptions should not contradict one another. For instance, if you state that generalizability is a limitation of your study given that your sample was limited to one city in the United States, then you should not claim generalizability to the United States population as an assumption of your study. Statistical models in quantitative research designs are accompanied with assumptions as well, some more strict than others. These assumptions generally refer to the characteristics of the data, such as distributions, correlational trends, and variable type, just to name a few. Violating these assumptions can lead to drastically invalid results, though this often depends on sample size and other considerations.
Click here to cancel reply.
You must be logged in to post a comment.
Copyright © 2024 PhDStudent.com. All rights reserved. Designed by Divergent Web Solutions, LLC .
Chris Drew (PhD)
Dr. Chris Drew is the founder of the Helpful Professor. He holds a PhD in education and has published over 20 articles in scholarly journals. He is the former editor of the Journal of Learning Development in Higher Education. [Image Descriptor: Photo of Chris]
Learn about our Editorial Process
Research limitations refer to the potential weaknesses inherent in a study. All studies have limitations of some sort, meaning declaring limitations doesn’t necessarily need to be a bad thing, so long as your declaration of limitations is well thought-out and explained.
Rarely is a study perfect. Researchers have to make trade-offs when developing their studies, which are often based upon practical considerations such as time and monetary constraints, weighing the breadth of participants against the depth of insight, and choosing one methodology or another.
In research, studies can have limitations such as limited scope, researcher subjectivity, and lack of available research tools.
Acknowledging the limitations of your study should be seen as a strength. It demonstrates your willingness for transparency, humility, and submission to the scientific method and can bolster the integrity of the study. It can also inform future research direction.
Typically, scholars will explore the limitations of their study in either their methodology section, their conclusion section, or both.
Qualitative and quantitative research offer different perspectives and methods in exploring phenomena, each with its own strengths and limitations. So, I’ve split the limitations examples sections into qualitative and quantitative below.
Qualitative research seeks to understand phenomena in-depth and in context. It focuses on the ‘why’ and ‘how’ questions.
It’s often used to explore new or complex issues, and it provides rich, detailed insights into participants’ experiences, behaviors, and attitudes. However, these strengths also create certain limitations, as explained below.
Qualitative research often requires the researcher to interpret subjective data. One researcher may examine a text and identify different themes or concepts as more dominant than others.
Close qualitative readings of texts are necessarily subjective – and while this may be a limitation, qualitative researchers argue this is the best way to deeply understand everything in context.
Suggested Solution and Response: To minimize subjectivity bias, you could consider cross-checking your own readings of themes and data against other scholars’ readings and interpretations. This may involve giving the raw data to a supervisor or colleague and asking them to code the data separately, then coming together to compare and contrast results.
The concept of researcher bias is related to, but slightly different from, subjectivity.
Researcher bias refers to the perspectives and opinions you bring with you when doing your research.
For example, a researcher who is explicitly of a certain philosophical or political persuasion may bring that persuasion to bear when interpreting data.
In many scholarly traditions, we will attempt to minimize researcher bias through the utilization of clear procedures that are set out in advance or through the use of statistical analysis tools.
However, in other traditions, such as in postmodern feminist research , declaration of bias is expected, and acknowledgment of bias is seen as a positive because, in those traditions, it is believed that bias cannot be eliminated from research, so instead, it is a matter of integrity to present it upfront.
Suggested Solution and Response: Acknowledge the potential for researcher bias and, depending on your theoretical framework , accept this, or identify procedures you have taken to seek a closer approximation to objectivity in your coding and analysis.
If you’re struggling to find a limitation to discuss in your own qualitative research study, then this one is for you: all qualitative research, of all persuasions and perspectives, cannot be generalized.
This is a core feature that sets qualitative data and quantitative data apart.
The point of qualitative data is to select case studies and similarly small corpora and dig deep through in-depth analysis and thick description of data.
Often, this will also mean that you have a non-randomized sample size.
While this is a positive – you’re going to get some really deep, contextualized, interesting insights – it also means that the findings may not be generalizable to a larger population that may not be representative of the small group of people in your study.
Suggested Solution and Response: Suggest future studies that take a quantitative approach to the question.
The Hawthorne effect refers to the phenomenon where research participants change their ‘observed behavior’ when they’re aware that they are being observed.
This effect was first identified by Elton Mayo who conducted studies of the effects of various factors ton workers’ productivity. He noticed that no matter what he did – turning up the lights, turning down the lights, etc. – there was an increase in worker outputs compared to prior to the study taking place.
Mayo realized that the mere act of observing the workers made them work harder – his observation was what was changing behavior.
So, if you’re looking for a potential limitation to name for your observational research study , highlight the possible impact of the Hawthorne effect (and how you could reduce your footprint or visibility in order to decrease its likelihood).
Suggested Solution and Response: Highlight ways you have attempted to reduce your footprint while in the field, and guarantee anonymity to your research participants.
Quantitative research has a great benefit in that the studies are replicable – a researcher can get a similar sample size, duplicate the variables, and re-test a study. But you can’t do that in qualitative research.
Qualitative research relies heavily on context – a specific case study or specific variables that make a certain instance worthy of analysis. As a result, it’s often difficult to re-enter the same setting with the same variables and repeat the study.
Furthermore, the individual researcher’s interpretation is more influential in qualitative research, meaning even if a new researcher enters an environment and makes observations, their observations may be different because subjectivity comes into play much more. This doesn’t make the research bad necessarily (great insights can be made in qualitative research), but it certainly does demonstrate a weakness of qualitative research.
“Limited scope” is perhaps one of the most common limitations listed by researchers – and while this is often a catch-all way of saying, “well, I’m not studying that in this study”, it’s also a valid point.
No study can explore everything related to a topic. At some point, we have to make decisions about what’s included in the study and what is excluded from the study.
So, you could say that a limitation of your study is that it doesn’t look at an extra variable or concept that’s certainly worthy of study but will have to be explored in your next project because this project has a clearly and narrowly defined goal.
Suggested Solution and Response: Be clear about what’s in and out of the study when writing your research question.
This is also a catch-all claim you can make about your research project: that you would have included more people in the study, looked at more variables, and so on. But you’ve got to submit this thing by the end of next semester! You’ve got time constraints.
And time constraints are a recognized reality in all research.
But this means you’ll need to explain how time has limited your decisions. As with “limited scope”, this may mean that you had to study a smaller group of subjects, limit the amount of time you spent in the field, and so forth.
Suggested Solution and Response: Suggest future studies that will build on your current work, possibly as a PhD project.
Qualitative research can be expensive due to the cost of transcription, the involvement of trained researchers, and potential travel for interviews or observations.
So, resource intensiveness is similar to the time constraints concept. If you don’t have the funds, you have to make decisions about which tools to use, which statistical software to employ, and how many research assistants you can dedicate to the study.
Suggested Solution and Response: Suggest future studies that will gain more funding on the back of this ‘ exploratory study ‘.
Data analysis in qualitative research often involves coding, which can be subjective and complex, especially when dealing with ambiguous or contradicting data.
After naming this as a limitation in your research, it’s important to explain how you’ve attempted to address this. Some ways to ‘limit the limitation’ include:
Suggested Solution and Response: Triangulate your coding findings with colleagues, and follow a thematic network analysis procedure.
There is always a risk in research that research participants will be unwilling or uncomfortable sharing their genuine thoughts and feelings in the study.
This is particularly true when you’re conducting research on sensitive topics, politicized topics, or topics where the participant is expressing vulnerability .
This is similar to the Hawthorne effect (aka participant bias), where participants change their behaviors in your presence; but it goes a step further, where participants actively hide their true thoughts and feelings from you.
Suggested Solution and Response: One way to manage this is to try to include a wider group of people with the expectation that there will be non-responsiveness from some participants.
Attrition refers to the process of losing research participants throughout the study.
This occurs most commonly in longitudinal studies , where a researcher must return to conduct their analysis over spaced periods of time, often over a period of years.
Things happen to people over time – they move overseas, their life experiences change, they get sick, change their minds, and even die. The more time that passes, the greater the risk of attrition.
Suggested Solution and Response: One way to manage this is to try to include a wider group of people with the expectation that there will be attrition over time.
Given the detailed nature of qualitative data , ensuring participant anonymity can be challenging.
If you have a sensitive topic in a specific case study, even anonymizing research participants sometimes isn’t enough. People might be able to induce who you’re talking about.
Sometimes, this will mean you have to exclude some interesting data that you collected from your final report. Confidentiality and anonymity come before your findings in research ethics – and this is a necessary limiting factor.
Suggested Solution and Response: Highlight the efforts you have taken to anonymize data, and accept that confidentiality and accountability place extremely important constraints on academic research.
A study that looks at a very specific phenomenon or even a specific set of cases within a phenomenon means that the pool of potential research participants can be very low.
Compile on top of this the fact that many people you approach may choose not to participate, and you could end up with a very small corpus of subjects to explore. This may limit your ability to make complete findings, even in a quantitative sense.
You may need to therefore limit your research question and objectives to something more realistic.
Suggested Solution and Response: Highlight that this is going to limit the study’s generalizability significantly.
Ethical limitations refer to the things you cannot do based on ethical concerns identified either by yourself or your institution’s ethics review board.
This might include threats to the physical or psychological well-being of your research subjects, the potential of releasing data that could harm a person’s reputation, and so on.
Furthermore, even if your study follows all expected standards of ethics, you still, as an ethical researcher, need to allow a research participant to pull out at any point in time, after which you cannot use their data, which demonstrates an overlap between ethical constraints and participant attrition.
Suggested Solution and Response: Highlight that these ethical limitations are inevitable but important to sustain the integrity of the research.
For more on Qualitative Research, Explore my Qualitative Research Guide
Quantitative research focuses on quantifiable data and statistical, mathematical, or computational techniques. It’s often used to test hypotheses, assess relationships and causality, and generalize findings across larger populations.
Quantitative research is widely respected for its ability to provide reliable, measurable, and generalizable data (if done well!). Its structured methodology has strengths over qualitative research, such as the fact it allows for replication of the study, which underpins the validity of the research.
However, this approach is not without it limitations, explained below.
Quantitative research is powerful because it allows you to measure and analyze data in a systematic and standardized way. However, one of its limitations is that it can sometimes simplify complex phenomena or situations.
In other words, it might miss the subtleties or nuances of the research subject.
For example, if you’re studying why people choose a particular diet, a quantitative study might identify factors like age, income, or health status. But it might miss other aspects, such as cultural influences or personal beliefs, that can also significantly impact dietary choices.
When writing about this limitation, you can say that your quantitative approach, while providing precise measurements and comparisons, may not capture the full complexity of your subjects of study.
Suggested Solution and Response: Suggest a follow-up case study using the same research participants in order to gain additional context and depth.
Another potential issue with quantitative research is that it often focuses on numbers and statistics at the expense of context or qualitative information.
Let’s say you’re studying the effect of classroom size on student performance. You might find that students in smaller classes generally perform better. However, this doesn’t take into account other variables, like teaching style , student motivation, or family support.
When describing this limitation, you might say, “Although our research provides important insights into the relationship between class size and student performance, it does not incorporate the impact of other potentially influential variables. Future research could benefit from a mixed-methods approach that combines quantitative analysis with qualitative insights.”
Oftentimes, experimental research takes place in controlled environments to limit the influence of outside factors.
This control is great for isolation and understanding the specific phenomenon but can limit the applicability or “external validity” of the research to real-world settings.
For example, if you conduct a lab experiment to see how sleep deprivation impacts cognitive performance, the sterile, controlled lab environment might not reflect real-world conditions where people are dealing with multiple stressors.
Therefore, when explaining the limitations of your quantitative study in your methodology section, you could state:
“While our findings provide valuable information about [topic], the controlled conditions of the experiment may not accurately represent real-world scenarios where extraneous variables will exist. As such, the direct applicability of our results to broader contexts may be limited.”
Suggested Solution and Response: Suggest future studies that will engage in real-world observational research, such as ethnographic research.
Once a quantitative study is underway, it can be challenging to make changes to it. This is because, unlike in grounded research, you’re putting in place your study in advance, and you can’t make changes part-way through.
Your study design, data collection methods, and analysis techniques need to be decided upon before you start collecting data.
For example, if you are conducting a survey on the impact of social media on teenage mental health, and halfway through, you realize that you should have included a question about their screen time, it’s generally too late to add it.
When discussing this limitation, you could write something like, “The structured nature of our quantitative approach allows for consistent data collection and analysis but also limits our flexibility to adapt and modify the research process in response to emerging insights and ideas.”
Suggested Solution and Response: Suggest future studies that will use mixed-methods or qualitative research methods to gain additional depth of insight.
Surveys are a common tool in quantitative research, but they carry risks of error.
There can be measurement errors (if a question is misunderstood), coverage errors (if some groups aren’t adequately represented), non-response errors (if certain people don’t respond), and sampling errors (if your sample isn’t representative of the population).
For instance, if you’re surveying college students about their study habits , but only daytime students respond because you conduct the survey during the day, your results will be skewed.
In discussing this limitation, you might say, “Despite our best efforts to develop a comprehensive survey, there remains a risk of survey error, including measurement, coverage, non-response, and sampling errors. These could potentially impact the reliability and generalizability of our findings.”
Suggested Solution and Response: Suggest future studies that will use other survey tools to compare and contrast results.
With quantitative research, you typically can’t ask follow-up questions or delve deeper into participants’ responses like you could in a qualitative interview.
For instance, imagine you are surveying 500 students about study habits in a questionnaire. A respondent might indicate that they study for two hours each night. You might want to follow up by asking them to elaborate on what those study sessions involve or how effective they feel their habits are.
However, quantitative research generally disallows this in the way a qualitative semi-structured interview could.
When discussing this limitation, you might write, “Given the structured nature of our survey, our ability to probe deeper into individual responses is limited. This means we may not fully understand the context or reasoning behind the responses, potentially limiting the depth of our findings.”
Suggested Solution and Response: Suggest future studies that engage in mixed-method or qualitative methodologies to address the issue from another angle.
In quantitative research, the collection of data heavily relies on instruments like questionnaires, surveys, or machines.
The limitation here is that the data you get is only as good as the instrument you’re using. If the instrument isn’t designed or calibrated well, your data can be flawed.
For instance, if you’re using a questionnaire to study customer satisfaction and the questions are vague, confusing, or biased, the responses may not accurately reflect the customers’ true feelings.
When discussing this limitation, you could say, “Our study depends on the use of questionnaires for data collection. Although we have put significant effort into designing and testing the instrument, it’s possible that inaccuracies or misunderstandings could potentially affect the validity of the data collected.”
Suggested Solution and Response: Suggest future studies that will use different instruments but examine the same variables to triangulate results.
Quantitative research can be time-consuming and resource-intensive, especially when dealing with large samples.
It often involves systematic sampling, rigorous design, and sometimes complex statistical analysis.
If resources and time are limited, it can restrict the scale of your research, the techniques you can employ, or the extent of your data analysis.
For example, you may want to conduct a nationwide survey on public opinion about a certain policy. However, due to limited resources, you might only be able to survey people in one city.
When writing about this limitation, you could say, “Given the scope of our research and the resources available, we are limited to conducting our survey within one city, which may not fully represent the nationwide public opinion. Hence, the generalizability of the results may be limited.”
Suggested Solution and Response: Suggest future studies that will have more funding or longer timeframes.
1. in your research proposal and methodology section.
In the research proposal, which will become the methodology section of your dissertation, I would recommend taking the four following steps, in order:
Overall, you’ll want to acknowledge your own limitations but also explain that the limitations don’t detract from the value of your study as it stands.
In the conclusion of your study, it is generally expected that you return to a discussion of the study’s limitations. Here, I recommend the following steps:
Overall, be clear about both your limitations and how those limitations can inform future studies.
In sum, each type of research method has its own strengths and limitations. Qualitative research excels in exploring depth, context, and complexity, while quantitative research excels in examining breadth, generalizability, and quantifiable measures. Despite their individual limitations, each method contributes unique and valuable insights, and researchers often use them together to provide a more comprehensive understanding of the phenomenon being studied.
Attride-Stirling, J. (2001). Thematic networks: an analytic tool for qualitative research. Qualitative research , 1 (3), 385-405. ( Source )
Atkinson, P., Delamont, S., Cernat, A., Sakshaug, J., & Williams, R. A. (2021). SAGE research methods foundations . London: Sage Publications.
Clark, T., Foster, L., Bryman, A., & Sloan, L. (2021). Bryman’s social research methods . Oxford: Oxford University Press.
Köhler, T., Smith, A., & Bhakoo, V. (2022). Templates in qualitative research methods: Origins, limitations, and new directions. Organizational Research Methods , 25 (2), 183-210. ( Source )
Lenger, A. (2019). The rejection of qualitative research methods in economics. Journal of Economic Issues , 53 (4), 946-965. ( Source )
Taherdoost, H. (2022). What are different research approaches? Comprehensive review of qualitative, quantitative, and mixed method research, their applications, types, and limitations. Journal of Management Science & Engineering Research , 5 (1), 53-63. ( Source )
Walliman, N. (2021). Research methods: The basics . New York: Routledge.
Your email address will not be published. Required fields are marked *
What are research implications, why discuss research implications, types of implications in research, how do you present research implications.
Every scientific inquiry is built on previous studies and lays the groundwork for future research. The latter is where discussion of research implications lies. Researchers are expected not only to present what their findings suggest about the phenomenon being studied but also what the findings mean in a broader context.
In this article, we'll explore the nature of research implications as a means for contextualizing the findings of qualitative research and the foundation it sets for further research.
Research implications include any kind of discussion of what a particular study means for its research field and in general terms. Researchers write implications to lay out future research studies, make research recommendations based on proposed theoretical developments, and discuss practical and technological implications that can be applied in the real world.
To put it another way, research implications are intended to answer the question "what does this research mean?". Research implications look forward and out. Once findings are presented and discussed, the researcher lays out what the findings mean in a broader context and how they could guide subsequent research.
An aspect of academic writing that's related to implications is the discussion of the study's limitations. These limitations differ from implications in that they explore already acknowledged shortcomings in a study (e.g., a small sample size, an inherent weakness in a chosen methodological approach), but these limitations can also suggest how future research could address these shortcomings. Both the implications and recommendations are often coupled with limitations in a discussion section to explain the significance of the study's contributions to scientific knowledge.
Strictly speaking, there is a fine line between limitations and implications, one that a traditional approach to the scientific method may not adequately explore. Under the scientific method, the product of any research study addresses its research questions or confirms or challenges its expected outcomes. Fulfilling just this task, however, may overlook a more important step in the research process in terms of demonstrating significance.
One of the more famous research examples can provide useful insight. Galileo's experiments with falling objects allowed him to answer questions raised by Aristotle's understanding about gravity affecting objects of different weights. Galileo had something of a hypothesis - objects should fall at the same speed regardless of weight - based on a critique of then-current scientific knowledge - Aristotle's assertion about gravity - that he wanted to test in research. By conducting different experiments using inclines and pendulums (and supposedly one involving falling objects from the Tower of Pisa), he established a new understanding about gravity and its relationship (or lack thereof) to the weight of objects.
Discussion of that experiment focused on how the findings challenged Aristotle's understanding of physics. It did not, however, pose the next logical question: Why would an object like a feather fall at a much slower rate of descent than an object like a hammer if weight was not a factor?
Galileo's experiment and other similar experiments laid the groundwork for experiments on air resistance, most famously the Apollo 15 experiment on the moon where a feather and hammer fell at the same rate in a vacuum, absent any air resistance. The limitation Galileo had at the time was the inability to create a vacuum to test any theories about gravity and air resistance. The implications of his experiments testing Aristotle's claims include the call to further research that could eventually confirm or challenge his understanding of falling objects.
In formal scientific research, particularly in academic settings where peer review is an essential component, contemporary researchers are supposed to do more than simply report their findings. They are expected to engage in critical reflection in placing their research findings in a broader context. The peer review process in research publication often assesses the quality of a research paper by its ability to detail the significance of a given research study. Without an explicit description of the implications in research, readers may not necessarily know what importance the study and its findings holds for them.
Download a free trial of our powerful analysis platform to generate critical insights from your research.
Breaking down the kinds of implications that your research findings might have will be useful in crafting a clearer and more persuasive presentation. More important than saying that the findings are compelling is arguing in what aspects the findings should prove useful.
There are different types of implications, and the type you should emphasize depends on your target audience.
When research findings present novel scientific knowledge, it should have an influence on existing theories by affirming, contradicting, or contextualizing them. This can mean the proposal of a brand new theoretical framework or developments to a existing one.
Keep in mind that, in qualitative research , researchers will often contextualize a theory rather than confirm or refute it. This means that a theory or conceptual framework that is applied to an unfamiliar context (e.g., a theory about adolescent development in a study involving graduate students) will undergo some sort of transformation due to the new analysis.
New understandings will likely develop more complex descriptions of theories as they are interpreted and re-interpreted in new contexts. The discussion of theoretical implications here requires researchers to consider how new theoretical developments might be applied to new data in future research.
More applied forums are interested in how a study's findings can be used in the real world. New developments in psychology could yield discussion of applications in psychiatry, while research in physics can lead to technological innovations in engineering and architecture. While some researchers focus on developing theory, others conduct research to generate actionable insights and tangible results for stakeholders.
Education research, for example, may present pathways to a new teaching method or assessment of learining outcomes. Theories about how students passively and actively develop expertise in subject-matter knowledge could eventually prompt scholars and practitioners to change existing pedagogies and materials that account for more novel understandings of teaching and learning.
Exploring the practical dimensions of research findings may touch on political implications such as policy recommendations, marketable technologies, or novel approaches to existing methods or processes. Discussion of implications along these lines is meant to promote further research and activity in the field to support these practical developments.
Qualitative research methods are always under constant development and innovation. Moreover, applying research methods in new contexts or for novel research inquiries can lead to unanticipated results that might cause a researcher to reflect on and iterate on their methods of data collection and analysis .
Critical reflections on research methods are not meant to assert that the study was conducted without the necessary rigor . However, rigorous and transparent researchers are expected to argue that further iterations of the research that address any methodological gaps can only bolster the persuasiveness of the findings or generate richer insights.
There are many possible avenues for implications in terms of innovating on methodology. Does the nature of your interview questions change when interviewing certain populations? Should you change certain practices when collecting data in an ethnography to establish rapport with research participants ? How does the use of technology influence the collection and analysis of data?
All of these questions are worth discussing, with the answers providing useful guidance to those who want to base their own study design on yours. As a result, it's important to devote some space in your paper or presentation to how you conducted your study and what you would do in future iterations of your study to bolster its research rigor.
Presenting research implications or writing research implications in a research paper is a matter of answering the following question: Why should scholars read or pay attention to your research? Especially in the social sciences, the potential impact of a study is not always a foregone conclusion. In other words, to make the findings as insightful and persuasive to your audience as they are to you, you need to persuade them beyond the presentation of the analysis and the insights generated.
Here are a few main principles to achieve this task. In broad terms, they focus on what the findings mean to you, what it should mean to others, and what those impacts might mean in context.
Academic research writing tends to follow a structure that narrates a study from the researcher's motivation to conduct the research to why the research's findings matter. While there's seldom a strict requirement for sections in a paper or presentation, understanding commonly used patterns in academic writing will point out where the research implications are discussed.
If you look at a typical research paper abstract in a peer-reviewed journal , for example, you might find that the last sentence or two explicitly establishes why the research is useful to motivate readers to look at the paper more deeply. In the body of the paper, this is further explained in detail towards the end of the introduction and discussion sections and in the conclusion section. These areas are where you should focus on detailing the research implications and explaining how you perceive the impact of your study.
It's essential that you use these spaces to highlight why the findings matter to you. As mentioned earlier, this impact should never be assumed to be understood. Rather, you should explain in detail how your initial motivation to conduct the research has been satisfied and how you might use what you have learned from the research in theoretical and practical terms.
Research is partly about sharing expertise and partly about understanding your audience. Scientific knowledge is generated through consensus, and the more that the researcher ensures their implications are understood by their audience, the more it will resonate in the field.
A good strategy for tailoring your research paper to a particular journal is to read its articles for the implications that are explored in the research. Applied journals will focus on more practical implications while more theoretical publications will emphasize theoretical or conceptual frameworks for other scholars to rely on. As a result, there's no need to detail every single possible implication from your study; simply describing those implications that are most relevant to your audience is often sufficient.
One of the easier ways to persuade readers of the potential implications of your research is to provide concrete examples that are simple to understand.
Think about a study that interviews children, for example, where the methodological implications dwell on establishing an emotional connection before collecting data. This might include practical considerations such as bringing toys or conducting the interview in a setting familiar to them like their classroom so they are comfortable during data collection. Explicitly detailing this example can guide scholars in useful takeaways for their research design.
Analyze your qualitative data with ease using ATLAS.ti. Start with a free trial today.
1. Read the Abstract Section
The first step in reading a scholarly article is to read the abstract or summary of the article. Abstracts are always found at the beginning of an article and provide a basic summary or roadmap to the article. The abstract also introduces the purpose of the article.
Take a few minutes to carefully read the abstract of the practice article. Note that the abstract is not formally labeled "abstract" but is called "background and aims." Any summary at the start of an article is considered the abstract.
The abstract should always be read first to make sure the article is relevant to your topic. However, reading the abstract should never replace reading the entire article as the abstract is too brief to be used to fully understand the article.
2. Read the Conclusion Section Reading the conclusion will help you understand the main points of the article and what the authors are attempting to prove.
3. Read the Introduction Section Now that you have an overview of the article from the abstract and understand the main points the authors are trying to prove from the conclusion, you will want to read the introduction.
4. Read the Results Section
Read the results section. Here are a couple of suggestions for deciphering results:
5. Read the Methods Section Reading the methods section will help you understand how the study or experiment was conducted. It is necessary for other researchers to understand the methods used so that they can replicate the study.
The methods section can also be difficult to read due to technical language used and density of the section. Try circling words, acronyms, and surveys you are unfamiliar with and look them up as those may be important to fully understand the article and may be necessary for future research.
6. Read the Discussion & Limitations Section
The discussion section is where you will find the researcher's interpretation of the results. The author should answer the article's research question. Remember, you should evaluate the data to form your own conclusions. Don't just accept the author's conclusions without looking at the data for yourself.
Often authors will include a section detailing the limits to their research and their conclusions. The limitation section will usually explain conclusions that could not be drawn from the research as well as areas that future research is needed.
7. Read Through One More Time After you have jumped around and read the different sections of the article, go back to the beginning and read the article in order. The article should be easier to read and make more sense as you will already be familiar with the main points in each section.
Why Watch This Video? You'll learn essential strategies for reading scientific or scholarly journal articles, including:
BMC Medical Education volume 24 , Article number: 925 ( 2024 ) Cite this article
15 Accesses
Metrics details
This study investigates the effectiveness of panel discussions, a specific interactive teaching technique where a group of students leads a pre-planned, topic-focused discussion with audience participation, in English for Specific Purposes (ESP) courses for international medical students. This approach aims to simulate professional conference discussions, preparing students for future academic and clinical environments where such skills are crucial. While traditional group presentations foster critical thinking and communication, a gap exists in understanding how medical students perceive the complexities of preparing for and participating in panel discussions within an ESP setting. This qualitative study investigates the perceived advantages and disadvantages of these discussions from the perspectives of both panelists (medical students) and the audience (peers). Additionally, the study explores potential improvements based on insights from ESP instructors. Utilizing a two-phase design involving reflection papers and focus group discussions, data were collected from 46 medical students and three ESP instructors. Thematic analysis revealed that panel discussions offer unique benefits compared to traditional presentations, including enhanced engagement and more dynamic skill development for both panelists and the audience. Panelists reported gains in personal and professional development, including honing critical thinking, communication, and presentation skills. The audience perceived these discussions as engaging learning experiences that fostered critical analysis and information synthesis. However, challenges such as academic workload and concerns about discussion quality were also identified. The study concludes that panel discussions, when implemented effectively, can be a valuable tool for enhancing critical thinking, communication skills, and subject matter knowledge in ESP courses for medical students. These skills are transferable and can benefit students in various academic and professional settings, including future participation in medical conferences. This research provides valuable insights for ESP instructors seeking to integrate panel discussions into their curriculum, ultimately improving student learning outcomes and preparing them for future success in professional communication.
Peer Review reports
In the field of medical education, the acquisition and application of effective communication skills are crucial for medical students in today’s global healthcare environment [ 1 ]. This necessitates not only strong English language proficiency but also the ability to present complex medical information clearly and concisely to diverse audiences.
Language courses, especially English for Specific Purposes (ESP) courses for medical students, are highly relevant in today’s globalized healthcare environment [ 2 ]. In non-English speaking countries like Iran, these courses are particularly important as they go beyond mere language instruction to include the development of critical thinking, cultural competence, and professional communication skills [ 3 ]. Proficiency in English is crucial for accessing up-to-date research, participating in international conferences, and communicating with patients and colleagues from diverse backgrounds [ 4 ]. Additionally, ESP courses help medical students understand and use medical terminologies accurately, which is essential for reading technical articles, listening to audio presentations, and giving spoken presentations [ 5 ]. In countries where English is not the primary language, ESP courses ensure that medical professionals can stay current with global advancements and collaborate effectively on an international scale [ 6 ]. Furthermore, these courses support students who may seek to practice medicine abroad, enhancing their career opportunities and professional growth [ 7 ].
Moreover, ESP courses enable medical professionals to communicate effectively with international patients, which is crucial in multicultural societies and for medical tourism, ensuring that patient care is not compromised due to language barriers [ 8 ]. Many medical textbooks, journals, and online resources are available primarily in English, and ESP courses equip medical students with the necessary language skills to access and comprehend these resources, ensuring they are well-informed about the latest medical research and practices [ 9 ].
Additionally, many medical professionals from non-English speaking countries aim to take international certification exams, such as the USMLE or PLAB, which are conducted in English, and ESP courses prepare students for these exams by familiarizing them with the medical terminology and language used in these assessments [ 10 ]. ESP courses also contribute to the professional development of medical students by improving their ability to write research papers, case reports, and other academic documents in English, which is essential for publishing in international journals and contributing to global medical knowledge [ 11 ]. In the increasingly interdisciplinary field of healthcare, collaboration with professionals from other countries is common, and ESP courses facilitate effective communication and collaboration with international colleagues, fostering innovation and the exchange of ideas [ 12 ].
With the rise of telemedicine and online medical consultations, proficiency in English is essential for non-English speaking medical professionals to provide remote healthcare services to international patients, and ESP courses prepare students for these modern medical practices [ 13 ].
Finally, ESP courses often include training on cultural competence, which is crucial for understanding and respecting the cultural backgrounds of patients and colleagues, leading to more empathetic and effective patient care and professional interactions [ 14 ]. Many ESP programs for medical students incorporate group presentations as a vital component of their curriculum, recognizing the positive impact on developing these essential skills [ 15 ].
Group projects in language courses, particularly in ESP for medical students, are highly relevant for several reasons. They provide a collaborative environment that mimics real-world professional settings, where healthcare professionals often work in multidisciplinary teams [ 16 ]. These group activities foster not only language skills but also crucial soft skills such as teamwork, leadership, and interpersonal communication, which are essential in medical practice [ 17 ].
The benefits of group projects over individual projects in language learning are significant. Hartono, Mujiyanto [ 18 ] found that group presentation tasks in ESP courses led to higher self-efficacy development compared to individual tasks. Group projects encourage peer learning, where students can learn from each other’s strengths and compensate for individual weaknesses [ 19 ]. They also provide a supportive environment that can reduce anxiety and increase willingness to communicate in the target language [ 20 ]. However, it is important to note that group projects also come with challenges, such as social loafing and unequal contribution, which need to be managed effectively [ 21 ].
Traditional lecture-based teaching methods, while valuable for knowledge acquisition, may not effectively prepare medical students for the interactive and collaborative nature of real-world healthcare settings [ 22 ]. Panel discussions (hereafter PDs), an interactive teaching technique where a group of students leads a pre-planned, topic-focused discussion with audience participation, are particularly relevant in this context. They simulate professional conference discussions and interdisciplinary team meetings, preparing students for future academic and clinical environments where such skills are crucial [ 23 ].
PDs, also known as moderated discussions or moderated panels, are a specific type of interactive format where a group of experts or stakeholders engage in a facilitated conversation on a particular topic or issue [ 22 ]. In this format, a moderator guides the discussion, encourages active participation from all panelists, and fosters a collaborative environment that promotes constructive dialogue and critical thinking [ 24 ]. The goal is to encourage audience engagement and participation, which can be achieved through various strategies such as asking open-ended questions, encouraging counterpoints and counterarguments, and providing opportunities for audience members to pose questions or share their own experiences [ 25 ]. These discussions can take place in-person or online, and can be designed to accommodate diverse audiences and settings [ 26 ].
In this study, PD is considered a speaking activity where medical students are assigned specific roles to play during the simulation, such as a physician, quality improvement specialist, policymaker, or patient advocate. By taking on these roles, students can gain a better understanding of the diverse perspectives and considerations that come into play in real-world healthcare discussions [ 23 ]. Simulating PDs within ESP courses can be a powerful tool for enhancing medical students’ learning outcomes in multiple areas. This approach improves language proficiency, academic skills, and critical thinking abilities, while also enabling students to communicate effectively with diverse stakeholders in the medical field [ 27 , 28 ].
The panel discussions in our study are grounded in the concept of authentic assessment (outlined by Villarroel, Bloxham [ 29 ]), which involves designing tasks that mirror real-life situations and problems. In the context of medical education, this approach is particularly relevant as it prepares students for the complex, multidisciplinary nature of healthcare communication. Realism can be achieved through two means: providing a realistic context that describes and delivers a frame for the problem to be solved and creating tasks that are similar to those faced in real and/or professional life [ 30 ]. In our study, the PDs provide a realistic context by simulating scenarios where medical students are required to discuss and present complex medical topics in a professional setting, mirroring the types of interactions they will encounter in their future careers.
The task of participating in PDs also involves cognitive challenge, as students are required to think critically about complex medical topics, analyze information, and communicate their findings effectively. This type of task aims to generate processes of problem-solving, application of knowledge, and decision-making that correspond to the development of cognitive and metacognitive skills [ 23 ]. For medical students, these skills are crucial in developing clinical reasoning and effective patient communication. The PDs encourage students to go beyond the textual reproduction of fragmented and low-order content and move towards understanding, establishing relationships between new ideas and previous knowledge, linking theoretical concepts with everyday experience, deriving conclusions from the analysis of data, and examining both the logic of the arguments present in the theory and its practical scope [ 24 , 25 , 27 ].
Furthermore, the evaluative judgment aspect of our study is critical in helping students develop criteria and standards about what a good performance means in medical communication. This involves students judging their own performance and regulating their own learning [ 31 ]. In the context of panel discussions, students reflect on their own work, compare it with desired standards, and seek feedback from peers and instructors. By doing so, students can develop a sense of what constitutes good performance in medical communication and what areas need improvement [ 32 ]. Boud, Lawson and Thompson [ 33 ] argue that students need to build a precise judgment about the quality of their work and calibrate these judgments in the light of evidence. This skill is particularly important for future medical professionals who will need to continually assess and improve their communication skills throughout their careers.
The theoretical framework presented above highlights the importance of authentic learning experiences in medical education. By drawing on the benefits of group work and panel discussions, university instructor-researchers aimed to provide medical students with a unique opportunity to engage with complex cases and develop their communication and collaboration skills. As noted by Suryanarayana [ 34 ], authentic learning experiences can lead to deeper learning and improved retention. Considering the advantages of group work in promoting collaborative problem-solving and language development, the instructor-researchers designed a panel discussion task that simulates real-world scenarios, where students can work together to analyze complex cases, share knowledge, and present their findings to a simulated audience.
While previous studies have highlighted the benefits of interactive learning experiences and critical thinking skills in medical education, a research gap remains in understanding how medical students perceive the relevance of PDs in ESP courses. This study aims to address this gap by investigating medical students’ perceptions of PD tasks in ESP courses and how these perceptions relate to their language proficiency, critical thinking skills, and ability to communicate effectively with diverse stakeholders in the medical field. This understanding can inform best practices in medical education, contributing to the development of more effective communication skills for future healthcare professionals worldwide [ 23 ]. The research questions guiding this study are:
What are the perceived advantages of PDs from the perspectives of panelists and the audience?
What are the perceived disadvantages of PDs from the perspectives of panelists and the audience?
How can PDs be improved for panelists and the audience based on the insights of ESP instructors?
Aim and design.
For this study, a two-phase qualitative design was employed to gain an understanding of the advantages and disadvantages of PDs from the perspectives of both student panelists and the audience (Phase 1) and to acquire an in-depth understanding of the suggested strategies provided by experts to enhance PPs for future students (Phase 2).
This study was conducted in two phases (Fig. 1 ) at Shiraz University of Medical Sciences (SUMS), Shiraz, Iran.
Participants of the study in two phases
In the first phase, the student participants were 46 non-native speakers of English and international students who studied medicine at SUMS. Their demographic characteristics can be seen in Table 1 .
These students were purposefully selected because they were the only SUMS international students who had taken the ESP (English for Specific Purposes) course. The number of international students attending SUMS is indeed limited. Each year, a different batch of international students joins the university. They progress through a sequence of English courses, starting with General English 1 and 2, followed by the ESP course, and concluding with academic writing. At the time of data collection, the students included in the study were the only international students enrolled in the ESP course. This mandatory 3-unit course is designed to enhance their language and communication skills specifically tailored to their profession. As a part of the Medicine major curriculum, this course aims to improve their English language proficiency in areas relevant to medicine, such as understanding medical terminology, comprehending original medicine texts, discussing clinical cases, and communicating with patients, colleagues, and other healthcare professionals.
Throughout the course, students engage in various interactive activities, such as group discussions, role-playing exercises, and case studies, to develop their practical communication skills. In this course, medical students receive four marks out of 20 for their oral presentations, while the remaining marks are allocated to their written midterm and final exams. From the beginning of the course, they are briefed about PDs, and they are shown two YouTube-downloaded videos about PDs at medical conferences, a popular format for discussing and sharing knowledge, research findings, and expert opinions on various medical topics.
For the second phase of the study, a specific group of participants was purposefully selected. This group consisted of three faculty members from SUMS English department who had extensive experience attending numerous conferences at national and international levels, particularly in the medical field, as well as working as translators and interpreters in medical congresses. Over the course of ten years, they also gained considerable experience in PDs. They were invited to discuss strategies helpful for medical students with PDs.
When preparing for a PD session, medical students received comprehensive guidance on understanding the roles and responsibilities of each panel member. This guidance was aimed at ensuring that each participant was well-prepared and understood their specific role in the discussion.
Moderators should play a crucial role in steering the conversation. They are responsible for ensuring that all panelists have an opportunity to contribute and that the audience is engaged effectively. Specific tasks include preparing opening remarks, introducing panelists, and crafting transition questions to facilitate smooth topic transitions. The moderators should also manage the time to ensure balanced participation and encourage active audience involvement.
Panelists are expected to be subject matter experts who bring valuable insights and opinions to the discussion. They are advised to conduct thorough research on the topic and prepare concise talking points. Panelists are encouraged to draw from their medical knowledge and relevant experiences, share evidence-based information, and engage with other panelists’ points through active listening and thoughtful responses.
The audience plays an active role in the PDs. They are encouraged to participate by asking questions, sharing relevant experiences, and contributing to the dialogue. To facilitate this, students are advised to take notes during the discussion and think of questions or comments they can contribute during the Q&A segment.
For this special course, medical students were advised to choose topics either from their ESP textbook or consider current medical trends, emerging research, and pressing issues in their field. Examples included breast cancer, COVID-19, and controversies in gene therapy. The selection process involved brainstorming sessions and consultation with the course instructor to ensure relevance and appropriateness.
To accommodate the PD sessions within the course structure, students were allowed to start their PD sessions voluntarily from the second week. However, to maintain a balance between peer-led discussions and regular course content, only one PD was held weekly. This approach enabled the ESP lecturer to deliver comprehensive content while also allowing students to engage in these interactive sessions.
A basic time structure was suggested for each PD (Fig. 2 ):
Time allocation for panel discussion stages in minutes
To ensure the smooth running of the course and maintain momentum, students were informed that they could cancel their PD session only once. In such cases, they were required to notify the lecturer and other students via the class Telegram channel to facilitate rescheduling and minimize disruptions. This provision was essential in promoting a sense of community among students and maintaining the course’s continuity.
The study utilized various tools to gather and analyze data from participants and experts, ensuring a comprehensive understanding of the research topic.
In Phase 1 of the study, 46 medical students detailed their perceptions of the advantages and disadvantages of panel discussions from dual perspectives: as panelists (presenters) and as audience members (peers).
Participants were given clear instructions and a 45-minute time frame to complete the reflection task. With approximately 80% of the international language students being native English speakers and the rest fluent in English, the researchers deemed this time allocation reasonable. The questions and instructions were straightforward, facilitating quick comprehension. It was estimated that native English speakers would need about 30 min to complete the task, while non-native speakers might require an extra 15 min for clarity and expression. This time frame aimed to allow students to respond thoughtfully without feeling rushed. Additionally, students could request more time if needed.
In phase 2 of the study, a focus group discussion was conducted with three expert participants. The purpose of the focus group was to gather insights from expert participants, specifically ESP (English for Specific Purposes) instructors, on how presentation dynamics can be improved for both panelists and the audience.
According to Colton and Covert [ 35 ], focus groups are useful for obtaining detailed input from experts. The appropriate size of a focus group is determined by the study’s scope and available resources [ 36 ]. Morgan [ 37 ] suggests that small focus groups are suitable for complex topics where specialist participants might feel frustrated if not allowed to express themselves fully.
The choice of a focus group over individual interviews was based on several factors. First, the exploratory nature of the study made focus groups ideal for interactive discussions, generating new ideas and in-depth insights [ 36 ]. Second, while focus groups usually involve larger groups, they can effectively accommodate a limited number of experts with extensive knowledge [ 37 ]. Third, the focus group format fostered a more open environment for idea exchange, allowing participants to engage dynamically [ 36 ]. Lastly, conducting a focus group was more time- and resource-efficient than scheduling three separate interviews [ 36 ].
The first phase of the study involved a thorough examination of the data related to the research inquiries using thematic analysis. This method was chosen for its effectiveness in uncovering latent patterns from a bottom-up perspective, facilitating a comprehensive understanding of complex educational phenomena [ 38 ]. The researchers first familiarized themselves with the data by repeatedly reviewing the reflection papers written by the medical students. Next, an initial round of coding was independently conducted to identify significant data segments and generate preliminary codes that reflected the students’ perceptions of the advantages and disadvantages of presentation dynamics PDs from both the presenter and audience viewpoints [ 38 ].
The analysis of the reflection papers began with the two researchers coding a subset of five papers independently, adhering to a structured qualitative coding protocol [ 39 ]. They convened afterward to compare their initial codes and address any discrepancies. Through discussion, they reached an agreement on the codes, which were then analyzed, organized into categories and themes, and the frequency of each code was recorded [ 38 ].
After coding the initial five papers, the researchers continued to code the remaining 41 reflection paper transcripts in batches of ten, meeting after each batch to review their coding, resolve any inconsistencies, and refine the coding framework as needed. This iterative process, characterized by independent coding, joint reviews, and consensus-building, helped the researchers establish a robust and reliable coding approach consistently applied to the complete dataset [ 40 ]. Once all 46 reflection paper transcripts were coded, the researchers conducted a final review and discussion to ensure accurate analysis. They extracted relevant excerpts corresponding to the identified themes and sub-themes from the transcripts to provide detailed explanations and support for their findings [ 38 ]. This multi-step approach of separate initial coding, collaborative review, and frequency analysis enhanced the credibility and transparency of the qualitative data analysis.
To ensure the trustworthiness of the data collected in this study, the researchers adhered to the Guba and Lincoln standards of scientific accuracy in qualitative research, which encompass credibility, confirmability, dependability, and transferability [ 41 ] (Table 2 ).
The analysis of the focus group data obtained from experts followed the same rigorous procedure applied to the student participants’ data. Thematic analysis was employed to examine the experts’ perspectives, maintaining consistency in the analytical approach across both phases of the study. The researchers familiarized themselves with the focus group transcript, conducted independent preliminary coding, and then collaboratively refined the codes. These codes were subsequently organized into categories and themes, with the frequency of each code recorded. The researchers engaged in thorough discussions to ensure agreement on the final themes and sub-themes. Relevant excerpts from the focus group transcript were extracted to provide rich, detailed explanations of each theme, thereby ensuring a comprehensive and accurate analysis of the experts’ insights.
1. What are the advantages of PDs from the perspective of panelists and the audience?
The analysis of the advantages of PDs from the perspectives of both panelists and audience members revealed several key themes and categories. Tables 2 and 3 present the frequency and percentage of responses for each code within these categories.
From the panelists’ perspective (Table 3 ), the overarching theme was “Personal and Professional Development.” The most frequently reported advantage was knowledge sharing (93.5%), followed closely by increased confidence (91.3%) and the importance of interaction in presentations (91.3%).
Notably, all categories within this theme had at least one code mentioned by over 80% of participants, indicating a broad range of perceived benefits. The category of “Effective teamwork and communication” was particularly prominent, with collaboration (89.1%) and knowledge sharing (93.5%) being among the most frequently cited advantages. This suggests that PDs are perceived as valuable tools for fostering interpersonal skills and collective learning. In the “Language mastery” category, increased confidence (91.3%) and better retention of key concepts (87.0%) were highlighted, indicating that PDs are seen as effective for both language and content learning.
The audience perspective (Table 4 ), encapsulated under the theme “Enriching Learning Experience,” showed similarly high frequencies across all categories.
The most frequently mentioned advantage was exposure to diverse speakers (93.5%), closely followed by the range of topics covered (91.3%) and increased audience interest (91.3%). The “Broadening perspectives” category was particularly rich, with all codes mentioned by over 70% of participants. This suggests that audience members perceive PDs as valuable opportunities for expanding their knowledge and viewpoints. In the “Language practice” category, the opportunity to practice language skills (89.1%) was the most frequently cited advantage, indicating that even as audience members, students perceive significant language learning benefits.
Comparing the two perspectives reveals several interesting patterns:
High overall engagement: Both panelists and audience members reported high frequencies across all categories, suggesting that PDs are perceived as beneficial regardless of the role played.
Language benefits: While panelists emphasized increased confidence (91.3%) and better retention of concepts (87.0%), audience members highlighted opportunities for language practice (89.1%). This indicates that PDs offer complementary language learning benefits for both roles.
Interactive learning: The importance of interaction was highly rated by panelists (91.3%), while increased audience interest was similarly valued by the audience (91.3%). This suggests that PDs are perceived as an engaging, interactive learning method from both perspectives.
Professional development: Panelists uniquely emphasized professional growth aspects such as experiential learning (84.8%) and real-world application (80.4%). These were not directly mirrored in the audience perspective, suggesting that active participation in PDs may offer additional professional development benefits.
Broadening horizons: Both groups highly valued the diversity aspect of PDs. Panelists appreciated diversity and open-mindedness (80.4%), while audience members valued diverse speakers (93.5%) and a range of topics (91.3%).
2. What are the disadvantages of PDs from the perspective of panelists and the audience?
The analysis of the disadvantages of panel discussions (PDs) from the perspectives of both panelists and audience members revealed several key themes and categories. Tables 4 and 5 present the frequency and percentage of responses for each code within these categories.
From the panelists’ perspective (Table 5 ), the theme “Drawbacks of PDs” was divided into two main categories: “Academic Workload Challenges” and “Coordination Challenges.” The most frequently reported disadvantage was long preparation (87.0%), followed by significant practice needed (82.6%) and the time-consuming nature of PDs (80.4%). These findings suggest that the primary concern for panelists is the additional workload that PDs impose on their already demanding academic schedules. The “Coordination Challenges” category, while less prominent than workload issues, still presented significant concerns. Diverse panel skills (78.3%) and finding suitable panelists (73.9%) were the most frequently cited issues in this category, indicating that team dynamics and composition are notable challenges for panelists.
The audience perspective (Table 6 ), encapsulated under the theme “Drawbacks of PDs,” was divided into two main categories: “Time-related Issues” and “Interaction and Engagement Issues.” In the “Time-related Issues” category, the most frequently mentioned disadvantage was the inefficient use of time (65.2%), followed by the perception of PDs as too long and boring (60.9%). Notably, 56.5% of respondents found PDs stressful due to overwhelming workload from other studies, and 52.2% considered them not very useful during exam time. The “Interaction and Engagement Issues” category revealed more diverse concerns. The most frequently mentioned disadvantage was the repetitive format (82.6%), followed by limited engagement with the audience (78.3%) and the perception of PDs as boring (73.9%). The audience also noted issues related to the panelists’ preparation and coordination, such as “Not practiced and natural” (67.4%) and “Coordination and Interaction Issues” (71.7%), suggesting that the challenges faced by panelists directly impact the audience’s experience.
Workload concerns: Both panelists and audience members highlighted time-related issues. For panelists, this manifested as long preparation times (87.0%) and difficulty balancing with other studies (76.1%). For the audience, it appeared as perceptions of inefficient use of time (65.2%) and stress due to overwhelming workload from other studies (56.5%).
Engagement issues: While panelists focused on preparation and coordination challenges, the audience emphasized the quality of the discussion and engagement. This suggests a potential mismatch between the efforts of panelists and the expectations of the audience.
Boredom and repetition: The audience frequently mentioned boredom (73.9%) and repetitive format (82.6%) as issues, which weren’t directly mirrored in the panelists’ responses. This indicates that while panelists may be focused on content preparation, the audience is more concerned with the delivery and variety of the presentation format.
Coordination challenges: Both groups noted coordination issues, but from different perspectives. Panelists struggled with team dynamics and finding suitable co-presenters, while the audience observed these challenges manifesting as unnatural or unpracticed presentations.
Academic pressure: Both groups acknowledged the strain PDs put on their academic lives, with panelists viewing it as a burden (65.2%) and the audience finding it less useful during exam times (52.2%).
3. How can PDs be improved for panelists and the audience from the experts’ point of view?
The presentation of data for this research question differs from the previous two due to the unique nature of the information gathered. Unlike the quantifiable student responses in earlier questions, this data stems from expert opinions and a reflection discussion session, focusing on qualitative recommendations for improvement rather than frequency of responses (Braun & Clarke, 2006). The complexity and interconnectedness of expert suggestions, coupled with the integration of supporting literature, necessitate a more narrative approach (Creswell & Poth, 2018). This format allows for a richer exploration of the context behind each recommendation and its potential implications (Patton, 2015). Furthermore, the exploratory nature of this question, aimed at generating ideas for improvement rather than measuring prevalence of opinions, is better served by a detailed, descriptive presentation (Merriam & Tisdell, 2016). This approach enables a more nuanced understanding of how PDs can be enhanced, aligning closely with the “how” nature of the research question and providing valuable insights for potential implementation (Yin, 2018).
The experts provided several suggestions to address the challenges faced by students in panel discussions (PDs) and improve the experience for both panelists and the audience. Their recommendations focused on six key areas: time management and workload, preparation and skill development, engagement and interactivity, technological integration, collaboration and communication, and institutional support.
To address the issue of time management and heavy workload, one expert suggested teaching students to “ break down the task to tackle the time-consuming nature of panel discussions and balance it with other studies .” This approach aims to help students manage the extensive preparation time required for PDs without compromising their other academic responsibilities. Another expert emphasized “ enhancing medical students’ abilities to prioritize tasks , allocate resources efficiently , and optimize their workflow to achieve their goals effectively .” These skills were seen as crucial not only for PD preparation but also for overall academic success and future professional practice.
Recognizing the challenges of long preparation times and the perception of PDs being burdensome, an expert proposed “ the implementation of interactive training sessions for panelists .” These sessions were suggested to enhance coordination skills and improve the ability of group presenters to engage with the audience effectively. The expert emphasized that such training could help students view PDs as valuable learning experiences rather than additional burdens, potentially increasing their motivation and engagement in the process.
To combat issues of limited engagement and perceived boredom, experts recommended increasing engagement opportunities for the audience through interactive elements like audience participation and group discussions. They suggested that this could transform PDs from passive listening experiences to active learning opportunities. One expert suggested “ optimizing time management and restructuring the format of panel discussions ” to address inefficiency during sessions. This restructuring could involve shorter presentation segments interspersed with interactive elements to maintain audience attention and engagement.
An innovative solution proposed by one expert was “ using ChatGPT to prepare for PDs by streamlining scenario presentation preparation and role allocation. ” The experts collectively discussed the potential of AI to assist medical students in reducing their workload and saving time in preparing scenario presentations and allocating roles in panel discussions. They noted that AI could help generate initial content drafts, suggest role distributions based on individual strengths, and even provide practice questions for panelists, significantly reducing preparation time while maintaining quality.
Two experts emphasized the importance of enhancing collaboration and communication among panelists to address issues related to diverse panel skills and coordination challenges. They suggested establishing clear communication channels and guidelines to improve coordination and ensure a cohesive presentation. This could involve creating structured team roles, setting clear expectations for each panelist, and implementing regular check-ins during the preparation process to ensure all team members are aligned and progressing.
All experts were in agreement that improving PDs would not be possible “ if nothing is done by the university administration to reduce the ESP class size for international students .” They believed that large class sizes in ESP or EFL classes could negatively influence group oral presentations, hindering language development and leading to uneven participation. The experts suggested that smaller class sizes would allow for more individualized attention, increased speaking opportunities for each student, and more effective feedback mechanisms, all of which are crucial for developing strong presentation skills in a second language.
The results of this study reveal significant advantages of PDs for both panelists and audience members in the context of medical education. These findings align with and expand upon previous research in the field of educational presentations and language learning.
The high frequency of reported benefits in the “Personal and Professional Development” theme for panelists aligns with several previous studies. The emphasis on language mastery, particularly increased confidence (91.3%) and better retention of key concepts (87.0%), supports the findings of Hartono, Mujiyanto [ 42 ], Gedamu and Gezahegn [ 15 ], Li [ 43 ], who all highlighted the importance of language practice in English oral presentations. However, our results show a more comprehensive range of benefits, including professional growth aspects like experiential learning (84.8%) and real-world application (80.4%), which were not as prominently featured in these earlier studies.
Interestingly, our findings partially contrast with Chou [ 44 ] study, which found that while group oral presentations had the greatest influence on improving students’ speaking ability, individual presentations led to more frequent use of metacognitive, retrieval, and rehearsal strategies. Our results suggest that PDs, despite being group activities, still provide significant benefits in these areas, possibly due to the collaborative nature of preparation and the individual responsibility each panelist bears. The high frequency of knowledge sharing (93.5%) and collaboration (89.1%) in our study supports Harris, Jones and Huffman [ 45 ] emphasis on the importance of group dynamics and varied perspectives in educational settings. However, our study provides more quantitative evidence for these benefits in the specific context of PDs.
The audience perspective in our study reveals a rich learning experience, with high frequencies across all categories. This aligns with Agustina [ 46 ] findings in business English classes, where presentations led to improvements in all four language skills. However, our study extends these findings by demonstrating that even passive participation as an audience member can lead to significant perceived benefits in language practice (89.1%) and broadening perspectives (93.5% for diverse speakers). The high value placed on diverse speakers (93.5%) and range of topics (91.3%) by the audience supports the notion of PDs as a tool for expanding knowledge and viewpoints. This aligns with the concept of situated learning experiences leading to deeper understanding in EFL classes, as suggested by Li [ 43 ] and others [ 18 , 31 ]. However, our study provides more specific evidence for how this occurs in the context of PDs.
Both panelists and audience members in our study highly valued the interactive aspects of PDs, with the importance of interaction rated at 91.3% by panelists and increased audience interest at 91.3% by the audience. This strong emphasis on interactivity aligns with Azizi and Farid Khafaga [ 19 ] study on the benefits of dynamic assessment and dialogic learning contexts. However, our study provides more detailed insights into how this interactivity is perceived and valued by both presenters and audience members in PDs.
The emphasis on professional growth through PDs, particularly for panelists, supports Li’s [ 43 ] assertion about the power of oral presentations as situated learning experiences. Our findings provide more specific evidence for how PDs contribute to professional development, with high frequencies reported for experiential learning (84.8%) and real-world application (80.4%). This suggests that PDs may be particularly effective in bridging the gap between academic learning and professional practice in medical education.
Academic workload challenges for panelists.
The high frequency of reported challenges in the “Academic Workload Challenges” category for panelists aligns with several previous studies in medical education [ 47 , 48 , 49 ]. The emphasis on long preparation (87.0%), significant practice needed (82.6%), and the time-consuming nature of PDs (80.4%) supports the findings of Johnson et al. [ 24 ], who noted that while learners appreciate debate-style journal clubs in health professional education, they require additional time commitment. This is further corroborated by Nowak, Speed and Vuk [ 50 ], who found that intensive learning activities in medical education, while beneficial, can be time-consuming for students.
While a significant portion of the audience (65.2%) perceived PDs as an inefficient use of time, the high frequency of engagement-related concerns (82.6% for repetitive format, 78.3% for limited engagement) suggests that the perceived lack of value may be more closely tied to the quality of the experience rather than just the time investment. This aligns with Dyhrberg O’Neill [ 27 ] findings on debate-based oral exams, where students perceived value despite the time-intensive nature of the activity. However, our results indicate a more pronounced concern about the return on time investment in PDs. This discrepancy might be addressed through innovative approaches to PD design and implementation, such as those proposed by Almazyad et al. [ 22 ], who suggested using AI tools to enhance expert panel discussions and potentially improve efficiency.
The challenges related to coordination in medical education, such as diverse panel skills (78.3%) and finding suitable panelists (73.9%), align with previous research on teamwork in higher education [ 21 ]. Our findings support the concept of the free-rider effect discussed by Hall and Buzwell [ 21 ], who explored reasons for non-contribution in group projects beyond social loafing. This is further elaborated by Mehmood, Memon and Ali [ 51 ], who proposed that individuals may not contribute their fair share due to various factors including poor communication skills or language barriers, which is particularly relevant in medical education where clear communication is crucial [ 52 ]. Comparing our results to other collaborative learning contexts in medical education, Rodríguez-Sedano, Conde and Fernández-Llamas [ 53 ] measured teamwork competence development in a multidisciplinary project-based learning environment. They found that while teamwork skills improved over time, initial coordination challenges were significant. This aligns with our findings on the difficulties of coordinating diverse panel skills and opinions in medical education settings.
Our results also resonate with Chou’s [ 44 ] study comparing group and individual oral presentations, which found that group presenters often had a limited understanding of the overall content. This is supported by Wilson, Ho and Brookes [ 54 ], who examined student perceptions of teamwork in undergraduate science degrees, highlighting the challenges and benefits of collaborative work, which are equally applicable in medical education [ 52 ].
The audience perspective in our study reveals significant concerns about the quality and engagement of PDs in medical education. The high frequency of issues such as repetitive format (82.6%) and limited engagement with the audience (78.3%) aligns with Parmar and Bickmore [ 55 ] findings on the importance of addressing individual audience members and gathering feedback. This is further supported by Nurakhir et al. [ 25 ], who explored students’ views on classroom debates as a strategy to enhance critical thinking and oral communication skills in nursing education, which shares similarities with medical education. Comparing our results to other interactive learning methods in medical education, Jones et al. [ 26 ] reviewed the use of journal clubs and book clubs in pharmacy education. They found that while these methods enhanced engagement, they also faced challenges in maintaining student interest over time, similar to the boredom issues reported in our study of PDs in medical education. The perception of PDs as boring (73.9%) and not very useful during exam time (52.2%) supports previous research on the stress and pressure experienced by medical students [ 48 , 49 ]. Grieve et al. [ 20 ] specifically examined student fears of oral presentations and public speaking in higher education, which provides context for the anxiety and disengagement observed in our study of medical education. Interestingly, Bhuvaneshwari et al. [ 23 ] found positive impacts of panel discussions in educating medical students on specific modules. This contrasts with our findings and suggests that the effectiveness of PDs in medical education may vary depending on the specific context and implementation.
Our study provides a unique comparative analysis of the challenges faced by both panelists and audience members in medical education. The alignment of concerns around workload and time management between the two groups suggests that these are overarching issues in the implementation of PDs in medical curricula. This is consistent with the findings of Pasandín et al. [ 56 ], who examined cooperative oral presentations in higher education and their impact on both technical and soft skills, which are crucial in medical education [ 52 ]. The mismatch between panelist efforts and audience expectations revealed in our study is a novel finding that warrants further investigation in medical education. This disparity could be related to the self-efficacy beliefs of presenters, as explored by Gedamu and Gezahegn [ 15 ] in their study of TEFL trainees’ attitudes towards academic oral presentations, which may have parallels in medical education. Looking forward, innovative approaches could address some of the challenges identified in medical education. Almazyad et al. [ 22 ] proposed using AI tools like ChatGPT to enhance expert panel discussions in pediatric palliative care, which could potentially address some of the preparation and engagement issues identified in our study of medical education. Additionally, Ragupathi and Lee [ 57 ] discussed the role of rubrics in higher education, which could provide clearer expectations and feedback for both panelists and audience members in PDs within medical education.
The expert suggestions for improving PDs address several key challenges identified in previous research on academic presentations and student workload management. These recommendations align with current trends in educational technology and pedagogical approaches, while also considering the unique needs of medical students.
The emphasis on time management and workload reduction strategies echoes findings from previous studies on medical student stress and academic performance. Nowak, Speed and Vuk [ 50 ] found that medical students often struggle with the fast-paced nature of their courses, which can lead to reduced motivation and superficial learning approaches. The experts’ suggestions for task breakdown and prioritization align with Rabbi and Islam [ 58 ] recommendations for reducing workload stress through effective assignment prioritization. Additionally, Popa et al. [ 59 ] highlight the importance of acceptance and planning in stress management for medical students, supporting the experts’ focus on these areas.
The proposed implementation of interactive training sessions for panelists addresses the need for enhanced presentation skills in professional contexts, a concern highlighted by several researchers [ 17 , 60 ]. This aligns with Grieve et al. [ 20 ] findings on student fears of oral presentations and public speaking in higher education, emphasizing the need for targeted training. The focus on interactive elements and audience engagement also reflects current trends in active learning pedagogies, as demonstrated by Pasandín et al. [ 56 ] in their study on cooperative oral presentations in engineering education.
The innovative suggestion to use AI tools like ChatGPT for PD preparation represents a novel approach to leveraging technology in education. This aligns with recent research on the potential of AI in scientific research, such as the study by Almazyad et al. [ 22 ], which highlighted the benefits of AI in supporting various educational tasks. However, it is important to consider potential ethical implications and ensure that AI use complements rather than replaces critical thinking and creativity.
The experts’ emphasis on enhancing collaboration and communication among panelists addresses issues identified in previous research on teamwork in higher education. Rodríguez-Sedano, Conde and Fernández-Llamas [ 53 ] noted the importance of measuring teamwork competence development in project-based learning environments. The suggested strategies for improving coordination align with best practices in collaborative learning, as demonstrated by Romero-Yesa et al. [ 61 ] in their qualitative assessment of challenge-based learning and teamwork in electronics programs.
The unanimous agreement on the need to reduce ESP class sizes for international students reflects ongoing concerns about the impact of large classes on language learning and student engagement. This aligns with research by Li [ 3 ] on issues in developing EFL learners’ oral English communication skills. Bosco et al. [ 62 ] further highlight the challenges of teaching and learning ESP in mixed classes, supporting the experts’ recommendation for smaller class sizes. Qiao, Xu and bin Ahmad [ 63 ] also emphasize the implementation challenges for ESP formative assessment in large classes, further justifying the need for reduced class sizes.
These expert recommendations provide a comprehensive approach to improving PDs, addressing not only the immediate challenges of preparation and delivery but also broader issues of student engagement, workload management, and institutional support. By implementing these suggestions, universities could potentially transform PDs from perceived burdens into valuable learning experiences that enhance both academic and professional skills. This aligns with Kho and Ting [ 64 ] systematic review on overcoming oral presentation anxiety among tertiary ESL/EFL students, which emphasizes the importance of addressing both challenges and strategies in improving presentation skills.
This study has shed light on the complex challenges associated with PDs in medical education, revealing a nuanced interplay between the experiences of panelists and audience members. The findings underscore the need for a holistic approach to implementing PDs that addresses both the academic workload concerns and the quality of engagement.
Our findings both support and extend previous research on the challenges of oral presentations and group work in medical education settings. The high frequencies of perceived challenges across multiple categories for both panelists and audience members suggest that while PDs may offer benefits, they also present significant obstacles that need to be addressed in medical education. These results highlight the need for careful consideration in the implementation of PDs in medical education, with particular attention to workload management, coordination strategies, and audience engagement techniques. Future research could focus on developing and testing interventions to mitigate these challenges while preserving the potential benefits of PDs in medical education.
Moving forward, medical educators should consider innovative approaches to mitigate these challenges. This may include:
Integrating time management and stress coping strategies into the PD preparation process [ 59 ].
Exploring the use of AI tools to streamline preparation and enhance engagement [ 22 ].
Developing clear rubrics and expectations for both panelists and audience members [ 57 ].
Incorporating interactive elements to maintain audience interest and participation [ 25 ].
One limitation of this study is that it focused on a specific population of medical students, which may limit the generalizability of the findings to other student populations. Additionally, the study relied on self-report data from panelists and audience members, which may introduce bias and affect the validity of the results. Future research could explore the effectiveness of PDs in different educational contexts and student populations to provide a more comprehensive understanding of the benefits and challenges of panel discussions.
Future research should focus on evaluating the effectiveness of these interventions and exploring how PDs can be tailored to the unique demands of medical education. By addressing the identified challenges, PDs have the potential to become a more valuable and engaging component of medical curricula, fostering both academic and professional development. Ultimately, the goal should be to transform PDs from perceived burdens into opportunities for meaningful learning and skill development, aligning with the evolving needs of medical education in the 21st century.
Future research could also examine the long-term impact of PDs on panelists’ language skills, teamwork, and communication abilities. Additionally, exploring the effectiveness of different training methods and tools, such as AI technology, in improving coordination skills and reducing workload stress for panelists could provide valuable insights for educators and administrators. Further research could also investigate the role of class size and audience engagement in enhancing the overall effectiveness of PDs in higher education settings. By addressing these gaps in the literature, future research can contribute to the ongoing development and improvement of PDs as a valuable learning tool for students in higher education.
However, it is important to note that implementing these changes may require significant institutional resources and a shift in pedagogical approaches. Future research could focus on piloting these recommendations and evaluating their effectiveness in improving student outcomes and experiences with PDs.
We confirm that the data supporting the findings are available within this article. Raw data supporting this study’s findings are available from the corresponding author, upon request.
Artificial Intelligence
English as a Foreign Language
English for Specific Purposes
Panel Discussion
Shiraz University of Medical Sciences
Harden RM, Laidlaw JM. Essential skills for a medical teacher: an introduction to teaching and learning in medicine. Elsevier Health Sciences; 2020.
Ibrahim Mohamed O, Al Jadaan DO. English for Specific purposes (Esp) Needs Analysis for Health Sciences students: a cross-sectional study at a University in the UAE. English for Specific purposes (Esp) Needs Analysis for Health Sciences Students: A Cross-Sectional Study at a University in the UAE.
Li Y, Heron M. English for general academic purposes or English for specific purposes? Language learning needs of medical students at a Chinese university. Theory Pract Lang Stud. 2021;11(6):621–31.
Article Google Scholar
Chan SMH, Mamat NH, Nadarajah VD. Mind your language: the importance of English language skills in an International Medical Programme (IMP). BMC Med Educ. 2022;22(1):405.
Cortez Faustino BS, Ticas de Córdova CK, de la Hernández DI. Teaching English for specific purposes: contents and methodologies that could be implemented in the English for Medical purposes (EMP) course for the doctor of Medicine Major at the University of El Salvador. Universidad de El Salvador; 2022.
BENYAMINA E-Z BOUKAHLAH. Enhancing Specialty Language learning through content-based instruction: students of Paramedical Institute of Tiaret as a case study. Université IBN KHALDOUN-Tiaret; 2023.
Prikazchikov M. Medical English course for russian-speaking dentists: a needs analysis study. Iowa State University; 2024.
Kim C, Lee SY, Park S-H. Is Korea Ready to be a key player in the Medical Tourism Industry? An English Education Perspective. Iran J Public Health. 2020;49(2):267–73.
Google Scholar
Syakur A, Zainuddin H, Hasan MA. Needs analysis English for specific purposes (esp) for vocational pharmacy students. Budapest International Research and Critics in Linguistics and Education (BirLE). Journal. 2020;3(2):724–33.
Chan S, Taylor L. Comparing writing proficiency assessments used in professional medical registration: a methodology to inform policy and practice. Assess Writ. 2020;46:100493.
Hyland K, Jiang FK. Delivering relevance: the emergence of ESP as a discipline. Engl Specif Purp. 2021;64:13–25.
Maftuna B. The role of English in ESP. Am J Adv Sci Res. 2024;1(2):1–5.
LEON LI, HUMANIZING THE FOREIGN LANGUAGE. COURSE: NEW TEACHING METHODS FOR MEDICAL STUDENTS. Language, Culture and Change. 2022:243.
Dahm MR, Yates L. Rapport, empathy and professional identity: Some challenges for international medical graduates speaking English as a second or foreign language. Multilingual Healthcare: A Global View on Communicative Challenges. 2020:209 – 34.
Gedamu AD, Gezahegn TH. TEFL trainees’ attitude to and self-efficacy beliefs of academic oral presentation. Cogent Educ. 2023;10(1):2163087.
Saliu B, Hajrullai H. Best practices in the English for specific purpose classes at the language center. Procedia-Social Behav Sci. 2016;232:745–9.
Clokie TL, Fourie E. Graduate employability and communication competence: are undergraduates taught relevant skills? Bus Prof Communication Q. 2016;79(4):442–63.
Hartono H, Mujiyanto J, Fitriati SW, Sakhiyya Z, Lotfie MM, Maharani MM. English Presentation Self-Efficacy Development of Indonesian ESP students: the effects of Individual versus Group Presentation tasks. Int J Lang Educ. 2023;7(3):361–76.
Azizi Z, Farid Khafaga A. Scaffolding via Group-dynamic Assessment to positively affect motivation, learning anxiety, and willingness to Communicate: a Case Study of High School Students. J Psycholinguist Res. 2023;52(3):831–51.
Grieve R, Woodley J, Hunt SE, McKay A. Student fears of oral presentations and public speaking in higher education: a qualitative survey. J Furth High Educ. 2021;45(9):1281–93.
Hall D, Buzwell S. The problem of free-riding in group projects: looking beyond social loafing as reason for non-contribution. Act Learn High Educ. 2013;14(1):37–49.
Almazyad M, Aljofan F, Abouammoh NA, Muaygil R, Malki KH, Aljamaan F, et al. Enhancing Expert Panel discussions in Pediatric Palliative Care: innovative scenario development and summarization with ChatGPT-4. Cureus. 2023;15(4):e38249.
Bhuvaneshwari S, Rashmi R, Deepika K, Anirudh VM, Vijayamathy A, Rekha S, Kathiravan R. Impact of panel discussion in educating AETCOM First Module among Undergraduate Medical Students. Latin Am J Pharmacy: Life Sci J. 2023;42(6):407–12.
Johnson BR, Logan LD, Darley A, Stone RH, Smith SE, Osae SP, et al. A scoping review for Debate-Style Journal Clubs in Health Professional Education. Am J Pharm Educ. 2023;87(6):100064.
Nurakhir A, Palupi FN, Langeveld C, Nurmalia D. Students’ views of classroom debates as a strategy to enhance critical thinking and oral communication skills. 2020.
Jones EP, Nelson NR, Thorpe CT, Rodgers PT, Carlson RB. Use of journal clubs and book clubs in pharmacy education: a scoping review. Currents Pharm Teach Learn. 2022;14(1):110–9.
Dyhrberg O’Neill L. Assessment of student debates in support of active learning? Students’ perceptions of a debate-based oral final exam. Act Learn High Educ. 2024.
Dyment JE, O’Connell TS. Assessing the quality of reflection in student journals: a review of the research. Teach High Educ. 2011;16(1):81–97.
Villarroel V, Bloxham S, Bruna D, Bruna C, Herrera-Seda C. Authentic assessment: creating a blueprint for course design. Assess Evaluation High Educ. 2018;43(5):840–54.
Schultz M, Young K, Gunning K, Harvey T. Defining and measuring authentic assessment: a case study in the context of tertiary science. Assess Evaluation High Educ. 2022;47(1):77–94.
Sundrarajun C, Kiely R. The oral presentation as a context for learning and assessment. Innov Lang Learn Teach. 2010;4(2):101–17.
Wyatt-Smith C, Adie L. The development of students’ evaluative expertise: enabling conditions for integrating criteria into pedagogic practice. J Curriculum Stud. 2021;53(4):399–419.
Boud D, Lawson R, Thompson DG. The calibration of student judgement through self-assessment: disruptive effects of assessment patterns. High Educ Res Dev. 2015;34(1):45–59.
A. S. Enhancing Meaningful Learning experiences through Comprehension and Retention by students. Twentyfirst Century Publications Patiala. 2023;49.
Colton D, Covert RW. Designing and constructing instruments for social research and evaluation. Wiley; 2007.
Krueger RA, Casey MA. Focus group interviewing. Handbook of practical program evaluation. 2015:506 – 34.
Morgan DL. Handbook of interview research: Context and method. Oaks, CA, USA: Sage Publications Thousand; 2002.
Braun V, Clarke V. Conceptual and design thinking for thematic analysis. Qualitative Psychol. 2022;9(1):3.
Elliott V. Thinking about the coding process in qualitative data analysis. Qualitative Rep. 2018;23(11).
Syed M, Nelson SC. Guidelines for establishing reliability when coding narrative data. Emerg Adulthood. 2015;3(6):375–87.
Lincoln Y. Naturalistic inquiry: Sage; 1985.
Hartono H, Mujiyanto J, Fitriati SW, Sakhiyya Z, Lotfie MM, Maharani MM. English presentation self-efficacy development of Indonesian ESP students: the effects of Individual versus Group Presentation tasks. Int J Lang Educ. 2023;7(3).
Li X. Teaching English oral presentations as a situated task in an EFL classroom: a quasi-experimental study of the effect of video-assisted self-reflection. Revista Signos. 2018;51(98):359–81.
Chou M-h. The influence of learner strategies on oral presentations: a comparison between group and individual performance. Engl Specif Purp. 2011;30(4):272–85.
Harris A, Jones M, Huffman J. Teachers leading educational reform. The power of. 2017.
Agustina L. Stimulating students to speak up through presentation in business English class. J Appl Stud Lang. 2019;3(1):21–8.
Babal JC, Abraham O, Webber S, Watterson T, Moua P, Chen J. Student pharmacist perspectives on factors that influence wellbeing during pharmacy school. Am J Pharm Educ. 2020;84(9):ajpe7831.
Moir F, Yielder J, Sanson J, Chen Y. Depression in medical students: current insights. Adv Med Educ Pract. 2018;323:33.
Pavlinac Dodig I, Lusic Kalcina L, Demirovic S, Pecotic R, Valic M, Dogas Z. Sleep and lifestyle habits of medical and non-medical students during the COVID-19 lockdown. Behav Sci. 2023;13(5):407.
Nowak G, Speed O, Vuk J. Microlearning activities improve student comprehension of difficult concepts and performance in a biochemistry course. Currents Pharm Teach Learn. 2023;15(1):69–78.
Mehmood K, Memon S, Ali F. Language barriers to Effective Communication in speaking English: a phenomenological study of Pakistan International cricketers. Pakistan Lang Humanit Rev. 2024;8(1):107–14.
Buelow JR, Downs D, Jorgensen K, Karges JR, Nelson D. Building interdisciplinary teamwork among allied health students through live clinical case simulations. J Allied Health. 2008;37(2):e109–23.
Rodríguez-Sedano FJ, Conde M, Fernández-Llamas C, editors. Measuring teamwork competence development in a multidisciplinary project based learning environment. Learning and Collaboration Technologies Design, Development and Technological Innovation: 5th International Conference, LCT 2018, Held as Part of HCI International 2018, Las Vegas, NV, USA, July 15–20, 2018, Proceedings, Part I 5; 2018: Springer.
Wilson L, Ho S, Brookes RH. Student perceptions of teamwork within assessment tasks in undergraduate science degrees. Assess Evaluation High Educ. 2018;43(5):786–99.
Parmar D, Bickmore T. Making it personal: addressing individual audience members in oral presentations using augmented reality. Proc ACM Interact Mob Wearable Ubiquitous Technol. 2020;4(2):1–22.
Pasandín AMR, Pérez IP, Iglesias PO, Díaz JJG. Cooperative oral presentations in higher education to enhance technical and soft skills in engineering students. Int J Continuing Eng Educ Life Long Learn. 2023;33(6):592–607.
Ragupathi K, Lee A. Beyond fairness and consistency in grading: The role of rubrics in higher education. Diversity and inclusion in global higher education: Lessons from across Asia. 2020:73–95.
Rabbi MF, Islam MS. The effect of academic stress and Mental anxiety among the students of Khulna University. Edukasiana: Jurnal Inovasi Pendidikan. 2024;3(3):280–99.
Popa CO, Schenk A, Rus A, Szasz S, Suciu N, Szabo DA, Cojocaru C. The role of acceptance and planning in stress management for medical students. Acta Marisiensis-Seria Med. 2020;66(3):101–5.
Christianson M, Payne S. Helping students develop skills for better presentations: Using the 20x20 format for presentation training. 語学研究. 2012;26:1–15.
Romero-Yesa S, Fonseca D, Aláez M, Amo-Filva D. Qualitative assessment of a challenge-based learning and teamwork applied in electronics program. Heliyon. 2023;9(12).
Bosco TJ, Gabriel B, Florence M, Gilbert N. Towards effective teaching and learning ESP in mixed classes: students’ interest, challenges and remedies. Int J Engl Literature Social Sci. 2020;5(2):506–16.
Qiao L, Xu Y, bin Ahmad N, An Analysis Of Implementation Challenges For English, For Specific Purposes (Esp) Formative Assessment Via Blended Learning Mode At Chinese Vocational Polytechnics. Journal Of Digital Education, Communication, And Arts (DECA). 2023;6(02):64–76.
Kho MG-W, Ting S-H. Overcoming oral presentation anxiety: a systematic review of Tertiary ESL/EFL Students’ challenges and strategies. Qeios. 2023.
Download references
We confirm that no funding was received for this work.
Authors and affiliations.
Department of English Language, School of Paramedical Sciences, Shiraz University of Medical Sciences, Shiraz, Iran
Elham Nasiri & Laleh Khojasteh
You can also search for this author in PubMed Google Scholar
L.KH was involved in writing the proposal, reviewing the text, analyzing the data, and writing the manuscript. E. N was involvedin designing the research and collecting and analyzing the data. Both authors have reviewed and approved the final version of the manuscript.
Correspondence to Laleh Khojasteh .
Ethics approval and consent to participate.
Our study, entitled “Evaluating Panel Discussions in ESP Classes: An Exploration of International Medical Students’ and ESP Instructors’ Perspectives through Qualitative Research,” was reviewed by the Institutional Review Board (IRB) of the School of Paramedical Sciences, Shiraz University of Medical Sciences (SUMS). The IRB reviewed the study on August 14th, 2024, and determined that formal ethics approval or a reference number was not required. This decision was based on the fact that the research posed minimal risk to participants and focused solely on their educational experiences without involving any intervention or the collection of sensitive personal data.
Not Applicable.
We confirm that there are no known conflicts of interest associated with this publication and that this work did not receive any financial support.
Publisher’s note.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Open Access This article is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which permits any non-commercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if you modified the licensed material. You do not have permission under this licence to share adapted material derived from this article or parts of it. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by-nc-nd/4.0/ .
Reprints and permissions
Cite this article.
Nasiri, E., Khojasteh, L. Evaluating panel discussions in ESP classes: an exploration of international medical students’ and ESP instructors’ perspectives through qualitative research. BMC Med Educ 24 , 925 (2024). https://doi.org/10.1186/s12909-024-05911-3
Download citation
Received : 08 May 2024
Accepted : 14 August 2024
Published : 26 August 2024
DOI : https://doi.org/10.1186/s12909-024-05911-3
Anyone you share the following link with will be able to read this content:
Sorry, a shareable link is not currently available for this article.
Provided by the Springer Nature SharedIt content-sharing initiative
ISSN: 1472-6920
BMC Emergency Medicine volume 24 , Article number: 152 ( 2024 ) Cite this article
91 Accesses
1 Altmetric
Metrics details
As first responders, paramedics are an extremely important part of the care chain. COVID-19 significantly impacted their working circumstances. We examined, according to the experiences and observations of paramedics, (1) what kinds of emotions the Emergency Medical Service (EMS) personnel experienced in their new working circumstances, and (2) what work-related factors became resources for the well-being of EMS personnel during the initial months of the COVID-19 pandemic.
This qualitative study utilized reflective essay material written by experienced, advanced-level Finnish paramedics ( n = 30). The essays used in this study were written during the fall of 2020 and reflected the period when Finland had declared a state of emergency (on 17.3.2020) and the Emergency Powers Act was implemented. The data was analyzed using an inductive thematic analysis.
The emotions experienced by the EMS personnel in their new working circumstances formed three themes: (1) New concerns arose that were constantly present; (2) Surviving without proper guidance; and (3) Rapidly approaching breaking point. Three themes were formed from work-related factors that were identified as resources for the well-being of the EMS personnel. These were: (1) A high level of organizational efficiency was achieved; (2) Adaptable EMS operations; and (3) Encouraging atmosphere.
Crisis management practices should be more attentive to personnel needs, ensuring that managerial and psychological support is readily available in crisis situations. Preparedness that ensures effective organizational adaptation also supports personnel well-being during sudden changes in working circumstances.
Peer Review reports
At the onset of the COVID-19 pandemic, healthcare personnel across the globe faced unprecedented challenges. As initial responders in emergency healthcare, paramedics were quickly placed at the front lines of the pandemic, dealing with a range of emergencies in unpredictable conditions [ 1 ]. The pandemic greatly changed the everyday nature of work [ 2 , 3 , 4 , 5 , 6 , 7 , 8 , 9 , 10 ]. Those working on the front line were suddenly forced to adjust to personal protective equipment (PPE) requirements [ 9 , 10 ] and rapidly changing instructions that caused significant adjustments to their job description [ 11 , 12 ]. For instance, it has been reported that during the initial stages of the COVID-19 pandemic, Emergency Medical Services (EMS) personnel, including paramedics working in prehospital emergency care, experienced a significant increase in stress [ 10 , 13 ] due to several reasons, such as the lack of protection and support, increased demands, lack of personnel, fear of exposure to COVID-19 during missions, concerns of spreading the virus to family members, and frustration over quickly changing work policies [ 11 , 14 , 15 ].
With the unprecedented challenges posed by the COVID-19 pandemic, some research has been directed toward identifying available resources that help in coping with such situations. For example, Sangal et al. [ 15 ] underscored the association between effective communication and reduced work stress and burnout, and emphasized the critical need for two-way communication, consistent messaging, and the strategic consolidation of information prior to its dissemination. In parallel, Dickson et al. [ 16 ] highlight the pivotal role of leadership strategies in fostering a healthful work environment. These strategies include being relationally engaging, visibly present, open, and caring for oneself and others, while embodying core values such as compassion, empathy, courage, and authenticity. Moreover, Awais et al. [ 14 ] identify essential measures to reduce mental distress and support EMS personnel’s overall well-being in pandemic conditions, such as by providing accessible mental health and peer support, ensuring a transparent information flow, and the implementation of clear, best-practice protocols and guidelines. As a lesson learned from COVID-19, Kihlström et al. (2022) add that crisis communication, flexible working conditions, compensation, and allowing for mistakes should be part of crisis management. They also emphasize the importance of psychological support for employees. [ 12 ]
Overall, the COVID-19 pandemic had a multifaceted impact on EMS personnel, highlighting the necessity for comprehensive support and resilience strategies to safeguard their well-being [ 11 , 17 , 18 ] alongside organizational functions [ 12 , 19 ]. For example, in Finland, it has been noted in the aftermath of COVID-19 that the availability and well-being of healthcare workers are key vulnerabilities of the resilience of the Finnish health system [ 12 ]. Effective preparedness planning and organizational resilience benefit from learning from past events and gaining a deeper understanding of observations across different organizational levels [ 12 , 19 , 20 ]. For these reasons, it is important to study how the personnel experienced the changing working circumstances and to recognize the resources, even unexpected ones, that supported their well-being during the initial phase of the COVID-19 pandemic [ 12 , 19 ].
The aim of this study was to examine the emotions experienced and the resources identified as supportive of work well-being during the initial months of the COVID-19 pandemic, from the perspective of the paramedics. Our research questions were: According to the experiences and observations of paramedics, (1) what kinds of emotions did the EMS personnel experience in the new working circumstances, and (2) what work-related factors became resources for the well-being of EMS personnel during the initial months of the COVID-19 pandemic? In this study, emotions are understood as complex responses involving psychological, physiological, and behavioral components, triggered by significant events or situations [ 21 ]. Resources are understood as physical, psychological, social, or organizational aspects of the work that help achieve work goals, reduce demands and associated costs [ 22 ].
This qualitative study utilized reflective essay material written in the fall of 2020 by experienced, advanced-level paramedics who worked in the Finnish EMS during the early phase of the pandemic, when Finland had declared (March 17, 2020 onward) a state of emergency and implemented the Emergency Powers Act. This allowed for new rules and guidelines from the government to ensure the security of healthcare resources. Some work rules for healthcare personnel changed, and non-urgent services were limited.
This study is part of a broader, non-project-based research initiative investigating the work well-being of paramedics from various perspectives, and the data was collected for research purposes from this standpoint. The data collection for this study was conducted at the South-Eastern Finland University of Applied Sciences as part of the Current Issues in EMS Management course. The course participants were experienced, advanced-level Finnish paramedics who were students of the master’s degree program in Development and Management of Emergency Medical Services. A similar data collection method has been utilized in other qualitative studies [for example, 23 , 24 ].
The South-Eastern Finland University of Applied Sciences granted research permission for the data collection on August 20, 2020. The learning platform “Learn” (an adapted version of Moodle [ 25 ]) was used to gather the data. A research notice, privacy statement, and essay writing instructions were published on the platform on August 21, 2020. The paramedics were asked to write about their own experiences and observations regarding how the state of emergency impacted the work well-being of EMS personnel. They were instructed not to use references but only their own reflections. Three guiding questions were asked: “What kind of workloads did EMS personnel experience during the state of emergency?” “How has this workload differed from normal conditions?” and “What effects did this workload have on the well-being of the EMS personnel?”. The assignment did not refer solely to paramedics because the EMS field community may also include individuals with other titles (such as EMS field supervisors or firefighters performing prehospital emergency care); hence the term “EMS personnel” was used.
The essay was part of the mandatory course assignments, but submitting it for research purposes was voluntary. The paramedics were informed that their participation in the study would not affect their course evaluations. They had the freedom to decline, remove parts of, or withdraw the essay before analysis. None of the paramedics exercised these options. They were also informed that the last author removes any identifying details (such as names, places, and organizational descriptions that could reveal their workplace) before sharing the data with other, at the time unnamed, researchers. The last author (female) is a senior researcher specializing in EMS and work well-being topics, a principal lecturer of the respective course, and the head of the respective master’s program, and familiar to all of them through their studies. The paramedics were aware that the essays were graded by the last author on a pass/fail scale as part of the course assessment. However, comprehensive and well-reasoned reflections positively influenced the course grade. The evaluation was not part of this study. The paramedics had the opportunity to ask further questions about the study directly from the last author during and after the essay writing process and the course.
The paramedics wrote the essays between August 23, 2020, and November 30, 2020. Thirty-two paramedics (out of 39) returned their essays using the Learn platform during this timeframe. Thus, seven of the course completions were delayed, and the essays written later were no longer appropriate to include in the data due to the time elapsed since the initial months of the COVID-19 pandemic.
All 32 gave their informed consent for their essays to be included in the study. Essays written by paramedics who had not actively participated in EMS field work during exceptional circumstances were excluded from the material ( n = 2), because they wrote the essay from a different perspective, as they could not reflect on their own experiences and observations. Thus, a total of 30 essays were included in the study. The total material was 106 pages long and comprised 32,621 words in Finnish.
Thirty advanced-level paramedics from Finland participated in this study. They all had a bachelor’s degree in emergency care or nursing with additional emergency care specialization. At the time of the study, they were pursuing their master’s studies. Thirteen of them were women, and seventeen were men. The average age of the participants was 33.5 years among women and 35.9 years among men. Women had an average of 8.7 years of work experience, and men had 8.8 years. All the participating paramedics worked in EMS in different areas across Finland (except northern Finland) during their studies and the early phase of the pandemic.
The data was analyzed with a thematic analysis following the process detailed by Braun & Clarke [ 26 ]. First, the two researchers thoroughly familiarized themselves with the data, and the refined aim and research questions of the study were formulated inductively in collaboration based on the content of the data (see [ 26 ], page 84). After this, a thorough coding process was mainly carried out by the first author (female), who holds a master’s degree, is an advanced-level paramedic who worked in EMS during the pandemic, and at the time of the analysis was pursuing her doctoral studies in a different subject area related to EMS. Generating the initial codes involved making notes of interesting features of anything that stood out or seemed relevant to the research question systematically across the entire dataset. During this process, the original paragraphs and sentences were copied from the essay material into a table in Microsoft Word, with each research question in separate documents and each paragraph or sentence in its own row. The content of these data extracts was then coded in the adjacent column, carefully preserving the original content but in a more concise form. Then, the content was analyzed, and codes were combined to identify themes. After that, the authors reviewed the themes together by moving back and forth between the original material, the data in the Word documents, and the potential themes. During this process, the authors worked closely and refined the themes, allowing them to be separated and combined into new themes. For example, emotions depicting frustration and a shift to indifference formed their own theme in this kind of process. Finally, the themes were defined into main, major and minor themes and named. In the results, the main themes form the core in response to the research questions and include the most descriptions from the data. The major themes are significant but not as central as the main themes. Major themes provide additional depth and context to the results. One minor theme was formed as the analysis process progressed, and it provided valuable insights and details that deepened the response to the research question. All the coded data was utilized in the formed themes. The full content of the themes is reported in the Results section.
The emotions experienced by the EMS personnel in their new working circumstances formed three themes: New concerns arose that were constantly present (main theme); Surviving without proper guidance (major theme); and Rapidly approaching breaking point (major theme) (Fig. 1 ). Work-related factors identified as resources for the well-being of EMS personnel formed three themes: A high level of organizational efficiency was achieved (main theme); Adaptable EMS operations (major theme); and Encouraging atmosphere (minor theme) (Fig. 2 ).
Emotions experienced by the EMS personnel in their new working circumstances
The main theme included several kinds of new concerns. In the beginning, the uncertainty about the virus raised concerns about work safety and the means to prevent the spread of the disease. The initial lack of training and routines led to uncertainty. In addition, the decrease in the number of EMS missions raised fears of units being reduced and unilateral decisions by the management to change the EMS personnel’s work responsibilities. The future was also a source of uncertainty in the early stages. For example, the transition to exceptional circumstances, concerns about management and the supervisors’ familiarity with national guidelines and lack of information related to sickness absence procedures, leave, personal career progression, and even the progress of vaccine development, all contributed to this feeling of uncertainty. The initial uncertainty was described as the most challenging phase, but the uncertainty was also described as long-lasting.
Being on the front line with an unknown, potentially dangerous, and easily transmissible virus caused daily concerns about the personnel’s own health, especially when some patients hid their symptoms. The thought of working without proper PPE was frightening. On the other hand, waiting for a patient’s test result was stressful, as it often resulted in many colleagues being quarantined. A constant concern for the health of loved ones and the fear of contracting the virus and unknowingly bringing it home or transmitting it to colleagues led the EMS personnel to change their behavior by limiting contact.
Being part of a high-risk group , I often wondered , in the case of coronavirus , who would protect me and other paramedics from human vanity and selfishness [of those refusing to follow the public health guidelines]? (Participant 25)
The EMS personnel felt a weight of responsibility to act correctly, especially from the perspective of keeping their skills up to date. The proper selection of PPE and aseptic procedures were significant sources of concern, as making mistakes was feared to lead to quarantine and increase their colleagues’ workloads. At the same time, concerns about the adequacy of PPE weighed on the personnel, and they felt pressure on this matter to avoid wastage of PPEs. The variability in the quality of PPE also caused concerns.
Concerns about acting correctly were also tied to ethical considerations and feelings of inadequacy when the personnel were unable to explain to patients why COVID-19 caused restrictions on healthcare services. The presence of students also provoked such ethical concerns. Recognizing patients’ symptoms correctly also felt distressing due to the immense responsibility. This concern was also closely tied to fear and even made some question their career choices. The EMS personnel were also worried about adequate treatment for the patients and sometimes felt that the patients were left alone at home to cope. A reduction in patient numbers in the early stages of the pandemic raised concerns about whether acutely ill individuals were seeking help. At the same time, the time taken to put on PPE stressed the personnel because it increased delays in providing care. In the early phase of the pandemic, the EMS personnel were stressed that patients were not protected from them.
I’m vexed in the workplace. I felt it was immediately necessary to protect patients from us paramedics as well. It wasn’t specifically called for , mostly it felt like everyone had a strong need to protect themselves. (Participant 30)
All these concerns caused a particularly heavy psychological burden on some personnel. They described feeling more fatigued and irritable than usual. They had to familiarize themselves with new guidelines even during their free time, which was exhausting. The situation felt unjust, and there was a looming fear of the entire healthcare system collapsing. COVID-19 was omnipresent. Even at the base station of the EMS services, movement was restricted and social distancing was mandated. Such segregation, even within the professional community, added to the strain and reduced opportunities for peer support. The EMS personnel felt isolated, and thoughts about changing professions increased.
It was inevitable that the segregation of the work community would affect the community spirit , and a less able work community has a significant impact on the individual level. (Participant 8)
At the onset of the pandemic, the job description of the EMS personnel underwent changes, and employers could suddenly relocate them to other work. There was not always adequate support for familiarizing oneself with the new roles, leading to a feeling of loss of control. The management was described as commanding and restricting the personnel’s actions. As opportunities to influence one’s work diminished, the sense of job satisfaction and motivation decreased.
Some felt that leadership was inadequate and neglectful, especially when the leaders switched to remote work. The management did not take the situation seriously enough, leaving the EMS personnel feeling abandoned. The lack of consistent leadership and failure to listen to the personnel caused dissatisfaction and reduced occupational endurance. In addition, the reduced contact with colleagues and close ones reduced the amount of peer support. The existing models for psychological support were found to be inadequate.
Particularly in the early stages, guidelines were seen as ambiguous and deficient, causing frustration, irritation, and fear. The guidelines also changed constantly, even daily, and it was felt that the information did not flow properly from the management to the personnel. Changes in protection recommendations also led to skepticism about the correctness of the national guidance, and the lack of consistent guidelines perplexed the personnel. Internalizing the guidelines was not supported adequately, but the necessity to grasp new information was described as immense and cognitively demanding.
At times , it felt like the work was a kind of survival in a jungle of changing instructions , one mission at a time. (Participant 11)
Risking one’s own health at work caused contentious feelings while concurrently feeling angry that management could work remotely. The arrogant behavior of people toward COVID-19 left them frustrated, while the EMS personnel had to limit their contacts and lost their annual leave. There were fears about forced labor.
Incomplete and constantly changing guidelines caused irritation and indifference, as the same tasks had to be performed with different levels of PPE within a short time. Some guidelines were difficult to comply with in practice, which was vexing.
Using a protective mask was described as distressing, especially on long and demanding missions. Communication and operation became more difficult. Some described frustration with cleaning PPE meant for single use.
Ensuring the proper implementation of a work pair’s aseptic and equipment maintenance was burdensome, and explaining and repeating guidelines was exhausting. A feeling of indifference was emphasized toward the end of a long shift.
After the initial stage, many began to slip with the PPE guidelines and found the instructions excessive. COVID-19 information transmitted by the emergency center lost its meaning, and instructions were left unheeded, as there was no energy to believe that the patient would have COVID-19, especially if only a few disease cases had been reported in their area.
It was disheartening to hear personnel being labeled as selfish for demanding higher pay during exceptional circumstances. This lack of recognition eroded professionalism and increased thoughts of changing professions.
However , being a doormat and a human toilet , as well as a lack of appreciation , undermines my professionalism and the prolonged situation has led me to seriously consider a different job , where values other than dedication and constant flexibility carry weight. I have heard similar thoughts from other colleagues. None of us do this for money. (Participant 9)
Work-related factors identified as resources for the well-being of EMS personnel
The main theme held several different efficient functions. In the early stages of the pandemic, some felt that the information flow was active. Organizations informed the EMS personnel about the disease, its spread, and its impact on the workplace and emergency care activities.
Some felt that managers were easily accessible during the pandemic, at least remotely. Some managers worked long days to be able to support their personnel.
The response to hate and uncertainty was that one of the supervisors was always present in the morning and evening meetings. Supervisors worked long hours so as to be accessible via remote access. (Participant 26)
The organizations took effective steps to control infections. Quick access to COVID-19 tests, clear guidelines for taking sick leave, and permission to take sick leave with a low threshold were seen as positive things. The consideration of personnel belonging to risk groups by moving them to other work tasks was also perceived as positive. In addition, efforts were made to prevent the emergence of infection chains by isolating EMS personnel in their own social facilities.
Established guidelines, especially on the correct use of protective measures, made it easier to work. Some mentioned that the guidelines were available in ambulances and on phones, allowing the protection guidelines to be checked before going on a mission.
The employers took into account the need for psychological support in a diverse manner. Some organizations provided psychological support such as peer debriefing activities, talking therapy with mental health professionals, actively inquiring about their personnel’s feelings, and training them as support workers. The pandemic situation also caused organizations to create their own standard operating models to decrease mental load.
Fortunately , the problem has now been addressed actively , as a peer-to-peer defusing model was built up at our workplace during the crisis , and group defusing has started , the purpose of which is to lighten the work-related mental load. (Participant 3)
There were several different resources that clarified mission activities. The amount of protective and cleaning equipment was ramped up, and the treatment equipment was quickly updated to meet the demands brought about by the pandemic and to enable safety distances for the EMS personnel. In addition, various guidelines were amended to reduce exposure. For example, personnel on the dedicated COVID-19 ambulances were separated to work without physical contact with others, and field supervisors joined the EMS missions less often than before. Moreover, people at the scene were contacted by phone in advance to ensure that there would be no exposure risk, which also allowed other occupational safety risks to be identified. New practices resulted from the pandemic, such as cleaning communication equipment during shift changes and regularly using PPE with infected patients. All of these were seen as positive resources for efficient work.
At the end of each shift , all keys , telephones , etc., were cleaned and handed over to the next shift. This practice was not previously established in our area , but this will become a permanent practice in the future and is perceived by everyone in our work community as a positive thing. (Participant 10)
Some stated that access to PPE was sufficient, especially in areas where the number of COVID-19 infections was low. PPE was upgraded to make it easier to wear. Further, organizations acquired a variety of cleaning equipment to speed up the disinfection of ambulances.
Organizations hired more employees to enable leave and the operation of dedicated COVID-19 ambulances. The overall number of ambulances was also increased. Non-urgent missions were handled through enhanced phone services, reducing the unnecessary exposure of EMS personnel to COVID-19.
Five extra holiday substitutes were hired for EMS so that the employer could guarantee the success of agreed leave , even if the Emergency Preparedness Act had given them opportunities to cancel or postpone it. (Participant 12)
Peer support from colleagues, a positive, comfortable, pleasant work environment, and open discussion, as well as smooth cooperation with other healthcare employees were felt to be resources for work well-being by reducing the heavy workload experienced. Due to the pandemic, the appreciation of healthcare was felt to increase slightly, which was identified as a resource.
One factor affecting resilience in the healthcare sector is certainly that in exceptional circumstances , visibility and appreciation have somewhat increased. (Participant 23)
This study examined, according to the experiences and observations of paramedics, (1) what kinds of emotions the Emergency Medical Service (EMS) personnel experienced in their new working circumstances, and (2) what work-related factors became resources for the well-being of EMS personnel during the initial months of the COVID-19 pandemic. Each research question was answered with three themes.
Previous studies have shown that the pandemic increased the workload of paramedics, prompting changes in their operating models and the function of EMS to align with new pandemic-related requirements [ 9 , 27 ]. Initially, the paramedics in the current study described facing unclear and deficient guidelines and feeling obligated to follow instructions without adequate support to internalize them. Constantly changing instructions were linked to negative emotions in various ways. Moreover, the overwhelming flood of information was heavily connected to this, although the information flow was also perceived as a resource, especially when it was timely and well-structured. The study by Sangal et al. [ 15 ] has raised similar observations and points out the importance of paying special attention to the personnel working in the frontline, as in EMS, who might be more heavily impacted by too much information and anxiety about it. They also discovered that three factors are crucial for addressing the challenges of information overload and anxiety: consolidating information before distributing it, maintaining consistent communication, and ensuring communication is two-way. McAlearney et al. [ 11 ] found that first responders, including EMS personnel, reported frustration regarding COVID-19 information because of inconsistencies between sources, misinformation on social media, and the impact of politics. A Finnish study also recognized that health systems were not sufficiently prepared for the flood of information in the current media environment [ 12 ]. Based on these previous results and our findings, it can be concluded that proper implementation of crisis communication should be an integral part of organizations’ preparedness in the future, ensuring that communication effectively supports employee actions in real-life situations. Secondly, this topic highlights the need for precise guidelines and their implementation. With better preparedness, similar chaos could be avoided in the future [ 17 ].
Many other factors also caused changes in work. The EMS mission profile changed [ 3 , 4 , 5 , 6 ], where paramedics in this study saw concerns. To prevent infection risk, the number of pre-arrival calls increased [ 7 ], the duration of EMS missions increased [ 8 , 9 ], and the continuous use of PPE and enhanced hygiene standards imposed additional burdens [ 9 , 10 ]. In Finland, there was no preparedness for the levels of PPE usage required in the early stages of the pandemic [ 12 ]. In this study, paramedics described that working with potentially inadequate PPE caused fear and frustration, which was increased by a lack of training, causing them to feel a great deal of responsibility for acting aseptically and caring for patients correctly. Conversely, providing adequate PPE, information and training has been found to increase the willingness to work [ 28 ] and the sense of safety in working in a pandemic situation [ 29 ], meaning that the role of precise training, operating instructions and leadership in the use of PPE is emphasized [ 30 ].
The paramedics in this study described many additional new concerns in their work, affecting their lives comprehensively. It has been similarly described that the pandemic adversely affected the overall well-being of healthcare personnel [ 31 ]. The restrictions implemented also impacted their leisure time [ 32 ], and the virus caused concerns for their own and their families’ health [ 11 , 28 ]. In line with this, the pandemic increased stress, burnout [ 10 , 33 ], and anxiety among EMS personnel and other healthcare personnel working on the frontline [ 11 , 14 , 34 , 35 ]. These kinds of results underscore the need for adequate guidance and support, a lack of which paramedics reported experiencing in the current study.
Personnel play a crucial role in the efficient operation of an organization and comprise the main identified resource in this study. Previous studies and summaries have highlighted that EMS personnel did not receive sufficient support during the COVID-19 pandemic [ 11 , 14 , 17 , 18 ]. Research has also brought to light elements of adequate support related to the pandemic, such as a review by Dickson et al. [ 16 ] that presents six tentative theories for healthful leadership, all of which are intertwined with genuine encounter, preparedness, and information use. In this current study, the results showed numerous factors related to these contexts that were identified as resources, specifically underlined by elements of caring, effective operational change, knowledge-based actions, and present leadership, similarly described in a study by Eaton-Williams & Williams [ 18 ]. Moreover, the paramedics in our study highlighted the importance of encouragement and identified peer support from colleagues as a resource, which is in line with studies in the UK and Finland [ 12 , 23 , 37 ].
In the early stages of the pandemic, it was noted that the EMS personnel lacked adequate training to manage their mental health, and there was a significant shortage of psychosocial support measures [ 14 ], although easy access to support would have been significant [ 18 ]. In the current study, some paramedics felt that mental health support was inadequate and delayed, while others observed an increase in mental health support during the pandemic, seeing it as an incentive for organizations to develop standard operating models for mental support, for example. This awakening was identified as a resource. This is consistent, as providing psychological support to personnel has been highlighted as a core aspect of crisis management in a Finnish study assessing health system resilience related to COVID-19 [ 12 ]. In a comprehensive recommendation commentary, Isakov et al. [ 17 ] suggest developing a national strategy to improve resilience by addressing the mental health consequences of COVID-19 and other occupational stressors for EMS personnel. This concept, applicable beyond the US, supports the view that EMS organizations are becoming increasingly aware of the need to prepare for and invest in this area.
A fundamental factor likely underlying all the described emotions was that changes in the job descriptions of the EMS personnel due to the pandemic were significant and, in part, mandated from above. In this study, paramedics described feelings of concern and frustration related to these many changes and uncertainties. According to Zamoum and Gorpe (2018), efficient crisis management emphasizes the importance of respecting emotions, recognizing rights, and making appropriate decisions. Restoring trust is a significant challenge in a crisis situation, one that cannot be resolved without complete transparency and open communication [ 38 ]. This perspective is crucial to consider in planning for future preparedness. Overall, the perspective of employee rights and obligations in exceptional circumstances has been relatively under-researched, but in Australia, grounding research on this perspective has been conducted with paramedics using various approaches [ 39 , 40 , 41 ]. The researchers conclude that there is a lack of clarity about the concept of professional obligation, specifically regarding its boundaries, and the issue urgently needs to be addressed by developing clear guidelines that outline the obligation to respond, both in normal day-to-day operations and during exceptional circumstances [ 39 ].
Complex adaptive systems (CAS) theory recognizes that in a resilient organization, different levels adapt to changing environments [ 19 , 20 ]. Barasa et al. (2018) note that planned resilience and adaptive resilience are both important [ 19 ]. Kihlström et al. (2022) note that the health system’s resilience was strengthened by a certain expectation of crisis, and they also recognized further study needs on how effectively management is responding to weak signals [ 12 ]. This could be directly related to how personnel can prepare for future changes. The results of this study revealed many negative emotions related to sudden changes, but at the same time, effective organizational adaptation was identified as a resource for the well-being of EMS personnel. Dissecting different elements of system adaptation in a crisis has been recognized as a highly necessary area for further research [ 20 ]. Kihlström et al. (2022) emphasize the importance of ensuring a healthy workforce across the entire health system. These frameworks suggest numerous potential areas for future research, which would also enhance effective preparedness [ 12 ].
In this study, we utilized essay material written in the fall of 2020, in which experienced paramedics reflected on the early stages of the COVID-19 pandemic from a work-oriented perspective. The essays were approached inductively, meaning that they were not directly written to answer our research questions, but the aim and the research questions were shaped based on the content [ 26 ]. The essays included extensive descriptions that aligned well with the aim of this study. However, it is important to remember when interpreting the results that asking specifically about this topic, for instance, in an interview, might have yielded different descriptions. It can be assessed that the study achieved a tentative descriptive level, as the detailed examination of complex phenomena such as emotions and resources would require various methods and observations.
Although the essays were mostly profound, well-thought-out, and clearly written, their credibility [ 42 ] may be affected by the fact that several months had passed between the time the essays were written and the events described. Memories may have altered, potentially influencing the content of the writings. Diary-like material from the very onset of the pandemic might have yielded more precise data, and such a data collection method could be considered in future research on exceptional circumstances.
The credibility [ 42 ] could also have been enhanced if the paramedics who wrote the essays had commented on the results and provided additional perspectives on the material and analysis through a multi-phase data collection process. This was not deemed feasible in this study, mainly because there was a 2.5-year gap between data collection and the start of the analysis. However, this also strengthened the overall trustworthiness of the study, as it allowed the first author, who had worked in prehospital emergency care during the initial phase of the pandemic, to maintain a distance from the subject, and enabled a comparison of our own findings with previously published research that investigated the same period in different contexts. The comparison was made when writing the discussion, with the analysis itself being inductive and following the thematic analysis process described by Braun & Clarke [ 26 ].
When evaluating credibility [ 42 ], it should also be noted that the participants who wrote the essays, i.e., the data for the study, were experienced paramedics but also students and one of the researchers was their principal lecturer. This could potentially limit credibility if the students, for some reason, did not want to produce truthful content for their lecturer to read. However, this risk can be considered small because the essays’ topics did not concern the students’ academic progress, the essays’ content was quite consistent, and the results aligned with other studies. As a strength, it can be considered that the students shared their experiences without holding back, as the thoughts were not for workplace use, and they could trust the data privacy statement.
To enhance transferability [ 42 ], the context of the study was described in detail, highlighting the conditions prevailing in Finnish prehospital emergency care during the early stages of the pandemic. Moreover, including a diverse range of perspectives from paramedics working in different regions of Finland (except Northern Finland) contributes to the transferability of the study, indicating that the results may be applicable and relevant to a wider context beyond a single specific region.
Dependability [ 42 ] was reinforced by the close involvement of two researchers from different backgrounds in the analysis of the material, but a limitation is that no separate analyses were conducted. However, the original data was repeatedly revisited during the analysis, which strengthened the dependability. Moreover, the first author kept detailed notes throughout the analysis process, and the last author supervised the progress while also contributing to the analysis and reporting. The research process is also reported in detail.
This study highlighted numerous, mainly negative emotions experienced by EMS personnel during the initial months of the COVID-19 pandemic due to new working circumstances. At the same time, several work-related factors were identified as resources for their well-being. The findings suggest that crisis management practices should be more attentive to personnel needs, ensuring that personnel have the necessary support, both managerial and psychological, readily available in crisis situations. Effective organizational adaptation in a crisis situation also supports personnel well-being, emphasizing the importance of effective preparedness. Future research should particularly focus on considering personnel well-being as part of organizational adaptation during exceptional circumstances and utilize these findings to enhance preparedness.
The datasets generated and analyzed during the current study are not publicly available due to the inclusion of sensitive information and the extent of the informed consent provided by the participants.
Complex Adaptive Systems (theory)
Coronavirus Disease 2019
Emergency Medical Services
Personal Protective Equipment
United Kingdom
Drennan IR, Blanchard IE, Buick JE. Opportunity for change: is it time to redefine the role of paramedics in healthcare? CJEM. 2021;23(2):139–40. https://doi.org/10.1007/s43678-021-00105-y
Boechler L, Cameron C, Smith JC, Ford-Jones P, Suthers P. Impactful approaches to Leadership on the Front lines of the COVID-19 pandemic: lived experiences of Canadian paramedics. Healthc Q. 2021;24(3):42–7. https://doi.org/10.12927/hcq.2021.26620 .
Article PubMed Google Scholar
Lerner EB, Newgard CD, Mann NC. Effect of the Coronavirus Disease 2019 (COVID-19) pandemic on the U.S. Emergency Medical Services System: a preliminary Report. Acad Emerg Med. 2020;27(8):693–9. https://doi.org/10.1111/acem.14051 .
Article PubMed PubMed Central Google Scholar
O’Connor AW, Hannah HA, Burnor EA, Fukutaki KG, Peterson T, Ballard DW, et al. Emergency Medical Service Utilization and response following COVID-19 emergency and stay-at-home policies: an interrupted time-series analysis. Cureus. 2021;21(11). https://doi.org/10.7759/cureus.19794 .
Azbel M, Heinänen M, Lääperi M, Kuisma M. Effects of the COVID-19 pandemic on trauma-related emergency medical service calls: a retrospective cohort study. BMC Emerg Med. 2021;9(1):102. https://doi.org/10.1186/s12873-021-00495-3 .
Article CAS Google Scholar
Lane DJ, Blanchard IE, Buick JE, Shaw M, McRae AD. Changes in presentation, presenting severity and disposition among patients accessing emergency services during the first months of the COVID-19 pandemic in Calgary, Alberta: a descriptive study. CMAJ Open. 2021;9(2):592–601. https://doi.org/10.9778/cmajo.20200313 .
Article Google Scholar
Shukla V, Lau CSM, Towns M, Mayer J, Kalkbrenner K, Beuerlein S, et al. COVID-19 exposure among First Responders in Arizona. J Occup Environ Med. 2020;62(12):981–5. https://doi.org/10.1097/JOM.0000000000002027 .
Article CAS PubMed Google Scholar
Andrew E, Nehme Z, Stephenson M, Walker T, Smith K. The impact of the COVID-19 pandemic on demand for emergency ambulances in Victoria, Australia. Prehosp Emerg Care. 2021;16:1–7. https://doi.org/10.1080/10903127.2021.1944409 .
Eskol JR, Zegers FD, Wittrock D, Lassen AT, Mikkelsen S. Increased ambulance on-scene times but unaffected response times during the first wave of the COVID-19 pandemic in Southern Denmark. BMC Emerg Med. 2022;9(1):61. https://doi.org/10.1186/s12873-022-00623-7 .
Schumann H, Böckelmann I, Thielmann B. Relaxation and strain among emergency medical service personnel and emergency control center dispatchers during the first two waves of the SARS-CoV-2 pandemic. Med Pr. 2023;15(5):353–62. https://doi.org/10.13075/mp.5893.01401 .
McAlearney AS, Gaughan AA, MacEwan SR, Gregory ME, Rush LJ, Volney J, et al. Pandemic experience of first responders: fear, frustration, and stress. Int J Environ Res Public Health. 2022;13(8):4693. https://doi.org/10.3390/ijerph19084693 .
Kihlström L, Huhtakangas M, Karreinen S, Viita-Aho M, Keskimäki I, Tynkkynen LK. Local cooperation has been the cornerstone: facilitators and barriers to resilience in a decentralized health system during COVID-19 in Finland. J Health Organ Manag. 2022. https://doi.org/10.1108/JHOM-02-2022-0069 .
Hendrickson RC, Slevin RA, Hoerster KD, Chang BP, Sano E, McCall CA, et al. The impact of the COVID-19 pandemic on Mental Health, Occupational Functioning, and Professional Retention among Health Care workers and First Responders. J Gen Intern Med. 2022;37(2):397–408. https://doi.org/10.1007/s11606-021-07252-z .
Awais SB, Martins RS, Khan MS. Paramedics in pandemics: protecting the mental wellness of those behind enemy lines. Br J Psychiatry. 2021;218(2):75–6. https://doi.org/10.1192/bjp.2020.193 .
Sangal RB, Bray A, Reid E, Ulrich A, Liebhardt B, Venkatesh AK, et al. Leadership communication, stress, and burnout among frontline emergency department staff amid the COVID-19 pandemic: a mixed methods approach. Healthc (Amst). 2021;9(4):100577. https://doi.org/10.1016/j.hjdsi.2021.100577 .
Dickson CAW, Davies C, McCormack B, Westcott L, Merrell J, Mcilfatrick S, et al. UK nurses’ and midwives’ experiences of healthful leadership practices during the COVID-19 pandemic: a rapid realist review. J Nurs Manag. 2022;30(8):3942–57. https://doi.org/10.1111/jonm.13790 .
Isakov A, Carr M, Munjal KG, Kumar L, Gausche-Hill MEMS. Agenda 2050 meets the COVID-19 pandemic. Health Secur. 2022;20(S1):S97–106. https://doi.org/10.1089/hs.2021.0179 .
Eaton-Williams PJ, Williams J. See us as humans. Speak to us with respect. Listen to us. A qualitative study on UK ambulance staff requirements of leadership while working during the COVID-19 pandemic. BMJ Lead. 2023;7(2):102–7. https://doi.org/10.1136/leader-2022-000622 .
Barasa E, Mbau R, Gilson L. What is resilience and how can it be nurtured? A systematic review of empirical literature on Organizational Resilience. Int J Health Policy Manag. 2018;7(6):491–503. https://doi.org/10.15171/ijhpm.2018.06 .
Coetzee C, Van Niekerk D, Raju E. Disaster resilience and complex adaptive systems theory: finding common grounds for risk reduction. Disaster Prev Manage. 2016;25(2):196–211. https://doi.org/10.1108/DPM-07-2015-0153 .
American Psychological Association. Emotion. APA Dictionary of Psychology. https://dictionary.apa.org/emotion . Accessed on 26.6.2024.
Demerouti E, Bakker AB, Nachreiner F, Schaufeli WB. The job demands-resources model of burnout. J Appl Psychol. 2001;86(3):499–512.
Ericsson CR, Lindström V, Rudman A, Nordquist H. Paramedics’ perceptions of job demands and resources in Finnish emergency medical services: a qualitative study. BMC Health Serv Res. 2022;22(1):1469. https://doi.org/10.1186/s12913-022-08856-9 .
Rinkinen T, Kinnula M, Nordquist H. Technological development roles and needs in pre-hospital emergency care from the advanced level paramedics’ perspective. Int Emerg Nurs. 2024;73:101406. https://doi.org/10.1016/j.ienj.2024.101406 .
Moodle Pty Ltd. 2020. https://moodle.org/ . Accessed on date 17.6.2024.
Braun V, Clarke V. Using thematic analysis in psychology. Qual Res Psychol. 2006;3:2:77–101. https://doi.org/10.1191/1478088706qp063oa .
Prezant DJ, Lancet EA, Zeig-Owens R, Lai PH, Appel D, Webber MP, et al. System impacts of the COVID-19 pandemic on New York City’s emergency medical services. J Am Coll Emerg Physicians Open. 2020;9(6):1205–13. https://doi.org/10.1002/emp2.12301 .
Alwidyan MT, Oteir AO, Trainor J. Working during pandemic disasters: views and predictors of EMS providers. Disaster Med Public Health Prep. 2022;16(1):116–22. https://doi.org/10.1017/dmp.2020.131 .
Rebmann T, Charney RL, Loux TM, Turner JA, Abbyad YS, Silvestros M. Emergency Medical Services Personnel’s pandemic influenza training received and willingness to work during a future pandemic. Prehosp Emerg Care. 2020;24(5):601–9. https://doi.org/10.1080/10903127.2019.1701158 .
Article CAS PubMed PubMed Central Google Scholar
McCann-Pineo M, Li T, Barbara P, Levinsky B, Berkowitz J. Factors influencing Use of Personal Protective Equipment among Emergency Medical services Responders during the COVID-19 pandemic: a Retrospective Chart Review. West J Emerg Med. 2022;23(3):396–407. https://doi.org/10.5811/westjem.2022.2.55217 .
Vanhaecht K, Seys D, Bruyneel L, Cox B, Kaesemans G, Cloet M, et al. COVID-19 is having a destructive impact on health-care workers’ mental well-being. Int J Qual Health Care. 2021;20(1):mzaa158. https://doi.org/10.1093/intqhc/mzaa158 .
Zolnikov TR, Furio F. First responders and social distancing during the COVID-19 pandemic. J Hum Behav Soc Environ. 2021;31(1–4):244–53. https://doi.org/10.1080/10911359.2020.1811826 .
Spychała A, Piwowarska M, Piekut A. The COVID-19 pandemic as a stress factor in the work of a paramedic. Med Pr. 2023;8(1):9–17. https://doi.org/10.13075/mp.5893.01278 .
Roberts R, Wong A, Jenkins S, Neher A, Sutton C, O’Meara P, et al. Mental health and well-being impacts of COVID-19 on rural paramedics, police, community nurses and child protection workers. Aust J Rural Health. 2021;29(5):753–67. https://doi.org/10.1111/ajr.12804 .
Chang YT, Hu YJ. Burnout and Health issues among Prehospital Personnel in Taiwan Fire Departments during a Sudden Spike in Community COVID-19 cases: a cross-sectional study. Int J Environ Res Public Health. 2022;16(4):2257. https://doi.org/10.3390/ijerph19042257 .
Mausz J, Donnelly EA, Moll S, Harms S, McConnell M. Mental disorder symptoms and the relationship with resilience among paramedics in a single Canadian site. Int J Environ Res Public Health. 2022;17(8):4879. https://doi.org/10.3390/ijerph19084879 .
Phung VH, Sanderson K, Pritchard G, Bell F, Hird K, Wankhade P, et al. The experiences and perceptions of wellbeing provision among English ambulance services staff: a multi-method qualitative study. BMC Health Serv Res. 2022;15(1):1352. https://doi.org/10.1186/s12913-022-08729-1 .
Zamoum K, Gorpe TS. Crisis Management: a historical and conceptual Approach for a better understanding of today’s crises. Crisis Manage - Theory Pract InTech. 2018. https://doi.org/10.5772/intechopen.76198 .
Anderson C, Pooley JA, Mills B, Anderson E, Smith EC. Do paramedics have a Professional Obligation to work during a pandemic? A qualitative exploration of Community Member expectations. Disaster Med Public Health Prep. 2020;14(3):406–12. https://doi.org/10.1017/dmp.2020.212 .
Smith E, Burkle FM, Gebbie K, Ford D, Bensimon C. Acceptable limitations on Paramedic Duty to treat during disaster: a qualitative exploration. Prehosp Disaster Med. 2018;33(5):466–70. https://doi.org/10.1017/S1049023X18000857 .
Smith E, Burkle F, Gebbie K, Ford D, Bensimon C. A qualitative study of paramedic duty to treat during disaster response. Disaster Med Public Health Prep. 2019;13(2):191–6. https://doi.org/10.1017/dmp.2018.15 .
Cypress BS. Rigor or reliability and validity in qualitative research: perspectives, strategies, reconceptualization, and recommendations. Dimens Crit Care Nurs. 2017;36(4):253–63. https://doi.org/10.1097/DCC.0000000000000253 .
TENK. Guidelines for the responsible conduct of research and for handling allegations of misconduct in Finland [Internet]. Helsinki: Finnish National Board on Research Integrity TENK; 2023. https://tenk.fi/sites/default/files/2023-11/RI_Guidelines_2023.pdf . Accessed 13 Jan 2024.
TENK. Ethical review in human sciences [Internet]. Helsinki: Finnish National Board on Research Integrity TENK; 2020. https://tenk.fi/sites/default/files/2021-1/Ethical_review_in_human_sciences_2020.pdf . Accessed 13 Jan 2024.
Download references
We want to sincerely thank all the paramedics who participated in this study.
Open access funded by Helsinki University Library.
Open Access funding provided by University of Helsinki (including Helsinki University Central Hospital).
Authors and affiliations.
Faculty of Medicine, University of Helsinki, Helsinki, Finland
Henna Myrskykari
Emergency Medical Services, University of Turku and Turku University Hospital, Turku, Finland
Department of Healthcare and Emergency Care, South-Eastern Finland University of Applied Sciences, Kotka, Finland
Hilla Nordquist
You can also search for this author in PubMed Google Scholar
Study design (HM, HN). Data collection (HN). Methodology (HN). Analysis (HM, HN). Writing (HM, HN). Review and editing (HM, HN). Supervision (HN). Both authors read and approved the final manuscript.
Correspondence to Henna Myrskykari .
Ethics approval and consent to participate.
The study followed the good scientific practice defined by the Finnish National Board on Research Integrity TENK [ 43 ]. The study was conducted in accordance with the Helsinki Declaration and applicable national guidelines. Adhering to the Finnish National Board on Research Integrity (TENK) guidelines on ethical principles of research with human participants and ethical review in the human sciences in Finland, an ethical review statement from a human sciences ethics committee was not required for this type of study. The participants consisted of adult students engaged in regular employment. Their involvement in the research was grounded on informed consent. The study did not involve concerns regarding the participants’ physical integrity, nor were they subjected to exceptionally strong stimuli. The potential for causing mental harm was not beyond what is typically encountered in everyday life, and their participation did not pose any safety risks [ 44 ].
Not applicable.
The authors declare no competing interests.
Publisher’s note.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ . The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/ ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
Reprints and permissions
Cite this article.
Myrskykari, H., Nordquist, H. Paramedics’ experiences and observations: work-related emotions and well-being resources during the initial months of the COVID-19 pandemic—a qualitative study. BMC Emerg Med 24 , 152 (2024). https://doi.org/10.1186/s12873-024-01072-0
Download citation
Received : 25 April 2024
Accepted : 13 August 2024
Published : 26 August 2024
DOI : https://doi.org/10.1186/s12873-024-01072-0
Anyone you share the following link with will be able to read this content:
Sorry, a shareable link is not currently available for this article.
Provided by the Springer Nature SharedIt content-sharing initiative
ISSN: 1471-227X
Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.
You can also search for this author in PubMed Google Scholar
Taxes were particularly effective at reducing emissions associated with electricity generation in high-income countries. Credit: Andrew Aitchison/In pictures via Getty
Researchers used machine learning to analyse roughly 1,500 climate policies and identify those that have drastically reduced carbon emissions. Their study, published in Science today, found that policies that combine several tools are more effective in slashing emissions than are stand-alone measures 1 .
The analysis identified 63 interventions in 35 countries that led to significant reductions in emissions, cutting them by 19% on average. Most reductions were linked to two or more policies. Together, the 63 policies cut emissions by between 0.6 and 1.8 gigatonnes (Gt) of CO 2 equivalent.
What’s the best way to tackle climate change? An ‘evidence bank’ could help scientists find answers
Using the right mix of policies is more important than using a lot of policies, says Annika Stechemesser, a co-author and researcher at the Potsdam Institute for Climate Impact Research in Germany. For example, the United Kingdom’s phasing out of coal-fired power stations worked because it was used in tandem with pricing mechanisms, such as a minimum carbon price; in Norway, banning combustion engine cars was most effective when combined with a price incentive that made electric cars cheaper.
“To my knowledge, it is a first-of-its-kind study providing such a global evaluation,” says Jan Minx, an environmental economist with the Mercator Research Institute on Global Commons and Climate Change in Berlin.
As part of the analysis, Stechemesser and her colleagues used a database of 1,500 climate policies implemented between 1998 and 2022 in 41 countries, including the top three greenhouse gas emitters globally: China, the United States and India . The policies fell into 48 categories, ranging from emission trading schemes to fossil-fuel subsidy reforms.
“Previous evaluations have typically concentrated on a narrow set of prominent policies in selected countries, overlooking the hundreds of other measures,” Stechemesser says.
The authors combined machine learning with a statistical analytical approach to identify large emission reductions in four high-emitting sectors — buildings, electricity, industry and transport. They compared the results with policies in the database to assess which policies and policy combinations led to the biggest emission drops.
“This is a rather clever method,” says Zheng Saina, who has analysed global climate policies at Southeast University in Nanjing, China. The conventional way would have been to review the large number of policies and select the important ones, but that approach is subjective and cumbersome, she adds. “The authors instead used machine learning to detect major emissions changes. It is more objective.”
The results showed that certain policy combinations worked better in specific sectors and economies. In terms of reducing emissions associated with electricity generation, for instance, pricing interventions such as energy taxes were particularly effective in high-income countries, but less so in lower-and-middle income countries.
In the building sector, policy mixes that included phased-out and banned emissions-generating activities more than doubled the reductions resulting from implementing those policies individually.
Taxation was the only policy that achieved nearly equal or larger emission reductions as a stand-alone policy, as opposed to a policy mix, in all four sectors.
Minx says the study’s AI-enhanced approach allowed the researchers, for the first time, to evaluate the effectiveness of a large number of climate policies from a global set of emission inventories covering different countries and sectors.
For other researchers, the paper is alarming. “This study provides a warning to countries around the world that their climate policies have had very limited effects so far,” says Xu Chi, an ecologist at Nanjing University. “Existing polices will need to be re-evaluated, and changes will need to be made,” Xu adds.
The world’s annual emissions are projected to be 15 Gt of CO 2 equivalents higher by 2030 than would be required to keep global warming to less than 2 °C above pre-industrial levels, according to the United Nations.
doi: https://doi.org/10.1038/d41586-024-02717-7
Stechemesser, A. et al. Science 385 , 884–891 (2024).
Article Google Scholar
Download references
Reprints and permissions
Indian landslide tragedy demands a rethink of hazard mapping in a changing climate
Correspondence 27 AUG 24
Extreme heat is a huge killer — these local approaches can keep people safe
News 22 AUG 24
Light bulbs have energy ratings — so why can’t AI chatbots?
Comment 21 AUG 24
Inside China’s race to lead the world in nuclear fusion
News Feature 28 AUG 24
The cool technologies that could protect cities from dangerous heat
News Feature 27 AUG 24
How South Korea’s science stars are finding success
Nature Index 21 AUG 24
Urgently clarify how AI can be used in medicine under new EU law
Local politicians have opened up Europe’s largest marine reserve for commercial fishing
AI firms must play fair when they use academic data in training
Editorial 27 AUG 24
Faculty positions in molecular agrobiology, including plant (crop) molecular biology, crop genomics and agrobiotechnology and etc.
Beijing, China
School of Advanced Agricultural Sciences, Peking University
Seeking an innovative and collaborative scientist or engineer to build a globally recognized, interdisciplinary research program.
Boulder, Colorado
University of Colorado Boulder BioFrontiers Institute
Full Professor, Associate Professor, Assistant Professor
Suzhou, Jiangsu, China
Suzhou Institute of Systems Medicine (ISM)
The Division of Hematology at Washington University in St. Louis invites applications from outstanding candidates with a Ph.D. and/or M.D. degree f...
Saint Louis, Missouri
Washingon University School of Medicine - Division of Hematology
About the role: Do you want to change the world for the better, and do you believe this can be done through research and education? If so, grab you...
South Kensington, London (Greater) (GB)
Imperial College London (ICL)
Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.
Journal of Hematology & Oncology volume 17 , Article number: 72 ( 2024 ) Cite this article
193 Accesses
Metrics details
The emergence of spatial multi-omics has helped address the limitations of single-cell sequencing, which often leads to the loss of spatial context among cell populations. Integrated analysis of the genome, transcriptome, proteome, metabolome, and epigenome has enhanced our understanding of cell biology and the molecular basis of human diseases. Moreover, this approach offers profound insights into the interactions between intracellular and intercellular molecular mechanisms involved in the development, physiology, and pathogenesis of human diseases. In this comprehensive review, we examine current advancements in multi-omics technologies, focusing on their evolution and refinement over the past decade, including improvements in throughput and resolution, modality integration, and accuracy. We also discuss the pivotal contributions of spatial multi-omics in revealing spatial heterogeneity, constructing detailed spatial atlases, deciphering spatial crosstalk in tumor immunology, and advancing translational research and cancer therapy through precise spatial mapping.
Single-cell sequencing has been instrumental in providing detailed insights into gene expression at the individual cell level for decades. This technique has revealed the complexity of cellular diversity, exacerbated by processes such as cell proliferation, differentiation, and death, particularly in relation to the local and distant environment of the cell [ 1 ]. Single-cell sequencing can detect cellular heterogeneity, enabling detailed analysis of individual cell behavior, mechanisms, and relationships. The high resolution of these methods has allowed for the extensive exploration and characterization of cell diversity on a large scale. However, despite these advantages, single-cell sequencing often fails to retain critical spatial information about cell populations, resulting in the loss of crucial spatial context [ 1 , 2 ].
To overcome this limitation, spatial multi-omics has emerged as a transformative technology, enabling the precise localization of cells within tissues and the quantitative measurement of gene expression in situ. This advancement marks an important technological breakthrough in life sciences and biomedicine, with wide-ranging applications in neuroscience, developmental biology, and cancer research [ 3 ]. Furthermore, spatial multi-omics allows researchers to investigate the development of multicellular organisms from single totipotent cells, as well as their function, aging, and disease progression. High-throughput multi-omics technologies, such as genomics, epigenomics, transcriptomics, proteomics, and metabolomics, have also facilitated the mapping of diverse molecular layers, significantly broadening the scope of biological analysis and our understanding of complex biological systems. In the current review, we trace the developmental timeline of spatial multi-omics technologies, highlighting their evolution and substantial contributions to modern science. Furthermore, we discuss the current state of these technologies, their integration into research, and their significant applicative value in enhancing our understanding of biological complexity.
Spatial mono-omics, such as spatial transcriptomics, was recognized as the “Technology of the Year 2020” by Nature Methods magazine [ 4 ] (Fig. 1 ). Although single-cell sequencing technology has provided valuable insights into cellular heterogeneity, it lacks spatial context. Spatial multi-omics overcomes this limitation by enabling the precise localization and molecular characterization of individual cells within their tissue environments [ 5 ]. The innovation in spatial multi-omics builds upon foundational spatial mono-omics methods. In this section, we introduce key spatial mono-omics techniques (Table 1 ) and discuss their pivotal role in advancing the field of spatial multi-omics.
Timeline of spatial multi-omics. Transcriptomics, genomics, proteomics, metabolomics, and epigenomics are included. In addition to the frequently used techniques, some emerging methods are mentioned
Spatial transcriptomics has significantly enhanced our understanding of cellular organization and intra-tissue interactions based on the systematic measurement of gene expression levels across tissue space. Recent advancements in spatial transcriptomics sequencing have focused on increasing the number of detectable genes or proteins, enhancing sensitivity and resolution, simplifying operation, and expanding the size of the analyzed area. Spatial transcriptomics has been used in various fields, including cancer research [ 6 ], developmental biology [ 7 ], and disease studies [ 8 ]. Fundamentally, spatial transcriptomics technology has the ability to reveal the precise spatial localization of RNA molecules within tissues. In this section, we provide a comprehensive overview of mainstream spatial transcriptomics research strategies and summarize the strengths and limitations of these approaches.
(1) Image-based in situ transcriptomics . Image-based spatial transcriptomics primarily includes fluorescence in situ hybridization (FISH) and in situ sequencing (ISS). Recent advancements feature highly multiplexed single‐molecule FISH (smFISH), which uses reverse complementary oligo probes conjugated with fluorophores [ 9 ] for precise mRNA quantification and localization at the single-cell level [ 10 ]. The specificity of fluorescent probes to their RNA targets is critical for reliable smFISH results [ 11 ]. While smFISH can detect many transcripts due to high hybridization efficiency, signal overlap complicates barcode deconvolution. To address this issue, single-molecule imaging and multiplexed error-robust FISH (MERFISH) (Fig. 2 A) have been developed, allowing the identification of thousands of RNA species in single cells by reducing optical crowding, albeit at the cost of increased imaging rounds and time [ 12 ]. Sequential FISH (seqFISH) [ 13 , 14 ] (Fig. 2 B), an in situ three-dimensional (3D) multiplexed imaging method, also addresses optical crowding by decreasing the number of transcripts per image, requiring additional imaging rounds. Despite these advancements, smFISH is limited by the spectral overlap of fluorophores, restricting its multiplexing capabilities and its effectiveness in analyzing cell heterogeneity in complex tissues [ 15 ]. For example, Long et al. utilized seqFISH to analyze the hippocampus, identifying distinct transcriptional states by quantifying and clustering 249 genes in 16,958 cells [ 14 ], thereby demonstrating the effectiveness of this method for detailed transcriptional profiling in complex tissues.
Technologies of spatial techniques. A The MERFISH technology, a binary barcode scheme that employs different fluorescent probes to sequentially detect each bit. B The seqFISH technology. Complete RNA in cells/tissues was imaged by multiple rounds of hybridization. Each round obtains a coded message, corresponding to a bit in the digital code, and then decodes it to correspond to each RNA. C FISSEQ incorporates amplification after reverse transcription of cellular RNA into cDNA. D STARmap is based on DNA tandem sequencing technology, using complementary pairing principle of DNA and fluorescent dye labeled nucleotide probe for sequence determination. E LCM-seq utilizes a laser beam to microdissect tissue regions under a microscope. F IGS combines in situ sequencing with high-throughput paired-end DNA sequencing. G Slide-DNA-seq is used to fragment genomic DNA in situ by tissue, and barcode connector with spatial information is added for subsequent second-generation sequencing. H CUT and Tag guides Protein A/G-Tn5 transposase to cut the target chromatin region through protein-specific antibodies such as transcription factors. At the same time, sequencing joints are added to both ends of the sequence to form a library for high-throughput sequencing by PCR amplification
Both ISH and ISS provide similar transcriptomic information, with the primary difference being that ISS-based methods directly read nucleotide sequences within tissues to identify a larger number of RNA‐targeting probes, while ISH-based methods image the sequences of barcoded FISH probes [ 9 ]. As a targeted spatial transcriptomics technology, ISS facilitates highly multiplexed in situ gene expression profiling through padlock probes, rolling circle amplification (RCA), and sequencing-by-ligation [ 16 , 17 ] chemistry combined with next-generation sequencing chemistry [ 18 ]. In ISS, reverse transcribed cDNA is hybridized with padlock probes containing gene-specific barcode sequences, which are ligated at the specific hybridization site and amplified by rolling circle amplification (RCA) with a circularized padlock primer probe [ 9 ]. Chatarina et al. developed a method that combines padlock probes with in situ target-primed rolling-circle amplification to detect and genotype individual transcripts, offering deeper insights into mRNA expression heterogeneity within single-cell populations [ 19 ]. Sequential imaging using sequencing-by-ligation allows for the identification of repeatedly amplified barcode sequences in situ, while fluorescent in situ sequencing (FISSEQ) (Fig. 2 C) employs an oligonucleotide ligation and detection substrate (SOLiD) for genome and transcriptome sequencing of DNA amplicons [ 9 , 17 ]. FISSEQ experiences fewer issues with optical crowding compared to ISH-based methods because it is less efficient at converting transcripts into cDNA in situ. However, methods that use padlock probes hybridized with target RNA species require enzyme ligations and have lower detection rates compared to multiplexed FISH methods [ 12 ]. Next-generation FISSEQ [ 20 ] was developed to complement spatially structured sequencing libraries and includes an imaging method capable of resolving amplicons, which is essential for conducting ISS of cellular RNA for gene expression profiling [ 17 ]. RNA is reverse transcribed in fixed cells with tagged random hexamers to generate cDNA amplicons within the cell, which can be repeatedly hybridized with minimal changes in signal-to-noise ratios or position [ 21 ]. RNA sequencing libraries can be visualized in different cell types, tissue sections, and whole-mount embryos, enabling 3D visualization spanning multiple resolution scales [ 17 ]. Spatially resolved transcript amplicon readout mapping (STARmap) [ 22 , 23 ] (Fig. 2 D) employs dynamic annealing and ligation (SEDAL) to reduce sequencing errors. This technology integrates hydrogel tissue chemistry, targeted signal amplification, and ISS [ 22 ], enabling high multiplexing and analysis of thicker tissue slices, although it may detect fewer transcripts in such slices [ 24 ]. BaristaSeq, an optimized padlock probe-based technique compatible with Illumina sequencing, significantly enhances amplification efficiency and sequencing accuracy, achieving at least 97% accuracy and a five-fold increase in amplification efficiency [ 25 ].
Both ISS and ISH-based methods require image processing to generate gene expression matrices. These images are segmented to create cell-level matrices, which can be done manually for small areas or systematically using computational approaches [ 3 , 26 ]. RNA hybridization-based spatial transcriptomics provides exceptional detection sensitivity [ 27 ]; however, the misassignment of mRNAs during cell segmentation is a significant source of error. To address this, the JSTA computational framework utilizes prior knowledge of cell type-specific gene expression to perform joint cell segmentation and cell type annotation, increasing the accuracy of RNA assignment by over 45% [ 28 ]. Spot-based spatial cell-type analysis by multidimensional mRNA density estimation (SSAM) is a robust cell segmentation-free computational framework that identifies cell types and tissue domains in both 2D and 3D [ 29 ].
(2) Oligonucleotide-based spatial barcoding followed by the next-generation sequencing (NGS) [ 20 ]. NGS represents a significant improvement over previous sequencing technologies, offering cost-effective, rapid sequencing with higher throughput, thereby greatly extending our genomic knowledge [ 30 ] and addressing the time and resource-intensive challenges faced by the Human Genome Project [ 31 ]. NGS technologies introduce three main improvements over first-generation sequencing. First, they rely on the preparation of NGS libraries in a cell-free system, eliminating the need for bacterial cloning of DNA fragments [ 32 ]. Second, numerous sequencing reactions are produced in parallel, enhancing efficiency [ 33 ]. Third, sequencing outputs are detected directly, with base interrogation performed cyclically and in parallel [ 34 ]. Several prominent NGS platforms have emerged, including 454 (pyrosequencing) [ 35 ], Illumina/Solexa, and Sequencing by Oligo Ligation Detection (SOLiD) [ 36 ]. The 454 approach involves the clonal amplification of DNA fragments on beads within emulsion droplets, which are then loaded into wells for sequencing using the pyrosequencing protocol [ 37 ]. This approach enables the sequencing of long reads, making it suitable for various applications, although its inherent problem in detecting homopolymers and nucleotide stretches can impact data quality as sequence volume increases [ 38 ]. Illumina/Solexa employs an array-based DNA sequencing-by-synthesis technology with reversible terminator chemistry [ 39 ]. Primers, DNA polymerase, and four differently labeled reversible terminator nucleotides are used, with each nucleotide identified by color, followed by terminator and fluorophore removal, and the cycle repeating [ 34 ]. This platform currently offers the highest throughput and lowest per-base cost, making it the leading NGS platform. In contrast, the SOLiD platform prepares sequencing libraries by emulsion polymerase chain reaction (PCR) and sequences through successive cycles of ligation [ 39 ], exhibiting the lowest error rate among the three platforms. However, NGS methods have several drawbacks, notably short reads that fail to cover full-length transcripts in eukaryotic genomes and challenges in detecting larger structural variations. Additionally, the reliance on PCR amplification can lead to difficulties in regions with extreme GC content [ 40 ]. The advent of single-molecule, third-generation sequencing technologies, such as Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT), has resolved these issues. PacBio and ONT offer read lengths exceeding 15 kb and 30 kb, respectively, surpassing the length necessary to capture most RNA molecules in eukaryotes. Furthermore, ONT long-read sequencing does not require PCR amplification, thereby reducing potential bias [ 41 , 42 ].
(3) Laser capture microdissection (LCM) . A key challenge in transcriptomics is precise segmentation of tissues and accurate assignment of individual cells to specific locations, often resulting in the loss of spatial information [ 12 ]. LCM (Fig. 2 E), a powerful, microscope-guided cutting system that uses ultraviolet (UV) light as a contact- and contamination-free knife [ 43 ], enables accurate isolation of specific tissues or cells of interest from complex tissue structures. The combination of smart-3SEQ and LCM overcomes various experimental design challenges posed by conventional single-cell RNA-sequencing (scRNA-seq). For instance, formalin-fixed, paraffin-embedded archival clinical tissues, which are unsuitable for conventional RNA-seq due to their inability to be physically dissociated, and fresh or frozen non-archival tissue samples that lack sufficient material for clinical studies can be effectively analyzed using the LCM smart-3SEQ technique [ 11 ].
The proper functioning of tissues relies on the precise spatial organization of cell types, which is influenced by both intrinsic genetic factors and the external cellular environment. In cancer, tumor cells exhibit multiple DNA mutations and large chromosomal rearrangements, resulting in intratumor genetic heterogeneity [ 44 ]. Additionally, cells within the tumor microenvironment (TME) interact with each other, forming spatial neighborhoods with distinct biochemical and biomechanical properties. Quantifying these genetic aberrations and environmental cues within tumors is critical for understanding cancer progression and improving treatment [ 45 ]. In situ genome sequencing (IGS) (Fig. 2 F) and slide-DNA-seq (Fig. 2 G) are two exciting methods that promise to fuel the spatial genomics revolution [ 46 ]. IGS expands non-targeted genomic samples in a natural spatial environment, creating an in situ sequencing library in a fixed sample using in vitro transposon technology to fragment DNA. Hairpin DNA splices are then connected to DNA fragments to form circular DNA, which is amplified via rolling circle replication mediated by Phi29 DNA polymerase. Sequencing is performed at both in situ and ectopic sites on the circular DNA fragments [ 47 ]. IGS spatially locates paired-end sequences of the whole genome in an endogenous environment, combining sequencing and imaging to construct a genome map [ 47 ]. This technique specializes in high-resolution imaging of chromosome structure, allowing detailed analysis of tissue sections. Slide-DNA-seq enables spatially resolved sequencing of DNA from intact tissues. The process begins with generating a spatial index array composed of 3 mm beads, each containing unique DNA barcodes corresponding to specific spatial locations. This array is then read through chemical sequencing [ 48 ]. Next, a single 10 μm thick fresh-frozen tissue slice is transferred onto the sequencing bead array. Spatial barcoding is performed through photolysis, and the proximal genome fragments are attached and amplified via PCR to create a DNA sequencing library [ 49 ]. Following library construction, high-throughput paired-end sequencing is carried out, associating each genome fragment with its spatial location on the bead array using DNA barcoding [ 45 ]. Slide-DNA-seq enables detection of clonal heterogeneity, characterization of copy number variations in each clone, and analysis of their spatial distribution within tissue. This technique is particularly useful for large-scale mapping of tumor evolution, providing essential spatial context to the study of clonal heterogeneity [ 45 , 50 ]. Current methods for characterizing chromatin states or DNA within tissues on a large spatial scale are still in their infancy. The integration of spatial multi-omics technologies aims to achieve spatially resolved whole-exome or whole-genome sequencing. Ultimately, integrating various spatially resolved omics technologies will mark the beginning of the era of molecular anatomy, offering unprecedented insights into tissue organization and function [ 46 ].
Proteomics involves the large-scale study of proteins, encompassing their expression levels, post-translational modifications, and protein–protein interactions, thereby providing a comprehensive understanding of processes such as disease occurrence and cell metabolism at the protein level. Proteins, whether in their native or modified forms, are functional units within the body, making the direct study of proteomics more valuable than relying on transcripts. Targeted localization of proteins within eukaryotic cells can redirect existing proteins to various transport pathways, including nuclear, mitochondrial, ciliary, peroxisomal, endomembrane, and vesicular transport [ 51 ], enabling rapid changes in local protein functions. Conversely, protein mislocalization is frequently associated with cellular dysfunction and diseases such as neurodegeneration, cancer [ 52 ], cystic fibrosis [ 53 ], and metabolic disorders. Therefore, researching protein localization at the subcellular level and capturing subcellular dynamics are crucial for a complete understanding of cell biology. Two primary approaches are used to acquire large-scale spatial proteomic data, including mass spectrometry (MS) and imaging-based methods.
(1) Mass spectrometry-based methods : These approaches offer accurate, proteome-wide identification and quantification of proteins. In subcellular proteomics, specific subcellular compartments are often isolated through biochemical fractionation or proximity labeling before MS analysis [ 54 ]. Key processes involve the enrichment and quantification of proteins through biochemical fractionation across different stages using MS [ 55 ]. Organelles are separated based on properties such as size, density, membrane solubility, or charge, with differential and density centrifugation being common strategies. These methods typically achieve high sensitivity and proteome coverage, although contamination from non-target proteins can occur. Ensuring adequate enrichment of the target organelle is crucial for accurate analysis. Once purified, the distribution profiles of proteins specific to different organelles can reveal the subcellular localization or complex binding of uncharacterized proteins [ 54 ]. MS analysis, combined with multivariate statistics and machine learning (ML), is widely used to handle the complex data generated in spatial proteomics [ 56 ]. These techniques compare the abundance distribution of proteins with known organelle markers to infer protein locations and trafficking pathways [ 57 ]. They can identify trends in organelle protein distribution, even in the presence of structural alterations. Proteins, which can have different morphologies and modified states, function as essential units within cells. The relationship between mRNA and corresponding protein expression is highly regulated and non-linear, making RNA expression an unreliable predictor of protein levels. Unlike the more random expression of transcripts, proteins exhibit a much lower coefficient of variation than their homologous mRNA counterparts. Therefore, directly studying proteins at the single-cell level is far more informative than using transcripts as proxies [ 58 ]. Deep visual proteomics (DVP) combines artificial intelligence-driven image analysis of cellular phenotypes with automated single-cell or single-nucleus laser microdissection and ultra-high-sensitivity MS. This technique associates protein abundance with complex cellular or subcellular phenotypes while preserving spatial context [ 59 ]. To achieve this, an ultra-sensitive liquid chromatography-mass spectrometry (LC/MS) workflow has been developed, enhancing sensitivity by up to two orders of magnitude to enable true single-cell state proteomic analysis. The data generated by DVP provide molecular insights into proteomic variation at the phenotypic level while retaining complete spatial information.
(2) Imaging-based methods : These approaches allow for the visualization of proteins in situ without requiring cell lysis or the physical separation of compartments or organelles. Unlike MS methods, which are faster and suitable for large‐scale quantitative analysis, imaging-based approaches visualize the interactions between proteins and affinity reagents. Modern microscopes can simultaneously analyze up to 50 proteins, but each protein of interest requires specific and validated antibodies, limiting high-throughput detection. To minimize the loss of soluble proteins during cellular permeability, it is best to use non-specific crosslinking in proteome-wide studies. It is increasingly evident that protein expression varies even among genetically identical cells. Imaging-based methods can capture this variation by targeting the spatial distribution of proteins at single-cell resolution [ 60 ]. However, the number of published global spatial proteomic studies remains small due to the high cost and time-consuming production of affinity reagents for entire proteomes.
MS and imaging methods each have unique advantages and disadvantages and can complement each other. MS offers high sensitivity, high resolution, and powerful quantitative analysis but involves complex and costly sample preparation. In contrast, imaging methods provide high spatial resolution and dynamic observation capabilities, enabling visualization of protein distribution but have limited quantitative abilities and cover only a small number of proteins. Combining these two techniques allows for comprehensive global protein analysis, enabling the observation of the spatial distribution and dynamic changes of key proteins for a more complete understanding of protein spatial organization.
Spatial epigenomics examines modifications to the DNA sequence and chromatin structure that regulate gene activity without altering the genetic code itself [ 61 ]. Nucleosomes, the fundamental units of chromosomes, are organized into higher-order chromatin structures. Epigenetic modifications, such as histone acetylation, methylation, phosphorylation, ubiquitination, and DNA methylation, play crucial roles in regulating chromatin structure and DNA accessibility [ 62 , 63 ]. These modifications impact key cellular processes, including gene transcription, DNA replication, recombination, and repair [ 61 ]. Unlike other omics fields, epigenomics relies heavily on bioinformatics to uncover the mechanisms by which the epigenome operates at the molecular level. Developing powerful, repeatable, and process-based techniques is essential for generating data that can be integrated into existing omics databases. The ultimate goal is to create a comprehensive picture of the epigenome by combining information on DNA methylation, chromatin dynamics, accessibility, and gene expression [ 64 ]. Epigenomic MERFISH combined with the recently developed Cleavage Under Targets and Tagmentation (CUT&Tag) approach (Fig. 2 H) enables the mapping of more than 100 epigenomic loci in tissues [ 65 ]. These maps can be used to study patterns of active and silent promoters and potential enhancers, providing deeper insights into the spatial organization and regulation of the epigenome [ 65 ].
Metabolites play a crucial role in various cellular activities, such as cell signaling, energy transfer, and intercellular communication [ 66 ]. Metabolomics is an emerging discipline that involves the qualitative and quantitative analysis of all low-molecular-weight metabolites within an organism or cell during specific physiological states [ 67 ]. Analyzing metabolites presents challenges due to their dynamic nature and susceptibility to environmental influences during cellular processes [ 68 ]. Spatial metabolomics involves the initial detection and quantification of metabolites present in biological material [ 69 ]. Depending on experimental objectives, researchers can employ either targeted approaches, focusing on quantifying specific analytes, or untargeted approaches, focusing on biomarker discovery and global metabolite profiling [ 70 ].
(1) Targeted metabolomics [ 71 ]: This approach analyzes specific subsets of compounds to address particular biochemical questions or hypotheses. The two primary methods include Fourier transfer mass spectrometry (FT-MS) [ 72 ] and nuclear magnetic resonance (NMR) [ 73 ], both of which offer significant advantages in data acquisition due to their specificity and quantitative reproducibility. FT-MS generates mass data for infused samples, allowing for the identification and matching of metabolites with entries in metabolomics databases. The major drawback of this method is that it does not establish a one-to-one correspondence relationship between entities, which means that a single data point can potentially match with multiple metabolites. NMR produces signals based on the chemical environment of protons present in each metabolite, enabling tentative identification [ 74 ]. The development of triple quadrupole (QqQ) MS provides a robust and sensitive method for high-throughput measurement of a substantial number of biologically significant metabolites. This technique is particularly effective for quantifying low-concentration metabolites that are difficult to detect using NMR [ 75 ].
(2) Untargeted metabolomics : Untargeted metabolomics aims to globally analyze biological compounds, permitting the simultaneous detection of as many metabolites as possible and the exploration of cellular biochemical pathways. LC/MS is the most commonly used platform for untargeted metabolomics [ 76 , 77 ], producing numerous signals during the detection of biological samples. The structural diversity of metabolites is vast, and the acquired data often include both known and unknown metabolites. When searching metabolomics databases for the mass–charge ratio of each detected feature, only a small percentage match the database entries, making the identification of unknown metabolites challenging [ 78 ]. The number of detected unknown metabolites is often overestimated due to several factors. A high concentration of 13 C can cause a mass shift, leading to the detection of multiple features for a single metabolite through naturally occurring isotopes. Additionally, a single metabolite can be ionized into various adducts, including isomers, increasing the demand for selective analytical techniques. Furthermore, metabolites can fragment or form non-covalent interactions with other metabolites upon entering the mass spectrometer. These factors collectively increase the complexity and diversity of detected metabolites [ 79 ].
LC/MS data analysis addresses the complexity of metabolite detection through two main approaches: (1) grouping metabolites with similar features and (2) annotating the type of ion species. These steps facilitate the identification of excimer ions, which are essential for further metabolite identification, such as determining elemental composition or conducting tandem MS based on accurate mass and isotope patterns. CAMERA (an integrated strategy for compound spectral extraction and annotation of LC/MS datasets) can effectively identify most features corresponding to isotopes, adducts, and fragments [ 80 ]. Isotopic labeling methods can also be used to identify and analyze isotope ratio outliers [ 81 ]. Despite these advancements, many metabolites remain uncharacterized. Variations in metabolites within the cellular environment are closely linked to health and disease development. Metabolomics enhances disease analysis at the genomic and protein levels by providing semi-quantitative and quantitative measurements of metabolite levels, which serve as chemical mediators defining specific phenotypes [ 70 ]. The rapid expansion of omics technologies has provided holistic molecular information, enabling the comprehensive study of biological systems. Small molecules and metabolites are essential for numerous cellular functions [ 82 ], offering unique insights into the phenotypic characteristics associated with genome sequences [ 83 ].
While single-cell multi-omics yields valuable insights into gene regulation across various omics layers [ 84 , 85 ], it lacks the spatial information necessary for understanding cellular functions within tissues. Recently, spatial transcriptomics, proteomics, genomics, epigenomics and metabolomics have emerged, with extensive application in various fields [ 86 , 87 ]. These techniques typically capture only one layer of omics information, and computational methods for integrating data from different omics layers cannot fully overcome the lack of mechanistic links between them. Spatial multi-omics enables the simultaneous analysis of multiple data modalities, such as transcriptomics, proteomics, genomics, epigenomics, and metabolomics, with the same tissue section (Table 2 ).
Spatial ATAC&RNA-seq and spatial CUT&Tag RNA-seq have revolutionized genome-wide co-mapping of the epigenome and transcriptome by simultaneously profiling chromatin accessibility and mRNA expression, or histone modifications and mRNA expression, respectively. These technologies integrate the chemistry of spatial ATAC-seq or CUT&Tag with spatial transcriptomics on the same tissue section at the cellular level via deterministic co-barcoding [ 88 ], combining microfluidic deterministic barcoding in tissue (DBiT) strategies for spatial ATAC-seq [ 89 ] and CUT&Tag [ 90 ] with DBiT-seq poly(A) transcript profiling [ 91 ]. Spatial-ATAC-seq enables high-spatial-resolution genome-wide mapping of chromatin accessibility in tissue at the cellular level by applying a spatial barcoding scheme to DNA oligomers inserted into accessible genomic loci by Tn5 transposition [ 89 ]. This technology advances our understanding of cell identity, cell state, and cell fate decisions related to epigenetic bases in development and disease. Spatial-CUT&Tag analyzes spatial histone modification profiling at the pixel level on frozen tissue sections without requiring dissociation. This method addresses spatially distinct and cell type-specific chromatin modifications during mouse embryonic organogenesis and postnatal brain development, adding a new dimension to spatial biology by mapping epigenetic regulation related to development and disease [ 90 ]. DBiT-seq creates a 2D grid of spatially barcoded tissue pixels, each defined by a unique combination of barcodes A and B [ 88 ]. After reverse crosslinking, barcoded complementary DNA and genomic DNA fragments are released, and NGS constructs separate libraries for gDNA and cDNA. Sequencing reads are then combined with microscopy images of the tissue section based on spatial barcodes, allowing multi-omics sequence information to be spatially mapped [ 88 ]. These techniques have been applied to co-map embryonic and juvenile mouse brains, as well as the adult human brain. Spatially resolved, genome-wide co-sequencing of the epigenome and transcriptome at the cellular level provides an informative tool for a wide range of biological and biomedical research. Transcriptomics focuses on gene expression from the perspective of mRNA, presenting a global perspective on molecular dynamic changes induced by environmental factors or pathogenic agents [ 92 ]. Benefiting from mature in situ RNA hybridization strategies, targeted capture of DNA sequences or chromosomal loci facilitates spatial genomics detection. DNA-seq FISH + can be applied for studying the spatial structure of the genome based on multi-round probe hybridization imaging. Takei et al. [ 93 ] reported the imaging of 3660 chromosomal sites in a single mouse embryonic stem cell (ES) using DNA-seq FISH + and the imaging of 17 chromatin markers and subnuclear structures by sequential immunofluorescence and expression profiles of 70 RNAs. Genomic regions and chromosomes associated with nuclear bodies and chromatin marks in different cells were revealed by genomic regions. Some of these regions appear to be related to cell types, whereas others (mostly spot-related regions) are more conserved among different cell types [ 46 ].
Single-cell multi-omics has been highly successful in capturing diverse biological processes at the level of individual cells and nuclei but lacks spatial information [ 94 ]. Gene expression is regulated at multiple levels, from transcription to protein degradation, with RNA and protein levels conveying distinct information about gene function and cell state. These processes occur in various contexts, such as tumors and single-cell suspensions [ 95 ]. Recent progress in spatial in situ profiling has enabled the simultaneous profiling of location and expression. Spatial transcriptomics provides a global spatial tissue profile and has been applied to the study of diverse diseases. Spatial proteomics acquires large-scale spatial proteomic data through MS- and imaging-based experimental approaches. However, few platforms have successfully integrated spatial proteomics and transcriptomics data. Vickovic et al. [ 96 ] developed Spatial Multi-Omics (SM-Omics), an end-to-end framework that leverages a liquid handling platform for high-throughput transcriptome and antibody-based spatial tissue profiling. Using DNA-barcoded antibodies, this automated system enables the simultaneous profiling of the epitopes and transcriptomes within single cells, offering detailed molecular characterization of tissues in situ by quantifying both spatial transcriptomics and multiplex protein detection [ 96 ]. Compared to Visium by 10X Genomics, SM-Omics provides an automated workflow that extends combined spatial transcriptomics and antibody-based protein measurements into a scalable all-sequencing-based technology.
NanoString GeoMx Digital Spatial Profiler (DSP) facilitates high-plex profiling at both the protein and RNA level, permitting spatial and temporal assessment of tumors in frozen or formalin-fixed, paraffin-embedded limited tissue samples [ 97 ]. This platform quantifies protein or RNA abundance by counting unique indexing oligos assigned to each target of interest, using oligonucleotides to study a higher number of biomarkers. Additionally, DSP is a non-destructive technique, allowing the same slides to be used for subsequent studies after the assay is completed [ 97 ].
Spatial co-indexing of transcriptomes and epitopes (Spatial-CITE-seq) offers high-plex protein and whole-transcriptome co-mapping. This approach involves the staining of a tissue slide with a cocktail of approximately 200–300 antibody-derived tags (ADTs), followed by deterministic in-tissue barcoding of both DNA tags and mRNAs. Each tag contains a unique spatial address code AiBj (i = 1 − 50, j = 1 − 50), co-indexing all protein epitopes and the transcriptome. Barcoded cDNAs are subsequently retrieved, refined, and amplified via PCR to create two NGS libraries for paired-end sequencing of ADTs and mRNAs. This process enables computational reconstruction of spatial protein or gene-expression maps [ 98 ].
Gene expression and metabolite distribution in tissues are influenced by a variety of factors, including cell type, microenvironment, signaling pathways, and gene regulation. To elucidate the interplay among these factors, it is essential to employ methods that can simultaneously measure molecular evidence of different patterns in tissues while preserving spatial distribution information. Researchers have developed a spatial multimodal analysis (SMA) protocol that combines spatially resolved transcriptomics and mass spectrometry imaging (MSI) in a single tissue slice, while maintaining the specificity and sensitivity of both analytical methods [ 88 ]. This integrated approach reveals associations and heterogeneities between transcriptomes and metabolomes across different tissue regions. Combining spatial transcriptomic and metabolomic data, Vicari et al. identified a reduced proportion of midbrain dopaminergic neurons (MBDOP2) in the lesioned substantia nigra pars compacta and ventral tegmental area, and specified the localization of multiple neurotransmitters and metabolites, including taurine, 3-methoxytyramine, 3,4-dihydroxy-phenylacetaldehyde (DOPAL), 3,4-dihydroxy-phenylacetic acid, norepinephrine, serotonin, histidine, tocopherol, and gamma-aminobutyric acid [ 88 ]. Oral submucous fibrosis (OSF) is a well‐established precancerous lesion, but the molecular mechanisms underlying its malignant transformation into oral squamous cell carcinoma (OSCC) remain unclear [ 99 ]. Yuan et al. integrated spatial transcriptomics and metabolomics to obtain spatial location information on cancer cells, fibroblasts, and immune cells, as well as the transcriptomic and metabolomic landscapes of OSF-derived OSCC tissues. Moreover, they revealed the malignant progression from in situ carcinoma (ISC) to partial epithelial-mesenchymal transformation (pEMT), and identified significant metabolic reprogramming, including abnormal polyamine metabolism, which may play a key role in promoting tumorigenesis and immune escape [ 100 ]. Zheng et al. [ 101 ] combined spatial transcriptomic and metabolic analyses to reveal metabolic heterogeneity and complex transcriptome regulation in injured human brain tissue, facilitating the design of reagents for functional analysis of specific genes. The simultaneous application of these advanced technologies reveals the spatial composition of functional maps within tissues, heterogeneous distribution of cell populations, and differential gene expression in different locations. This comprehensive spatial expression mapping of genes holds significant research value and potential for advancing our understanding of complex biological systems.
The integration of spatial multi-omics aims to expand our understanding of mechanistic relationships across different omics layers and uncover molecular roles essential for cellular function by jointly profiling the transcriptome, genome, epigenome, proteome, and metabolome. Spatially resolved joint analysis of multi-omics can facilitate the identification of novel cell subtypes and measurement of intracellular and intercellular molecular interactions [ 102 ]. Therefore, the need for advanced spatial multi-omics methods has become increasingly important. Multi-omics in situ pairwise sequencing (MiP-seq) is a high-throughput targeted in situ sequencing technique that simultaneously detects multiplexed DNA, RNA, proteins, and biomolecules at subcellular resolution, providing comprehensive data for studying cellular functions and disease mechanisms [ 103 ]. The in situ detection of proteins and biomolecules is achieved using padlocking probes that target antibody-conjugated nucleic acids, while the detection of DNA and RNA is accomplished through direct padlock probes targeting nucleic acids [ 103 ]. Compared to current in situ sequencing methods, MiP-seq utilizes a pairwise-sequencing strategy and dual barcoded padlock probes, markedly increasing decoding capacity and requiring fewer sequencing rounds (10 N vs. 4 N ). Consequently, MiP-seq can reduce sequencing time by approximately 50%, lower sequencing and imaging costs, and minimize laser damage, thereby improving signal decoding accuracy, a key issue in in situ sequencing [ 104 ]. MiP-seq has been applied to mouse brain tissue, enabling the in situ detection of Rbfox3 and Nr4a1 gene loci, which are located on different chromosomes and spatially localized within the nucleus. MiP-seq has also been used to study PK-15 cells co-infected with porcine circovirus 2 (PCV2) and classical swine fever virus (CSFV), simultaneously detecting mRNA from eight cytokine or chemokine genes and two virus-specific proteins (CSFV E2 protein and PCV2 Cap protein) by binding antibodies to nucleic acids [ 103 ]. Thus, MiP-seq demonstrates versatility and high sensitivity in multi-omics in situ analysis, detecting specific DNA sequences, RNA transcripts, and proteins at single-cell resolution, and is a powerful tool for studying cell function, disease mechanisms, and cell–cell interactions in complex biological systems.
Deciphering spatial-specific atlas production of molecular and cellular profiles.
A comprehensive spatial-specific atlas of molecular and cellular profiles in both healthy and diseased states is essential for developing new therapeutic targets and disease interventions (Fig. 3 A). Spatial transcriptomics combined with single-cell sequencing has been widely used to decipher molecular profiles. Fang et al. constructed a spatial atlas of the human middle and superior temporal gyrus using MERFISH, revealing differences in the cellular composition of these cortical regions between humans and mice [ 105 ]. Single-nucleus RNA-seq (snRNA-seq), single-nucleus assay for transposase-accessible chromatin with sequencing (snATAC-seq) [ 106 ], and spatial transcriptomics have been applied to generate a spatially resolved multi-omics single-cell atlas of the entire human maternal–fetal interface, including the myometrium, enabling resolution of the full trajectory of trophoblast differentiation [ 107 ]. Kuppe et al. used snRNA-seq and spatial transcriptomics to create an integrative high-resolution map of cardiac remodeling, enhancing the spatial resolution of cell-type composition and providing spatially resolved insights into the cardiac transcriptome and epigenome with identification of distinct cellular zones of injury, repair, and remodeling [ 106 ]. Advanced spatial epigenome-transcriptome co-sequencing has revealed how epigenetic mechanisms control transcriptional phenotypes and cell dynamics at both spatial and genome-wide levels, providing new insights into spatial epigenetic initiation, differentiation, and gene regulation within tissue structures. Spatial ATAC-RNA-seq and spatial CUT&Tag-RNA-seq were first introduced in analyzing mouse embryos, successfully distinguishing each organ with epigenetic and transcriptome data [ 88 ]. In some mouse brain tissue regions, the epigenetic signature of certain genes persisted with development, but the gene expression was different. In addition, the results of the joint analysis also found that epigenetic regulation and gene expression in different regions of the brain of young mice have unexpected correlations, and that different epigenetic features can cooperate with each other to regulate gene expression. The integration of spatial multi-omics not only opens a new field of spatial omics but also provides novel research avenues for biological and biomedical research.
Applications of spatial-based technologies. Spatial multi-omics technology is employed to investigate various cell biology. This diagram provides an overview of the application of spatial multi-omics. A Spatial-based molecular and cellular atlas. B Spatial-based heterogeneity in human diseases. C Spatial-related crosstalk in tumor immunology. D Spatial trajectory and lineage tracking in human diseases. E Potential targets for therapeutic applications. F Reproduction and development research
The complex interactions among tumor cells, surrounding tissues, infiltrating innate immune cells, and adaptive immune cells create a unique environment characterized by inter-related, coexisting, and competitive dynamics [ 108 ]. The characteristics of this tumor immune microenvironment vary significantly due to both intrinsic (e.g., tumor type) and extrinsic factors (e.g., environment). Tumor heterogeneity plays a crucial role in enabling tumor cells to adapt to changes in the microenvironment, thereby promoting tumor resistance and progression (Fig. 3 B).
Tumor heterogeneity includes both intratumor and intertumor heterogeneity [ 109 ]. Metastatic prostate cancer exhibits a wide spectrum of diverse phenotypes, but the extent of these heterogeneities has not yet been established [ 110 ]. Brady et al. integrated spatial transcriptomics and proteomics to analyze multiple discrete areas of metastases, discovering heterogeneity among tumors at different metastatic sites and within the same site. They also identified significant intra-patient heterogeneity in regions with varying androgen receptor (AR) and neuroendocrine activity. Most metastases lacked significant inflammatory infiltrates and PD1, PD-L1, and CTLA4 expression, while the B7-H3/CD276 immune checkpoint protein was highly expressed, particularly in metastatic prostate cancers with high AR activity [ 111 ]. These findings correlate with the clinical observation that metastatic prostate cancers often fail to respond to immune checkpoint blockade therapies such as anti-CTLA4, PD1, and PD-L1 antibodies, suggesting that B7-H3/CD276 could be a potential therapeutic target. Non-small cell lung cancer (NSCLC) is characterized by substantial heterogeneity among individual tumors and within regions of a single tumor [ 112 ]. Intratumor heterogeneity has been shown to contribute to treatment failure and drug resistance through the expansion of pre-existing resistant subclones [ 113 , 114 ]. Previous studies using multi-region profiling to decode the spatial patterns of heterogeneity were limited by the small number of regions analyzed per tumor [ 115 ]. Wu et al. employed multi-region matrix-assisted laser desorption ionization-time of flight (MALDI-TOF), cyclic immunofluorescence (CyCIF), and multi-region single-cell copy number sequencing to conduct spatial multi-omics analysis of tumors from 147 lung adenocarcinoma patients. They developed a novel analysis approach to quantify intratumor spatial heterogeneity: clustered geographic diversification (GD), where molecularly similar cells cluster together, and random GD, where molecularly similar cells are randomly distributed. Patients with random GD exhibited higher recurrence rates and risk of death, characterized by fewer tumor-interacting endothelial cells, higher infiltrating immune cells, and similar GD patterns observed in both proteomic and genomic data [ 116 ], providing insights into spatial heterogeneity and innovative ideas for cancer research. A non-targeted MALDI-MSI analysis [ 117 ] followed by spatial segmentation using different algorithms allowed to highlight molecular heterogeneity among glioblastomas. Three sub-regions were identified (A, B and C regions). Duhamel et al. performed a spatially resolved proteomic analysis to decode the biological pathways involved in these three regions: region A is enriched in genes related to neurotransmission and synaptogenesis; proteins overexpressed in region B are associated with immune infiltration; region C identified proteins involved in RNA processing and metabolism. Finally, they identified PPP1R12A and RPS14 are favorable prognostic markers while ALCAM, ANXA11, and AltProt IP_652563 are unfavorable prognostic markers [ 118 ]. These results highlight the potential of spatial proteomics and spatial metabolomics to decipher the molecular heterogeneity of glioblastoma and identify markers associated with survival.
Understanding how reprogrammed metabolic networks impact tumor growth is crucial for identifying metabolic vulnerabilities that improve cancer treatment. Sun et al. [ 119 ] combined mass spectrometry imaging-based spatial metabolomics and lipid-omics with microarray-based spatial transcriptomics [ 120 ] to visualize intratumor metabolic heterogeneity and cell metabolic interactions within the same gastric cancer sample. They imaged tumor-associated metabolic reprogramming at metabolic-transcriptional levels, linking marker metabolites, lipids, and genes within metabolic pathways and colocalizing them in heterogeneous cancer tissues. The integrated data revealed unique transcriptional features and significant immune-metabolic changes at the tumor invasion frontier. Furthermore, glutamine was overutilized in tumor tissue, genes related to lipids, fatty acid synthesis (FA), and fatty acid elongation were enriched in the tumor tissue region, and long chain polyunsaturated fatty acids were significantly up-regulated in borderline lymphoid tissue, even exceeding levels in tumor tissues [ 121 ]. These findings enhance our understanding of tumor molecular mechanisms and potential targets for cancer therapy. Spatial multi-omics technology accurately depicts gene expression in different tumor tissue locations, addressing the lack of spatial context in single-cell sequencing. Thus, the advancement of spatial omics provides essential support for exploring tumor immune microenvironment dynamics and identifying corresponding therapeutic targets.
Spatial multi-omics has provided new perspectives on the complex interactions within the tumor microenvironment. Tumor tissue comprises various cell types, including epithelial, endothelial, fibroblast, vascular smooth muscle, resident immune, and infiltrating immune cells, all of which interact within a 3D environment to support cancer cell growth [ 122 ] (Fig. 3 C). By integrating mass spectrometry imaging-based spatial metabolomics and lipidomics with microarray-based spatial transcriptomics, researchers have identified a distinct interface at the junction of tumors and neighboring tissues, termed cluster9, within which peritumoral lymphoid tissue (PLT) and distal lymphoid tissue (DLT) are defined [ 121 ]. The PLT exhibits significantly increased uptake and metabolism of glutamine, as well as certain fatty acids, essential for tumor energy metabolism and signaling. Genes associated with fatty acid synthesis, such as FASN, SCD, and ELOVL, as well as ALOX5AP, which promotes arachidonic acid metabolism into leukotriene inflammatory mediators, are also up-regulated in PLT. These results suggest that PLT has a stronger inflammatory response than DLT and inhibits tumor cell proliferation [ 121 ]. Identification of this crosstalk between PLT and tumor cells has enhanced our understanding of tumor molecular mechanisms. ScRNA-seq studies on glioblastomas have highlighted the dynamic plasticity across cellular states [ 123 ], including mesenchymal-like (MES-like), neural progenitor cell-like (NPC-like), astrocyte-like (AC-like), and oligodendrocytic precursor cell-like (OPC-like) states, which are markers of malignant brain tumors [ 124 ]. However, single-cell analysis provides only indirect inferences about cell interactions, often neglecting the role of the local microenvironment in tumorigenesis. Ravi et al. [ 125 ] utilized spatial transcriptomics, metabolomics, and proteomics to quantify the relationship between tumor cells and myeloid and lymphoid cells, discovering increased interactions in inflammation-related gene-rich areas and confirming enhanced interactions between tumor cells and virus-free compartments within transcriptionally defined reactive immune regions. Annika et al. [ 126 ] combined spatial multi-omics and scRNA-seq data from epithelial and stromal compartments to examine immune cell composition during intestinal damage and regeneration, finding that activated B cells decreased and disrupted the essential crosstalk between stromal and epithelial cells during mucosal healing. Spatiotemporal multi-omics allows for consideration of the microenvironment in cell–cell crosstalk studies, enhancing the accuracy of research findings.
Lineage tracking technology is crucial for studying the developmental trajectory and differentiation process of cells (Fig. 3 D). This technology can help determine how individual cells differentiate from a founder cell and how they evolve during development and disease [ 127 ]. Traditionally, lineage tracing involves labeling cells with heritable marks and tracking the trajectory of their offspring. The diversity of cell types produced from a founder cell reflects its differentiation potential. To predict the potential and evolutionary trajectory of founder cells, a wide array of markers is needed for accurate cell type classification. However, the limited availability of markers can mask the variability within cell subsets expressing the selected marker genes [ 128 ], potentially biasing the interpretation of organ complexity. Spatial transcriptomics not only enables comprehensive transcriptomic analysis of thousands of cells but also offers considerable insights into the spatiotemporal relationships among cells. This approach enhances cell-type identification, deepening our understanding of organizational complexity [ 129 ]. By constructing transcriptional atlases of adult tissues and developing embryos, spatial transcriptomics reveals the molecular mechanisms underlying differentiation from stem cells to mature cells. This detailed record elucidates the sequence of events and molecular mechanisms by which cells attain their final identity in embryogenesis or tissue regeneration. It also provides clues to the origins of developmental pathologies and cancer, allowing intervention in pathogenic pathways and replication of cell differentiation processes in vitro [ 130 ]. Densely sampling cells at various stages can describe state manifolds, which visualize the continuum of cell state changes in a multidimensional space and the trajectory of cell differentiation. To understand the instantaneous state of the cell, it is necessary to consider its molecular composition, inter-relationships, tissue position, and physical and regulatory interactions with surrounding cells. This comprehensive approach provides deeper insights into the state and function of cells [ 130 ]. Given the complexity of cells within different species, lineage tracing has expanded to include additional approaches, such as tracer dyes, cell transplantation, and in vivo genetic recombination. Advances in confocal and light-sheet microscopy have enabled the direct tracking of individual cell division patterns in complex vertebrates. However, these methods are limited to only a few measurements of cell state. Recent spatial transcriptomics approaches overcome spectral limitations by allowing genome-scale measurements in fixed in situ samples. High-throughput sequencing employs DNA sequence barcodes to encode clonal information, which can later be read and integrated with other sequence-based omics data. Zhang et al. applied single-cell and spatial transcriptomics to demonstrate extensive diversification of cells from a few multipotent progenitors to numerous differentiated cell states, including several novel cell populations. Furthermore, they identified lineage-specific clusters radiating from the center of six mesenchymal states and active transcription factor network modules associated with the progression of each lineage. They also observed that chondrocyte lineages increased over time, shifting from progenitor cells to more mature clusters [ 131 ]. Bao et al. [ 132 ] revealed that microglia and perivascular macrophages exhibit parallel differentiation processes, although the developmental origins of other tissue-resident macrophages require further exploration using single-cell and spatial transcriptomics. Spatial multi-omics have been applied in several fields, such as tumor progression, immune-associated diseases and metabolism-related disorders. Renal fibrosis, a critical pathological feature in chronic kidney disease progression, has significant global health implications. Spatial multi-omics techniques, such as Cut&Tag with DBiT-Seq [ 133 ], have been crucial in elucidating the complex epigenetic reprogramming during the transition from acute kidney injury to chronic kidney disease, underscoring the importance of multi-omics in understanding and addressing renal fibrosis pathogenesis [ 134 ]. The integration of imaging and sequencing-based omics has led to significant progress in spatial technologies, enabling spatially resolved single-cell detection [ 135 ]. These technologies preserve spatial resolution and large fields of view, allowing for detailed analysis of the microenvironment, spatial neighborhoods, and niche networks in kidney injury. Compatibility with formalin-fixed, paraffin-embedded tissue also facilitates the establishment of kidney injury cohorts, filling a critical gap in prognostic research [ 136 ].
Targeting nucleotide metabolism is a well-established metabolic therapy in clinical oncology and practice [ 137 ]. However, efforts to target non-nucleotide metabolism in clinical trials have faced challenges due to drug toxicity, inconsistent dietary interventions, lack of biomarkers, and imprecise combination treatments, collectively leading to suboptimal trial outcomes. Additionally, cells within the TME can significantly influence treatment efficacy and undergo substantial changes during tumor progression and treatment response [ 138 ]. Therefore, developing biomarker-guided personalized precision metabolic therapies and targeted metabolic reprogramming is critical to improve the sensitivity of cancer therapy. Rational combinations of chemotherapy, radiation therapy, and other targeted therapies should also be considered. Integrating spatial multi-omics could enhance our understanding of tumor metabolic regulation, offering new therapeutic targets and identifying diagnostic and prognostic markers for various diseases.
Through multi-omics analysis of patients with triple-negative breast cancer (TNBC), researchers discovered that Clostridiales and the associated metabolite trimethylamine N-oxide (TMAO) induce pyroptosis in tumor cells by activating the endoplasmic reticulum stress kinase PERK, which amplifies CD8 + T cell-mediated antitumor immunity in vivo. These findings suggest that microbial metabolites, such as TMAO or its precursor choline, could serve as a new therapeutic strategy to enhance the efficacy of TNBC treatment [ 139 ], offering insights into the crosstalk between microbiota and metabolite immunology. Metastasis remains the leading cause of death in patients with breast cancer; however, the dynamic changes in dissemination evolution remain poorly understood. High-resolution technologies, such as spatial transcriptomics and metabolomics, have been used to map the metabolic landscape. Combined spatial transcriptomics and scRNA-seq have revealed metabolic changes in tumor cells during their transition from the primary site to the leading edge and metastatic lymph nodes, highlighting the potential of incorporating metabolic therapies in treating breast cancer with lymph node metastasis [ 140 ]. Eclipta prostrata L. [ 141 ] has long been used in traditional medicine for its liver-protective properties. Wedelolactone (WEL) and demethylwedelolactone (DWEL) are the primary coumarins found in E. prostrata L. Using a mature thioacetamide (TAA)-induced zebrafish model, Chen et al. integrated spatial metabolomics and transcriptomics and discovered that both WEL and DWEL can improve metabolic disorders induced by nonalcoholic fatty liver disease (NAFLD), primarily through the regulatory effects of WEL on steroid biosynthesis and fatty acid metabolism. Their study successfully mapped the biological distribution and metabolic characteristics of these compounds in zebrafish, revealing the unique mechanisms of WEL and DWEL in improving NAFLD and proposing a multi-omics platform to develop highly effective compounds that improve therapeutic outcomes [ 142 ]. Previous studies have highlighted the role of ferroptosis in a variety of neurological diseases [ 143 ], although its precise role in multiple sclerosis (MS) remained uncertain. Wu et al. integrated data from snRNA‐seq, spatial transcriptomics, and spatial proteomics to define a computational metric of ferroptosis levels and identify the ferroptosis landscape in neuroimmunity and neurodegeneration in MS patients [ 144 ]. Results showed that active lesion edges exhibited the highest ferroptosis scores, associated with phagocyte system activation, while remyelination lesions had the lowest scores. Elevated ferroptosis scores were also observed in cortical neurons, linked to multiple neurodegenerative disease-related pathways [ 144 ], while significant co-localization was detected between ferroptosis scores, neurodegeneration, and microglia. They also established a diagnostic model for MS based on 24 ferroptosis-related genes in peripheral blood. These findings suggest that ferroptosis may play a dual role in MS, associated with both neuroimmunological and neurodegenerative processes, making it a promising therapeutic target and diagnostic marker for MS. Vedolizumab (VDZ) is known to inhibit lymphocyte trafficking to the intestine and is effective in treating ulcerative colitis (UC). However, its broader effects on other cell subsets are less understood. Using comprehensive spatial transcriptomic and proteomic phenotyping, Mennillo et al. identified mononuclear phagocytes as an important cell type impacted by anti-integrin therapy in UC and revealed changes in the spatial distribution of cell subpopulations in tissues before and after VDZ treatment [ 145 ]. Notably, they highlighted the cellular and genetic factors of UC and VDZ therapy, potentially aiding in the development of more precise treatment strategies and the prediction of treatment responses (Fig. 3 E).
Mammalian fertilization begins with the fusion of an oocyte and a sperm cell [ 146 ], with the reproductive system creating an environment for embryonic development (Fig. 3 F). In-depth exploration of the reproductive system requires an understanding of the function of each cell type and their interactions. Spatial multi-omics techniques have been used to examine interactions between adjacent cells and gametes or embryos within the natural tissue environment, preserving the spatial context of the analyzed cells. These technologies have the potential to transform our understanding of mammalian reproduction [ 147 ]. Winkler et al. used scRNA-seq and spatial transcriptomics to profile the remodeling of the female reproductive tract during the estrous cycle, decidualization, and aging and discovered that fibroblasts play a central and organ-specific role in female reproductive tract remodeling by coordinating extracellular matrix (ECM) recombination and inflammation. They also revealed the unexpected costs of repeated remodeling required during reproduction and illustrated how estrus, pregnancy, and aging collectively shape the female reproductive tract [ 148 ]. Yang et al. conducted scRNA-seq, scATAC-seq, and spatial transcriptomic analyses of fetal samples from gestational week (GW) 13–18, generating a large-scale multi-omics atlas of the developing human fetal cerebellum. They found that PARM1 exhibits inconsistent distribution in human and mouse granulosa cells, and identified gene regulatory networks that control the diversity of Purkinje cells and unipolar brush cells [ 149 ]. These key regulatory factors can be harnessed in vitro to generate small brain cells for future clinical applications and enhance our understanding of the link between molecular variation and cell types in neurodevelopmental disorders. Li et al. employed scRNA-seq, spatial transcriptomics, and hybridization-based in situ sequencing to analyze 16 human embryonic and fetal spinal cord samples from post-conceptional weeks 5–12, providing a comprehensive atlas of developmental cells and identifying novel molecular targets and genetic regulation of childhood spinal cancer stem cells [ 150 ] (Table 3 ).
The rapidly evolving field of spatial omics technologies aims to achieve higher resolution, deeper coverage, greater multiplexity, and enhanced versatility in analyzing diverse samples, including formalin-fixed, paraffin-embedded, fresh-frozen, and living tissues. These advancements enable 3D reconstruction of larger tissue regions and comprehensive analysis of spatiotemporal multi-omics, enhancing our understanding of the complex molecular mechanisms underlying cellular interactions within tissues. Effective acquisition, manipulation, analysis, and visualization of spatial omics data are critical components for their successful application. Integrating datasets from different omics modalities is essential to unlock their synergistic potential, although this is challenging due to differing spatial features of the data. Consequently, there is an urgent need for specialized hardware and software to visualize these complex datasets effectively. Key steps include normalizing data matrices, removing low-quality data, improving signal-to-noise ratios, smoothing data to increase sensitivity, and eliminating unwanted technical and biological variations. Developing an independent benchmark of spatial omics integration algorithms should greatly assist researchers in selecting appropriate integration strategies and designing experiments. Without suitable analytical tools, even costly experiments can yield unusable data. To mitigate bias, the scientific community must provide open datasets for comparative analysis of tissues and develop novel methods for accurate detection or capture efficiency. The path to widespread adoption of these technologies remains long. A thorough understanding of the cellular and molecular mechanisms within specific normal or pathogenic microenvironments is crucial for advancing personalized precision medicine. This approach is anticipated to become the primary treatment option in the near future. Expected advancements include increased throughput, reduced costs, integration of more detection modes, and enhanced sensitivity and specificity. Ultimately, multi-omics techniques with spatial single-cell resolution will revolutionize our understanding of cell biology.
The integration of multi-omics with spatial analysis is a rapidly evolving field that holds great promise for a wide range of applications. Spatial multi-omics enables a deeper understanding of complex biological systems, providing novel insights into disease mechanisms, drug target identification, and biomarker discovery. However, integrating multi-omics data presents technical challenges, necessitating advanced computational and statistical methods. Moreover, the interpretation of spatial multi-omics data is further complicated by spatially varying environmental factors and technical noise. Thus, the development of sophisticated computational tools and analytical methods capable of managing large-scale spatial multi-omics datasets is essential for fully leveraging the potential of this approach.
No datasets were generated or analysed during the current study.
Baysoy A, Bai Z, Satija R, Fan R. The technological landscape and applications of single-cell multi-omics. Nat Rev Mol Cell Biol. 2023. https://doi.org/10.1038/s41580-023-00615-w .
Article PubMed PubMed Central Google Scholar
Wang WJ, Chu LX, He LY, Zhang MJ. Spatial transcriptomics: recent developments and insights in respiratory research. Mil Med Res. 2023. https://doi.org/10.1186/s40779-023-00471-x .
Rao A, Barkley D, França GS, Yanai I. Exploring tissue architecture using spatial transcriptomics. Nature. 2021. https://doi.org/10.1038/s41586-021-03634-9 .
Marx V. Method of the Year: spatially resolved transcriptomics. Nat Methods. 2021. https://doi.org/10.1038/s41592-020-01033-y .
Wang M, Hu Q, Lv T, Wang Y. High-resolution 3D spatiotemporal transcriptomic maps of developing Drosophila embryos and larvae. Dev Cell. 2022. https://doi.org/10.1016/j.devcel.2022.04.006 .
Jin Y, Zuo Y, Li G, Liu W. Advances in spatial transcriptomics and its applications in cancer research. Mol Cancer. 2024. https://doi.org/10.1186/s12943-024-02040-9 .
Choe K, Pak U, Pang Y, Hao W. Advances and challenges in spatial transcriptomics for developmental biology. Biomolecules. 2023. https://doi.org/10.3390/biom13010156 .
Cao J, Li C, Cui Z, Deng S. Spatial transcriptomics: a powerful tool in disease understanding and drug discovery. Theranostics. 2024. https://doi.org/10.7150/thno.95908 .
Park H-E, Jo SH, Lee RH, Macks CP. Spatial transcriptomics: technical aspects of recent developments and their applications in neuroscience and cancer research. Advanced Science. 2023. https://doi.org/10.1002/advs.202206939 .
Piskadlo E, Bastian Th, Eichenberger LG, Chao JA. Design, labeling, and application of probes for RNA smFISH. In: Scheiffele P, Mauger O, editors. Alternative Splicing: Methods and Protocols. Springer; 2022. p. 173–83. https://doi.org/10.1007/978-1-0716-2521-7_10 .
Chapter Google Scholar
Lee C, Roberts SE, Gladfelter AS. Quantitative spatial analysis of transcripts in multinucleate cells using single-molecule FISH. Methods. 2016. https://doi.org/10.1016/j.ymeth.2015.12.007 .
Article PubMed Google Scholar
Park HE, Jo SH, Lee RH, Macks CP. Spatial transcriptomics: technical aspects of recent developments and their applications in neuroscience and cancer research. Adv Sci (Weinh). 2023. https://doi.org/10.1002/advs.202206939 .
Shah S, Lubeck E, Zhou W, Cai L. seqFISH accurately detects transcripts in single cells and reveals robust spatial organization in the hippocampus. Neuron. 2017. https://doi.org/10.1016/j.neuron.2017.05.008 .
Shah S, Lubeck E, Zhou W, Cai L. In situ transcription profiling of single cells reveals spatial organization of cells in the mouse hippocampus. Neuron. 2016. https://doi.org/10.1016/j.neuron.2016.10.001 .
Kalhor K, Chen CJ, Lee HS, Cai M. Mapping human tissues with highly multiplexed RNA in situ hybridization. Nat Commun. 2024. https://doi.org/10.1038/s41467-024-46437-y .
Ke R, Mignardi M, Pacureanu A, Svedlund J. In situ sequencing for RNA analysis in preserved tissue and cells. Nat Methods. 2013. https://doi.org/10.1038/nmeth.2563 .
Lee JH, Daugharthy ER, Scheiman J, Kalhor R. Highly multiplexed subcellular RNA sequencing in situ. Science. 2014. https://doi.org/10.1126/science.1250212 .
Tang X, Chen J, Zhang X, Liu X. Improved in situ sequencing for high-resolution targeted spatial transcriptomic analysis in tissue sections. J Genet Genom. 2023. https://doi.org/10.1016/j.jgg.2023.02.004 .
Article Google Scholar
Larsson C, Grundberg I, Söderberg O, Nilsson M. In situ detection and genotyping of individual mRNA molecules. Nat Methods. 2010. https://doi.org/10.1038/nmeth.1448 .
Liao J, Lu X, Shao X, Zhu L. Uncovering an organ’s molecular architecture at single-cell resolution by spatially resolved transcriptomics. Trends Biotechnol. 2021. https://doi.org/10.1016/j.tibtech.2020.05.006 .
Lee JH, Daugharthy ER, Scheiman J, Kalhor R. Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues. 2015. Nat Protoc. https://doi.org/10.1038/nprot.2014.191 .
Wang X, Allen WE, Wright MA, Sylwestrak EL. Three-dimensional intact-tissue sequencing of single-cell transcriptional states. 2018. Science. https://doi.org/10.1126/science.aat5691 .
Koch L. Transcriptomics in intact tissues. 2018. Nat Rev Genet. https://doi.org/10.1038/s41576-018-0045-7 .
Robles-Remacho A, Sanchez-Martin RM, Diaz-Mochon JJ. Spatial transcriptomics: emerging technologies in tissue gene expression profiling. Anal Chem. 2023. https://doi.org/10.1021/acs.analchem.3c02029 .
Chen X, Sun Y-C, Church GM, Lee JH. Efficient in situ barcode sequencing using padlock probe-based BaristaSeq. Nucleic Acids Res. 2018. https://doi.org/10.1093/nar/gkx1206 .
Fang S, Chen B, Zhang Y, Sun H. Computational approaches and challenges in spatial transcriptomics. Genom Proteom Bioinform. 2023. https://doi.org/10.1016/j.gpb.2022.10.001 .
Lubeck E, Coskun AF, Zhiyentayev T, Ahmad M. Single-cell in situ RNA profiling by sequential hybridization. Nat Methods. 2014. https://doi.org/10.1038/nmeth.2892 .
Littman R, Hemminger Z, Foreman R, Arneson D. Joint cell segmentation and cell type annotation for spatial transcriptomics. Mol Syst Biol. 2021. https://doi.org/10.15252/msb.202010108 .
Park J, Choi W, Tiesmeyer S, Long B. Cell segmentation-free inference of cell types from in situ transcriptomics data. Nat Commun. 2021. https://doi.org/10.1038/s41467-021-23807-4 .
Cullum R, Alder O, Hoodless PA. The next generation: using new sequencing technologies to analyse gene regulation. Respirology. 2011. https://doi.org/10.1111/j.1440-1843.2010.01899.x .
Van Dijk EL, Auger H, Jaszczyszyn Y, Thermes C. Ten years of next-generation sequencing technology. Trends Genet. 2014. https://doi.org/10.1016/j.tig.2014.07.001 .
Yang Y, Xie B, Yan J. Application of next-generation sequencing technology in forensic science. Genom Proteom Bioinform. 2014. https://doi.org/10.1016/j.gpb.2014.09.001 .
Nguyen L, Burnett L. Automation of molecular-based analyses: a primer on massively parallel sequencing. Clin Biochem Rev. 2014;35(3):169.
PubMed PubMed Central Google Scholar
Van Dijk EL, Auger H, Jaszczyszyn Y, Thermes C. Ten years of next-generation sequencing technology. Trends In Genetics : TIG. 2014. https://doi.org/10.1016/j.tig.2014.07.001 .
Rothberg JM, Leamon JH. The development and impact of 454 sequencing. Nat Biotechnol. 2008. https://doi.org/10.1038/nbt1485 .
Liu L, Li Y, Li S, Hu N. Comparison of next-generation sequencing systems. J Biomed Biotechnol. 2012. https://doi.org/10.1155/2012/251364 .
Margulies M, Egholm M, Altman WE, Attiya S. Genome sequencing in microfabricated high-density picolitre reactors. Nature. 2005;437(7057):376–80.
Article CAS PubMed PubMed Central Google Scholar
Gilles A, Meglécz E, Pech N, Ferreira S. Accuracy and quality assessment of 454 GS-FLX Titanium pyrosequencing. BMC Genomics. 2011. https://doi.org/10.1186/1471-2164-12-245 .
Xuan J, Yu Y, Qing T, Guo L. Next-generation sequencing in the clinic: promises and challenges. Cancer Lett. 2013. https://doi.org/10.1016/j.canlet.2012.11.025 .
Van Dijk EL, Jaszczyszyn Y, Naquin D, Thermes C. The third revolution in sequencing technology. Trends Genet TIG. 2018. https://doi.org/10.1016/j.tig.2018.05.008 .
Kumar KR, Cowley MJ, Davis RL. Next-generation sequencing and emerging technologies. Semin Thromb Hemost. 2019. https://doi.org/10.1055/s-0039-1688446 .
Udaondo Z, Sittikankaew K, Uengwetwanit T, Wongsurawat T. Comparative analysis of PacBio and oxford nanopore sequencing technologies for transcriptomic landscape identification of penaeus monodon. Life (Basel). 2021. https://doi.org/10.3390/life11080862 .
Piskadlo E, Eichenberger BT, Giorgetti L, Chao JA. Design, labeling, and application of probes for RNA smFISH. Methods Mol Biol. 2022. https://doi.org/10.1007/978-1-0716-2521-7_10 .
Hosea R, Hillary S, Naqvi S, Wu S. The two sides of chromosomal instability: drivers and brakes in cancer. Signal Transduct Target Ther. 2024. https://doi.org/10.1038/s41392-024-01767-7 .
Zhao T, Chiang ZD, Morriss JW, Lafave LM. Spatial genomics enables multi-modal study of clonal heterogeneity in tissues. Nature. 2022. https://doi.org/10.1038/s41586-021-04217-4 .
Bouwman BAM, Crosetto N, Bienko M. The era of 3D and spatial genomics. Trends Genet. 2022. https://doi.org/10.1016/j.tig.2022.05.010 .
Payne AC, Chiang ZD, Reginato PL, Mangiameli SM. In situ genome sequencing resolves DNA sequence and structure in intact biological samples. 2021. Science. https://doi.org/10.1126/science.aay3446 .
Rodriques SG, Stickels RR, Goeva A, Martin CA. Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution. Science. 2019. https://doi.org/10.1126/science.aaw1219 .
Stickels RR, Murray E, Kumar P, Li J. Highly sensitive spatial transcriptomics at near-cellular resolution with Slide-seqV2. Nat Biotechnol. 2021. https://doi.org/10.1038/s41587-020-0739-1 .
Gerstung M, Jolly C, Leshchiner I, Dentro SC. The evolutionary history of 2,658 cancers. Nature. 2020. https://doi.org/10.1038/s41586-019-1907-7 .
Bauer NC, Doetsch PW, Corbett AH. Mechanisms regulating protein localization. Traffic. 2015. https://doi.org/10.1111/tra.12310 .
Banworth MJ, Li G. Consequences of Rab GTPase dysfunction in genetic or acquired human diseases. Small GTPases. 2018. https://doi.org/10.1080/21541248.2017.1397833 .
Bridges RJ, Bradbury NA. Cystic fibrosis, cystic fibrosis transmembrane conductance regulator and drugs: insights from cellular trafficking. Handb Exp Pharmacol. 2018. https://doi.org/10.1007/164_2018_103 .
Christopher JA, Stadler C, Martin CE, Morgenstern M. Subcellular proteomics. Nat Rev Methods Primers. 2021. https://doi.org/10.1038/s43586-021-00029-y .
Fossati A, Li C, Uliana F, Wendt F. PCprophet: a framework for protein complex prediction and differential analysis using proteomic data. Nat Methods. 2021. https://doi.org/10.1038/s41592-021-01107-5 .
Mou M, Pan Z, Lu M, Sun H. Application of machine learning in spatial proteomics. J Chem Inf Model. 2022. https://doi.org/10.1021/acs.jcim.2c01161 .
Orre LM, Vesterlund M, Pan Y, Arslan T. SubCellBarCode: proteome-wide mapping of protein localization and relocalization. Mol Cell. 2019. https://doi.org/10.1016/j.molcel.2018.11.035 .
Mund A, Brunner AD, Mann M. Unbiased spatial proteomics with single-cell resolution in tissues. Mol Cell. 2022. https://doi.org/10.1016/j.molcel.2022.05.022 .
Mund A, Coscia F, Kriston A, Hollandi R. Deep Visual Proteomics defines single-cell identity and heterogeneity. Nat Biotechnol. 2022. https://doi.org/10.1038/s41587-022-01302-5 .
Lundberg E, Borner GHH. Spatial proteomics: a powerful discovery tool for cell biology. Nat Rev Mol Cell Biol. 2019. https://doi.org/10.1038/s41580-018-0094-y .
Xu J, Liu Y. A guide to visualizing the spatial epigenome with super-resolution microscopy. FEBS J. 2019. https://doi.org/10.1111/febs.14938 .
Chen X, Xu H, Shu X, Song CX. Mapping epigenetic modifications by sequencing technologies. Cell Death Differ. 2023. https://doi.org/10.1038/s41418-023-01213-1 .
Zhang Y, Sun Z, Jia J, Du T. Overview of histone modification. Adv Exp Med Biol. 2021. https://doi.org/10.1007/978-981-15-8104-5_1 .
Wang KC, Chang HY. Epigenomics: technologies and applications. Circ Res. 2018. https://doi.org/10.1161/CIRCRESAHA.118.310998 .
Schueder F, Bewersdorf J. Omics goes spatial epigenomics. Cell. 2022. https://doi.org/10.1016/j.cell.2022.10.014 .
Baker SA, Rutter J. Metabolites as signalling molecules. Nat Rev Mol Cell Biol. 2023. https://doi.org/10.1038/s41580-022-00572-w .
Chen Y, Li EM, Xu LY. Guide to metabolomics analysis: a bioinformatics workflow. Metabolites. 2022. https://doi.org/10.3390/metabo12040357 .
Alseekh S, Aharoni A, Brotman Y, Contrepois K. Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices. Nat Methods. 2021. https://doi.org/10.1038/s41592-021-01197-1 .
Lee DY, Bowen BP, Northen TR. Mass spectrometry-based metabolomics, analysis of metabolite-protein interactions, and imaging. Biotechniques. 2010. https://doi.org/10.2144/000113451 .
Gertsman I, Barshop BA. Promises and pitfalls of untargeted metabolomics. J Inherit Metab Dis. 2018. https://doi.org/10.1007/s10545-017-0130-7 .
Roberts LD, Souza AL, Gerszten RE, Clish CB. Targeted metabolomics. Curr Protoc Mol Biol. 2012. https://doi.org/10.1002/0471142727.mb3002s98 .
Ghaste M, Mistrik R, Shulaev V. Applications of Fourier transform ion cyclotron resonance (FT-ICR) and orbitrap based high resolution mass spectrometry in metabolomics and lipidomics. Int J Mol Sci. 2016. https://doi.org/10.3390/ijms17060816 .
Dona AC, Kyriakides M, Scott F, Shephard EA. A guide to the identification of metabolites in NMR-based metabonomics/metabolomics experiments. Comput Struct Biotechnol J. 2016. https://doi.org/10.1016/j.csbj.2016.02.005 .
Dudley E, Yousef M, Wang Y, Griffiths WJ. Targeted metabolomics and mass spectrometry. Adv Protein Chem Struct Biol. 2010. https://doi.org/10.1016/B978-0-12-381264-3.00002-3 .
Patti GJ, Yanes O, Siuzdak G. Innovation: metabolomics: the apogee of the omics trilogy. Nat Rev Mol Cell Biol. 2012. https://doi.org/10.1038/nrm3314 .
Zhou B, Xiao JF, Tuli L, Ressom HW. LC-MS-based metabolomics. Mol Biosyst. 2012. https://doi.org/10.1039/c1mb05350g .
Thomas SN, French D, Jannetto PJ, Rappold BA. Liquid chromatography-tandem mass spectrometry for clinical diagnostics. Nat Rev Methods Primers. 2022. https://doi.org/10.1038/s43586-022-00175-x .
Duncan KD, Fyrestam J, Lanekoff I. Advances in mass spectrometry based single-cell metabolomics. Analyst. 2019. https://doi.org/10.1039/c8an01581c .
Zamboni N, Saghatelian A, Patti GJ. Defining the metabolome: size, flux, and regulation. Mol Cell. 2015. https://doi.org/10.1016/j.molcel.2015.04.021 .
Kuhl C, Tautenhahn R, Böttcher C, Larson TR. CAMERA: an integrated strategy for compound spectra extraction and annotation of liquid chromatography/mass spectrometry data sets. Anal Chem. 2012. https://doi.org/10.1021/ac202450g .
Mahieu NG, Huang X, Chen Y Jr, Patti GJ. Credentialing features: a platform to benchmark and optimize untargeted metabolomic methods. Anal Chem. 2014. https://doi.org/10.1021/ac503092d .
Bingol K. Recent advances in targeted and untargeted metabolomics by NMR and MS/NMR methods. High Throughput. 2018. https://doi.org/10.3390/ht7020009 .
Rueedi R, Mallol R, Raffler J, Lamparter D. Metabomatching: using genetic association to identify metabolites in proton NMR spectroscopy. PLoS Comput Biol. 2017. https://doi.org/10.1371/journal.pcbi.1005839 .
Chen S, Lake BB, Zhang K. High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell. Nat Biotechnol. 2019. https://doi.org/10.1038/s41587-019-0290-0 .
Bian X, Wang W, Abudurexiti M, Zhang X. Integration analysis of single-cell multi-omics reveals prostate cancer heterogeneity. Adv Sci (Weinh). 2024. https://doi.org/10.1002/advs.202305724 .
Chen A, Liao S, Cheng M, Ma K. Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays. Cell. 2022. https://doi.org/10.1016/j.cell.2022.04.003 .
Lu T, Ang CE, Zhuang X. Spatially resolved epigenomic profiling of single cells in complex tissues. Cell. 2022. https://doi.org/10.1016/j.cell.2022.09.035 .
Vicari M, Mirzazadeh R, Nilsson A, Shariatgorji R. Spatial multimodal analysis of transcriptomes and metabolomes in tissues. Nat Biotechnol. 2023. https://doi.org/10.1038/s41587-023-01937-y .
Deng Y, Bartosovic M, Ma S, Zhang D. Spatial profiling of chromatin accessibility in mouse and human tissues. Nature. 2022. https://doi.org/10.1038/s41586-022-05094-1 .
Deng Y, Bartosovic M, Kukanja P, Zhang D. Spatial-CUT&Tag: spatially resolved chromatin modification profiling at the cellular level. Science. 2022. https://doi.org/10.1126/science.abg7216 .
Liu Y, Yang M, Deng Y, Su G. High-spatial-resolution multi-omics sequencing via deterministic barcoding in tissue. Cell. 2020. https://doi.org/10.1016/j.cell.2020.10.026 .
Chen C, Wang J, Pan D, Wang X. Applications of multi-omics analysis in human diseases. MedComm. 2023. https://doi.org/10.1002/mco2.315.6 .
Takei Y, Yun J, Zheng S, Ollikainen N. Integrated spatial genomics reveals global architecture of single nuclei. Nature. 2021. https://doi.org/10.1038/s41586-020-03126-2 .
Slyper M, Porter CBM, Ashenberg O, Waldman J. A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors. Nat Med. 2020. https://doi.org/10.1038/s41591-020-0844-1 .
Stoeckius M, Hafemeister C, Stephenson W, Houck-Loomis B. Simultaneous epitope and transcriptome measurement in single cells. Nat Methods. 2017. https://doi.org/10.1038/nmeth.4380 .
Vickovic S, Lötstedt B, Klughammer J, Mages S. SM-Omics is an automated platform for high-throughput spatial multi-omics. Nat Commun. 2022. https://doi.org/10.1038/s41467-022-28445-y .
Hernandez S, Lazcano R, Serrano A, Powell S. Challenges and opportunities for immunoprofiling using a spatial high-plex technology: The NanoString GeoMx(®) digital spatial profiler. Front Oncol. 2022. https://doi.org/10.3389/fonc.2022.890410 .
Liu Y, Distasio M, Su G, Asashima H. Spatial-CITE-seq: spatially resolved high-plex protein and whole transcriptome co-mapping. Res Sq. 2022. https://doi.org/10.21203/rs.3.rs-1499315/v1 .
Qin X, Ning Y, Zhou L, Zhu Y. Oral submucous fibrosis: etiological mechanism, malignant transformation, therapeutic approaches and targets. Int J Mol Sci. 2023. https://doi.org/10.3390/ijms24054992 .
Zhi Y, Wang Q, Zi M, Zhang S. Spatial transcriptomic and metabolomic landscapes of oral submucous fibrosis-derived oral squamous cell carcinoma and its tumor microenvironment. Adv Sci (Weinh). 2024. https://doi.org/10.1002/advs.202306515 .
Zheng P, Zhang N, Ren D, Yu C. Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain. Cell Rep Med. 2023. https://doi.org/10.1016/j.xcrm.2023.101057 .
Tang L. Spatially resolved multiomics. Nat Methods. 2023. https://doi.org/10.1038/s41592-023-02110-8 .
Wu X, Xu W, Deng L, Li Y. Spatial multi-omics at subcellular resolution via high-throughput in situ pairwise sequencing. Nat Biomed Eng. 2024. https://doi.org/10.1038/s41551-024-01205-7 .
Muster B, Rapp A, Cardoso MC. Systematic analysis of DNA damage induction and DNA repair pathway activation by continuous wave visible light laser micro-irradiation. AIMS Genet. 2017. https://doi.org/10.3934/genet.2017.1.47 .
Fang R, Xia C, Close JL, Zhang M. Conservation and divergence of cortical cell organization in human and mouse revealed by MERFISH. Science. 2022. https://doi.org/10.1126/science.abm1741 .
Kuppe C, Ramirez Flores RO, Li Z, Hayat S. Spatial multi-omic map of human myocardial infarction. Nature. 2022. https://doi.org/10.1038/s41586-022-05060-x .
Arutyunyan A, Roberts K, Troulé K, Wong FCK. Spatial multiomics map of trophoblast development in early pregnancy. Nature. 2023. https://doi.org/10.1038/s41586-023-05869-0 .
Hsieh W-C, Budiarto BR, Wang Y-F, Lin C-Y. Spatial multi-omics analyses of the tumor immune microenvironment. J Biomed Sci. 2022. https://doi.org/10.1186/s12929-022-00879-y .
Prasetyanti PR, Medema JP. Intra-tumor heterogeneity from a cancer stem cell perspective. Mol Cancer. 2017. https://doi.org/10.1186/s12943-017-0600-4 .
Haffner MC, Zwart W, Roudier MP, True LD. Genomic and phenotypic heterogeneity in prostate cancer. Nat Rev Urol. 2021. https://doi.org/10.1038/s41585-020-00400-w .
Brady L, Kriner M, Coleman I, Morrissey C. Inter- and intra-tumor heterogeneity of metastatic prostate cancer determined by digital spatial gene expression profiling. Nat Commun. 2021. https://doi.org/10.1038/s41467-021-21615-4 .
Jamal-Hanjani M, Wilson GA, Mcgranahan N, Birkbak NJ. Tracking the evolution of non-small-cell lung cancer. N Engl J Med. 2017. https://doi.org/10.1056/NEJMoa1616288 .
Black JRM, Mcgranahan N. Genetic and non-genetic clonal diversity in cancer evolution. Nat Rev Cancer. 2021. https://doi.org/10.1038/s41568-021-00336-2 .
Martínez-Ruiz C, Black JRM, Puttick C, Hill MS. Genomic-transcriptomic evolution in lung cancer and metastasis. Nature. 2023. https://doi.org/10.1038/s41586-023-05706-4 .
Gerlinger M, Rowan AJ, Horswell S, Math M. Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N Engl J Med. 2012. https://doi.org/10.1056/NEJMoa1113205 .
Wu HJ, Temko D, Maliga Z, Moreira AL. Spatial intra-tumor heterogeneity is associated with survival of lung adenocarcinoma patients. Cell Genom. 2022. https://doi.org/10.1016/j.xgen.2022.100165 .
Ren Z, Qin L, Chen L, Xu H. Spatial lipidomics of EPSPS and PAT transgenic and non-transgenic soybean seeds using matrix-assisted laser desorption/ionization mass spectrometry imaging. J Agric Food Chem. 2023. https://doi.org/10.1021/acs.jafc.3c01377 .
Duhamel M, Drelich L, Wisztorski M, Aboulouard S. Spatial analysis of the glioblastoma proteome reveals specific molecular signatures and markers of survival. Nat Commun. 2022. https://doi.org/10.1038/s41467-022-34208-6 .
Neumann JM, Niehaus K, Neumann N, Knobloch HC. A new technological approach in diagnostic pathology: mass spectrometry imaging-based metabolomics for biomarker detection in urachal cancer. Lab Invest. 2021. https://doi.org/10.1038/s41374-021-00612-7 .
Moncada R, Barkley D, Wagner F, Chiodin M. Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas. Nat Biotechnol. 2020. https://doi.org/10.1038/s41587-019-0392-8 .
Sun C, Wang A, Zhou Y, Chen P. Spatially resolved multi-omics highlights cell-specific metabolic remodeling and interactions in gastric cancer. Nat Commun. 2023. https://doi.org/10.1038/s41467-023-38360-5 .
Bechtel TJ, Reyes-Robles T, Fadeyi OO, Oslund RC. Strategies for monitoring cell–cell interactions. Nat Chem Biol. 2021. https://doi.org/10.1038/s41589-021-00790-x .
Neftel C, Laffy J, Filbin MG, Hara T. An integrative model of cellular states, plasticity, and genetics for glioblastoma. Cell. 2019. https://doi.org/10.1016/j.cell.2019.06.024 .
Couturier CP, Ayyadhury S, Le PU, Nadaf J. Single-cell RNA-seq reveals that glioblastoma recapitulates a normal neurodevelopmental hierarchy. Nat Commun. 2020. https://doi.org/10.1038/s41467-020-17186-5 .
Ravi VM, Will P, Kueckelhaus J, Sun N. Spatially resolved multi-omics deciphers bidirectional tumor-host interdependence in glioblastoma. Cancer Cell. 2022. https://doi.org/10.1016/j.ccell.2022.05.009 .
Frede A, Czarnewski P, Monasterio G, Tripathi KP. B cell expansion hinders the stroma-epithelium regenerative cross talk during mucosal healing. Immunity. 2022. https://doi.org/10.1016/j.immuni.2022.11.002 .
Zhang Y, Zeng F, Han X, Weng J. Lineage tracing: technology tool for exploring the development, regeneration, and disease of the digestive system. Stem Cell Res Ther. 2020. https://doi.org/10.1186/s13287-020-01941-y .
Kester L, Van Oudenaarden A. Single-cell transcriptomics meets lineage tracing. Cell Stem Cell. 2018. https://doi.org/10.1016/j.stem.2018.04.014 .
Vanhorn S, Morris SA. Next-generation lineage tracing and fate mapping to interrogate development. Dev Cell. 2021. https://doi.org/10.1016/j.devcel.2020.10.021 .
Wagner DE, Klein AM. Lineage tracing meets single-cell omics: opportunities and challenges. Nat Rev Genet. 2020. https://doi.org/10.1038/s41576-020-0223-2 .
Zhang B, He P, Lawrence JEG, Wang S. A human embryonic limb cell atlas resolved in space and time. Nature. 2023. https://doi.org/10.1038/s41586-023-06806-x .
Bao Y, Wang G, Li H. Approaches for studying human macrophages. Trends Immunol. 2024. https://doi.org/10.1016/j.it.2024.02.007 .
Su G, Qin X, Enninful A, Bai Z. Spatial multi-omics sequencing for fixed tissue via DBiT-seq. STAR Protoc. 2021. https://doi.org/10.1016/j.xpro.2021.100532 .
Liao X, Scheidereit E, Kuppe C. New tools to study renal fibrogenesis. Curr Opin Nephrol Hypertens. 2024. https://doi.org/10.1097/mnh.0000000000000988 .
Park J, Kim J, Lewy T, Rice CM. Spatial omics technologies at multimodal and single cell/subcellular level. Genome Biol. 2022. https://doi.org/10.1186/s13059-022-02824-6 .
Li Z, Lu Y, Yang L. Imaging and spatial omics of kidney injury: significance, challenges, advances and perspectives. Med Rev. 2023. https://doi.org/10.1515/mr-2023-0046 .
Mullen NJ, Singh PK. Nucleotide metabolism: a pan-cancer metabolic dependency. Nat Rev Cancer. 2023. https://doi.org/10.1038/s41568-023-00557-7 .
Arner EN, Rathmell JC. Metabolic programming and immune suppression in the tumor microenvironment. Cancer Cell. 2023. https://doi.org/10.1016/j.ccell.2023.01.009 .
Wang H, Rong X, Zhao G, Zhou Y. The microbial metabolite trimethylamine N-oxide promotes antitumor immunity in triple-negative breast cancer. Cell Metab. 2022. https://doi.org/10.1016/j.cmet.2022.02.010 .
Liu Y-M, Ge J-Y, Chen Y-F, Liu T. Combined single-cell and spatial transcriptomics reveal the metabolic evolvement of breast cancer during early dissemination. Adv Sci. 2023. https://doi.org/10.1002/advs.202205395 .
Tang HH, Li HL, Li YX, You Y. Protective effects of a traditional Chinese herbal formula Jiang-Xian HuGan on Concanavalin A-induced mouse hepatitis via NF-κB and Nrf2 signaling pathways. J Ethnopharmacol. 2018. https://doi.org/10.1016/j.jep.2018.02.003 .
Chen P, Zhu Z, Geng H, Cui X. Integrated spatial metabolomics and transcriptomics decipher the hepatoprotection mechanisms of wedelolactone and demethylwedelolactone on non-alcoholic fatty liver disease. J Pharm Anal. 2024. https://doi.org/10.1016/j.jpha.2023.11.017 .
Rothammer N, Woo MS, Bauer S, Binkle-Ladisch L. G9a dictates neuronal vulnerability to inflammatory stress via transcriptional control of ferroptosis. Sci Adv. 2022. https://doi.org/10.1126/sciadv.abm5500 .
Wu T, Ning S, Zhang H, Cao Y. Role of ferroptosis in neuroimmunity and neurodegeneration in multiple sclerosis revealed by multi-omics data. J Cell Mol Med. 2024. https://doi.org/10.1111/jcmm.18396 .
Mennillo E, Kim YJ, Lee G, Rusu I. Single-cell and spatial multi-omics highlight effects of anti-integrin therapy across cellular compartments in ulcerative colitis. Nat Commun. 2024. https://doi.org/10.1038/s41467-024-45665-6 .
Xu R, Li C, Liu X, Gao S. Insights into epigenetic patterns in mammalian early embryos. Protein Cell. 2021. https://doi.org/10.1007/s13238-020-00757-z .
Zhang X, Cao Q, Rajachandran S, Grow EJ. Dissecting mammalian reproduction with spatial transcriptomics. Hum Reprod Update. 2023. https://doi.org/10.1093/humupd/dmad017 .
Winkler I, Tolkachov A, Lammers F, Lacour P. The cycling and aging mouse female reproductive tract at single-cell resolution. Cell. 2024. https://doi.org/10.1016/j.cell.2024.01.021 .
Yang F, Zhao Z, Zhang D, Xiong Y. Single-cell multi-omics analysis of lineage development and spatial organization in the human fetal cerebellum. Cell Discov. 2024. https://doi.org/10.1038/s41421-024-00656-1 .
Li X, Andrusivova Z, Czarnewski P, Langseth CM. Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin. Nat Neurosci. 2023. https://doi.org/10.1038/s41593-023-01312-9 .
Chen KH, Boettiger AN, Moffitt JR, Wang S. RNA imaging. Spatially resolved, highly multiplexed RNA profiling in single cells. Science. 2015. https://doi.org/10.1126/science.aaa6090 .
Su JH, Zheng P, Kinrot SS, Bintu B. Genome-scale imaging of the 3D organization and transcriptional activity of chromatin. Cell. 2020. https://doi.org/10.1016/j.cell.2020.07.032 .
Jiang F, Zhou X, Qian Y, Zhu M. Simultaneous profiling of spatial gene expression and chromatin accessibility during mouse brain development. Nat Methods. 2023. https://doi.org/10.1038/s41592-023-01884-1 .
Liu S, Iorgulescu JB, Li S, Borji M. Spatial maps of T cell receptors and transcriptomes reveal distinct immune niches and interactions in the adaptive immune response. Immunity. 2022. https://doi.org/10.1016/j.immuni.2022.09.002 .
Liu Y, Distasio M, Su G, Asashima H. High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq. Nat Biotechnol. 2023. https://doi.org/10.1038/s41587-023-01676-0 .
Srivastava AK, Wang Y, Huang R, Skinner C. Human genome meeting 2016: Houston, TX, USA. 28 February–2 March 2016. Hum Genom. 2016. https://doi.org/10.1186/s40246-016-0063-5 .
Shah S, Takei Y, Zhou W, Lubeck E. dynamics and spatial genomics of the nascent transcriptome by intron seqFISH. Cell. 2018. https://doi.org/10.1016/j.cell.2018.05.035 .
Xia C, Fan J, Emanuel G, Hao J. Spatial transcriptome profiling by MERFISH reveals subcellular RNA compartmentalization and cell cycle-dependent gene expression. Proc Natl Acad Sci U S A. 2019. https://doi.org/10.1073/pnas.1912459116 .
Vicari M, Mirzazadeh R, Nilsson A, Shariatgorji R. Spatial multimodal analysis of transcriptomes and metabolomes in tissues. Nat Biotechnol. 2024. https://doi.org/10.1038/s41587-023-01937-y .
Liu YM, Ge JY, Chen YF, Liu T. Combined single-cell and spatial transcriptomics reveal the metabolic evolvement of breast cancer during early dissemination. Adv Sci (Weinh). 2023. https://doi.org/10.1002/advs.202205395 .
Download references
Thank you for drawing materials from SMART—Servier Medical ART and SciDraw | Scientific Drawings.
The National Key R&D Program of China (2021YFC2701201 to P.W.), the Natural Science Foundation of China (82072895 and 82372929 to P.W., 82141106 to M.D., 82203453 to C. C.), and Foundation of Tongji Hospital (24-2KYC13057-08 to C. C.).
Authors and affiliations.
Department of Obstetrics and Gynecology, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei, China
Xiaojie Liu, Ting Peng, Miaochun Xu, Shitong Lin, Binghan Liu, Yashi Xu & Peng Wu
Department of Gynecologic Oncology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei, China
Bai Hu, Tian Chu, Wencheng Ding, Li Li & Canhui Cao
National Clinical Research Center for Obstetrics and Gynecology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei, China
Xiaojie Liu, Ting Peng, Miaochun Xu, Shitong Lin, Bai Hu, Tian Chu, Binghan Liu, Yashi Xu, Wencheng Ding, Li Li, Canhui Cao & Peng Wu
Cancer Biology Research Center (Key Laboratory of the Ministry of Education), Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei, China
You can also search for this author in PubMed Google Scholar
P. W. and X. L. conceived the whole article and completed the original draft preparation. P. W. and C. C. performed major reviews and edited the structure of the article. The primary drawing effort was done by T. P. and C. X. During subsequent revisions of the article, S. L., B. H., T. C., B. L., Y. X., W. D., and L. L. have touched up the language of the article and participated in the revision process of the later article. All authors reviewed the manuscript.
Correspondence to Canhui Cao or Peng Wu .
Consent for publication.
Not applicable.
The authors declare no competing interests.
Publisher's note.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Open Access This article is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which permits any non-commercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if you modified the licensed material. You do not have permission under this licence to share adapted material derived from this article or parts of it. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by-nc-nd/4.0/ .
Reprints and permissions
Cite this article.
Liu, X., Peng, T., Xu, M. et al. Spatial multi-omics: deciphering technological landscape of integration of multi-omics and its applications. J Hematol Oncol 17 , 72 (2024). https://doi.org/10.1186/s13045-024-01596-9
Download citation
Received : 22 May 2024
Accepted : 09 August 2024
Published : 24 August 2024
DOI : https://doi.org/10.1186/s13045-024-01596-9
Anyone you share the following link with will be able to read this content:
Sorry, a shareable link is not currently available for this article.
Provided by the Springer Nature SharedIt content-sharing initiative
ISSN: 1756-8722
BMC Medical Research Methodology volume 24 , Article number: 183 ( 2024 ) Cite this article
200 Accesses
2 Altmetric
Metrics details
While there is an interest in defining longitudinal change in people with chronic illness like Parkinson’s disease (PD), statistical analysis of longitudinal data is not straightforward for clinical researchers. Here, we aim to demonstrate how the choice of statistical method may influence research outcomes, (e.g., progression in apathy), specifically the size of longitudinal effect estimates, in a cohort.
In this retrospective longitudinal analysis of 802 people with typical Parkinson’s disease in the Luxembourg Parkinson's study, we compared the mean apathy scores at visit 1 and visit 8 by means of the paired two-sided t-test. Additionally, we analysed the relationship between the visit numbers and the apathy score using linear regression and longitudinal two-level mixed effects models.
Mixed effects models were the only method able to detect progression of apathy over time. While the effects estimated for the group comparison and the linear regression were smaller with high p -values (+ 1.016/ 7 years, p = 0.107, -0.056/ 7 years, p = 0.897, respectively), effect estimates for the mixed effects models were positive with a very small p -value, indicating a significant increase in apathy symptoms by + 2.345/ 7 years ( p < 0.001).
The inappropriate use of paired t-tests and linear regression to analyse longitudinal data can lead to underpowered analyses and an underestimation of longitudinal change. While mixed effects models are not without limitations and need to be altered to model the time sequence between the exposure and the outcome, they are worth considering for longitudinal data analyses. In case this is not possible, limitations of the analytical approach need to be discussed and taken into account in the interpretation.
Peer Review reports
In longitudinal studies: “an outcome is repeatedly measured, i.e., the outcome variable is measured in the same subject on several occasions.” [ 1 ]. When assessing the same individuals over time, the different data points are likely to be more similar to each other than measurements taken from other individuals. Consequently, the application of special statistical techniques is required, which take into account the fact that the repeated observations of each subject are correlated [ 1 ]. Parkinson’s disease (PD) is a heterogeneous neurodegenerative disorder resulting in a wide variety of motor and non-motor symptoms including apathy, defined as a disorder of motivation, characterised by reduced goal-directed behaviour and cognitive activity and blunted affect [ 2 ]. Apathy increases over time in people with PD [ 3 ]. Specifically, apathy has been associated with the progressive denervation of ascending dopaminergic pathways in PD [ 4 , 5 ] leading to dysfunctions of circuits implicated in reward-related learning [ 5 ].
T-tests are often misused to analyse changes over time [ 6 ]. Consequently, we aim to demonstrate how the choice of statistical method may influence research outcomes, specifically the size and interpretation of longitudinal effect estimates in a cohort. Thus, the findings are intended for illustrative and educational purposes related to the statistical methodology. In a retrospective analysis of data from the Luxembourg Parkinson's study, a nation-wide, monocentric, observational, longitudinal-prospective dynamic cohort [ 7 , 8 ], we assess change in apathy using three different statistical approaches (paired t-test, linear regression, mixed effects model). We defined the following target estimand: In people diagnosed with PD, what is the change in the apathy score from visit 1 to visit 8? To estimate this change, we formulated the statistical hypothesis as follows:
While apathy was the dependent variable, we included the visit number as an independent variable (linear regression, mixed effects model) and as a grouping variable (paired t-test). The outcome apathy was measured by the discrete score from the Starkstein apathy scale (0 – 42, higher = worse) [ 9 ], a scale recommended by the Movement Disorders Society [ 10 ]. This data was obtained from the National Centre of Excellence in Research on Parkinson's disease (NCER-PD). The establishment of data collection standards, completion of the questionnaires at home at the participants’ convenience, mobile recruitment team for follow-up visits or standardized telephone questionnaire with a reduced assessment were part of the efforts in the primary study to address potential sources of bias [ 7 , 8 ]. Ethical approval was provided by the National Ethics Board (CNER Ref: 201,407/13). We used data from up to eight visits, which were performed annually between 2015 and 2023. Among the participants are people with typical PD and PD dementia (PDD), living mostly at home in Luxembourg and the Greater Region (geographically close areas of the surrounding countries Belgium, France, and Germany). People with atypical PD were excluded. The sample at the date of data export (2023.06.22) consisted of 802 individuals of which 269 (33.5%) were female. The average number of observations was 3.0. Fig. S1 reports the numbers of individuals at each visit while the characteristics of the participants are described in Table 1 .
As illustrated in the flow diagram (Fig. 1 ), the sample analysed from the paired t-test is highly selective: from the 802 participants at visit 1, the t-test only included 63 participants with data from visit 8. This arises from the fact that, first, we analyse the dataset from a dynamic cohort, i.e., the data at visit 1 were not collected at the same time point. Thus, 568 of the 802 participants joined the study less than eight years before, leading to only 234 participants eligible for the eighth yearly visit. Second, after excluding non-participants at visit 8 due to death ( n = 41) and other reasons ( n = 130), only 63 participants at visit 8 were left. To discuss the selective study population of a paired t-test, we compared the characteristics (age, education, age at diagnosis, apathy at visit 1) of the remaining 63 participants at visit 8 (included in the paired t-test) and the 127 non-participants at visit 8 (excluded from the paired t-test) [ 12 ].
Flow diagram of patient recruitment
The paired two-sided t-test compared the mean apathy score at visit 1 with the mean apathy score at the visit 8. We attract the reader’s attention to the fact that this implies a rather small sample size as it includes only those people with data from the first and 8th visit. The linear regression analysed the relationship between the visit number and the apathy score (using the “stats” package [ 13 ]), while we performed longitudinal two-level mixed effects models analysis with a random intercept on subject level, a random slope for visit number and the visit number as fixed effect (using the “lmer”-function of the “lme4”-package [ 14 ]). The latter two approaches use all available data from all visits while the paired t-test does not. We illustrated the analyses in plots with the function “plot_model” of the R package sjPlot [ 15 ]. We conducted data analysis using R version 3.6.3 [ 13 ] and the R syntax for all analyses is provided on the OSF project page ( https://doi.org/ https://doi.org/10.17605/OSF.IO/NF4YB ).
Panel A in Fig. 2 illustrates the means and standard deviations of apathy for all participants at each visit, while the flow-chart (Fig. S1 ) illustrates the number of participants at each stage. On average, we see lower apathy scores at visit 8 compared to visit 1 (higher score = worse). By definition, the paired t-test analyses pairs, and in this case, only participants with complete apathy scores at visit 1 and visit 8 are included, reducing the total analysed sample to 63 pairs of observations. Consequently, the t-test compares mean apathy scores in a subgroup of participants with data at both visits leading to different observations from Panel A, as illustrated and described in Panel B: the apathy score has increased at visit 8, hence symptoms of apathy have worsened. The outcome of the t-test along with the code is given in Table 2 . Interestingly, the effect estimates for the increase in apathy were not statistically significant (+ 1.016 points, 95%CI: -0.225, 2.257, p = 0.107). A possible reason for this non-significance is a loss of statistical power due to a small sample size included in the paired t-test. To visualise the loss of information between visit 1 and visit 8, we illustrated the complex individual trajectories of the participants in Fig. 3 . Moreover, as described in Table S1 in the supplement, the participants at visit 8 (63/190) analysed in the t-test were inherently significantly different compared to the non-participants at visit 8 (127/190): they were younger, had better education, and most importantly their apathy scores at visit 1 were lower. Consequently, those with the better overall situation kept coming back while this was not the case for those with a worse outcome at visit 1, which explains the observed (non-significant) increase. This may result in a biased estimation of change in apathy when analysed by the compared statistical methods.
Bar charts illustrating apathy scores (means and standard deviations) per visit (Panel A: all participants, Panel B: subgroup analysed in the t-test). The red line indicates the mean apathy at visit 1
Scatterplot illustrating the individual trajectories. The red line indicates the regression line
From the results in Table 2 , we see that the linear regression coefficient, representing change in apathy symptoms per year, is not significantly different from zero, indicating no change over time. One possible explanation is the violation of the assumption of independent observations for linear regressions. On the contrary, the effect estimates for the linear mixed effects models indicated a significant increase in apathy symptoms from visit 1 to visit 8 by + 2.680 points (95%CI: 1.880, 3.472, p < 0.001). Consequently, mixed effects models were the only method able to detect an increase in apathy symptoms over time and choosing mixed effect models for the analysis of longitudinal data reduces the risk of false negative results. The differences in the effect sizes are also reflected in the regression lines in Panel A and B of Fig. 4 .
Scatterplot illustrating the relationship between visit number and apathy. Apathy measured by a whole number interval scale, jitter applied on x- and y-axis to illustrate the data points (Panel A: Linear regression, Panel B: Linear mixed effects model). The red line indicates the regression line
The effect sizes differed depending on the choice of the statistical method. Thus, the paired t-test and the linear regression resulted in an output that would lead to different interpretations than the mixed effects models. More specifically, compared to the t-test and linear regression (which indicated non-significant changes in apathy of only + 1.016, -0.064 points from visit 1 to visit 8, respectively), the linear mixed effects models found an increase of + 2.680 points from visit 1 to visit 8 on the apathy scale. This increase is more than twice as high as indicated by the t-test and suggests linear mixed models is a more sensitive approach to detect meaningful changes perceived by people with PD over time.
Mixed effects models are a valuable tool in longitudinal data analysis as these models expand upon linear regression models by considering the correlation among repeated measurements within the same individuals through the estimation of a random intercept [ 1 , 16 , 17 ]. Specifically, to account for correlation between observations, linear mixed effects models use random effects to explicitly model the correlation structure, thus removing correlation from the error term. A random slope in addition to a random intercept allows both the rate of change and the mean value to vary by participant, capturing individual differences. This distinguishes them from group comparisons or standard linear regressions, in which such explicit modelling of correlation is not possible. Thus, the linear regression not considering correlation among the repeated observations leads to an underestimation of longitudinal change, explaining the smaller effect sizes and insignificant results of the regression. By including random effects, linear mixed effects models can better capture the variability within the data.
Another common challenge in longitudinal studies is missing data. Compared to the paired t-test and regression, the mixed effects models can also include participants with missing data at single visits and account for the individual trajectories of each participant as illustrated in Fig. 2 [ 18 ]. Although multiple imputation could increase the sample size, those results need to be interpreted with caution in case the data is not missing at random [ 18 , 19 ]. Note that we do not further elaborate here on this topic since this is a separate issue to statistical method comparison. Finally, assumptions of the different statistical methods need to be respected. The paired t-test assumes a normal distribution, homogeneity of variance and pairs of the same individuals in both groups [ 20 , 21 ]. While mixed effects models don’t rely on independent observations as it is the case for linear regression, all other assumptions for standard linear regression analysis (e.g., linearity, homoscedasticity, no multicollinearity) also hold for mixed effects model analyses. Thus, additional steps, e.g., check for linearity of the relationships or data transformations are required before the analysis of clinical research questions [ 17 ].
While mixed effects models are not without limitations and need to be altered to model the time sequence between the exposure and the outcome [ 1 ], they are worth considering for longitudinal data analyses. Thus, assuming an increase of apathy over time [ 3 ], mixed effects models were the only method able to detect statistically significant changes in the defined estimand, i.e., the change in apathy from visit 1 to visit 8. Possible reasons are a loss of statistical power due to a small sample size included in the paired t-test and the violence of the assumption of independent observations for linear regressions. Specifically, the effects estimated for the group comparison and the linear regression were smaller with high p -values, indicating a statistically insignificant change in apathy over time. The effect estimates for the mixed effects models were positive with a very small p -value, indicating a statistically significant increase in apathy symptoms from visit 1 to visit 8 in line with clinical expectations. Mixed effects models can be used to estimate different types of longitudinal effects while an inappropriate use of paired t-tests and linear regression to analyse longitudinal data can lead to underpowered analyses and an underestimation of longitudinal change and thus clinical significance. Therefore, researchers should more often consider mixed effects models for longitudinal analyses. In case this is not possible, limitations of the analytical approach need to be discussed and taken into account in the interpretation.
The LUXPARK database used in this study was obtained from the National Centre of Excellence in Research on Parkinson’s disease (NCER-PD). NCER-PD database are not publicly available as they are linked to the Luxembourg Parkinson’s study and its internal regulations. The NCER-PD Consortium is willing to share its available data. Its access policy was devised based on the study ethics documents, including the informed consent form approved by the national ethics committee. Requests for access to datasets should be directed to the Data and Sample Access Committee by email at [email protected].
The code is available on OSF ( https://doi.org/10.17605/OSF.IO/NF4YB )
Parkinson's disease
Null hypothesis
Alternative hypothesis
Parkinson's disease dementia
National Centre of Excellence in Research on Parkinson's disease
Open Science Framework
Confidence Interval
Twisk JWR. Applied Longitudinal Data Analysis for Epidemiology. A Practical Guide: Cambridge University Press; 2013.
Book Google Scholar
Levy R, Dubois B. Apathy and the functional anatomy of the prefrontal cortex-basal ganglia circuits. Cereb Cortex. 2006;16(7):916–28.
Article PubMed Google Scholar
Poewe W, Seppi K, Tanner CM, Halliday GM, Brundin P, Volkmann J, et al. Parkinson disease. Nat Rev Dis Primers. 2017;3:17013.
Pagonabarraga J, Kulisevsky J, Strafella AP, Krack P. Apathy in Parkinson’s disease: clinical features, neural substrates, diagnosis, and treatment. Lancet Neurol. 2015;14(5):518–31.
Drui G, Carnicella S, Carcenac C, Favier M, Bertrand A, Boulet S, Savasta M. Loss of dopaminergic nigrostriatal neurons accounts for the motivational and affective deficits in Parkinson’s disease. Mol Psychiatry. 2014;19(3):358–67.
Article CAS PubMed Google Scholar
Liang G, Fu W, Wang K. Analysis of t-test misuses and SPSS operations in medical research papers. Burns Trauma. 2019;7:31.
Article PubMed PubMed Central Google Scholar
Hipp G, Vaillant M, Diederich NJ, Roomp K, Satagopam VP, Banda P, et al. The Luxembourg Parkinson’s Study: a comprehensive approach for stratification and early diagnosis. Front Aging Neurosci. 2018;10:326.
Pavelka L, Rawal R, Ghosh S, Pauly C, Pauly L, Hanff A-M, et al. Luxembourg Parkinson’s study -comprehensive baseline analysis of Parkinson’s disease and atypical parkinsonism. Front Neurol. 2023;14:1330321.
Starkstein SE, Mayberg HS, Preziosi TJ, Andrezejewski P, Leiguarda R, Robinson RG. Reliability, validity, and clinical correlates of apathy in Parkinson’s disease. J Neuropsychiatry Clin Neurosci. 1992;4(2):134–9.
Leentjens AF, Dujardin K, Marsh L, Martinez-Martin P, Richard IH, Starkstein SE, et al. Apathy and anhedonia rating scales in Parkinson’s disease: critique and recommendations. Mov Disord. 2008;23(14):2004–14.
Goetz CG, Tilley BC, Shaftman SR, Stebbins GT, Fahn S, Martinez-Martin P, et al. Movement Disorder Society-sponsored revision of the Unified Parkinson’s Disease Rating Scale (MDS-UPDRS): scale presentation and clinimetric testing results. Mov Disord. 2008;23(15):2129–70.
Little RJA. A test of missing completely at random for multivariate data with missing values. J Am Stat Assoc. 1988;83(404):1198–202.
Article Google Scholar
R Core Team. R: A language and environment for statistical computing Vienna: R Foundation for Statistical Computing; 2023. Available from: https://www.R-project.org/ .
Bates D, Maechler M, Bolker B, Walker S. Fitting linear mixed-effects models using lme4. J Stat Softw. 2015;67:1–48.
Lüdecke D. sjPlot: Data Visualization for Statistics in Social Science. 2022 [R package version 2.8.11]. Available from: https://CRAN.R-project.org/package=sjPlot .
Twisk JWR. Applied Multilevel Analysis: A Practical Guide for Medical Researchers. Cambridge: Cambridge University Press; 2006.
Twisk JWR. Applied Mixed Model Analysis. New York: A Practical Guide; 2019.
Long DJ. Longitudinal data analysis for the behavioral sciences using R. United States of America: SAGE; 2012.
Google Scholar
Twisk JWR, de Boer M, de Vente W, Heymans M. Multiple imputation of missing values was not necessary before performing a longitudinal mixed-model analysis. J Clin Epidemiol. 2013;66(9):1022–8.
Student. The probable error of a mean. Biometrika. 1908;6(1):1–25.
Polit DF. Statistics and Data Analysis for Nursing Research. England: Pearson; 2014.
Download references
We would like to thank all participants of the Luxembourg Parkinson’s Study for their important support of our research. Furthermore, we acknowledge the joint effort of the National Centre of Excellence in Research on Parkinson’s Disease (NCER-PD) Consortium members from the partner institutions Luxembourg Centre for Systems Biomedicine, Luxembourg Institute of Health, Centre Hospitalier de Luxembourg, and Laboratoire National de Santé generally contributing to the Luxembourg Parkinson’s Study as listed below:
Geeta ACHARYA 2, Gloria AGUAYO 2, Myriam ALEXANDRE 2, Muhammad ALI 1, Wim AMMERLANN 2, Giuseppe ARENA 1, Michele BASSIS 1, Roxane BATUTU 3, Katy BEAUMONT 2, Sibylle BÉCHET 3, Guy BERCHEM 3, Alexandre BISDORFF 5, Ibrahim BOUSSAAD 1, David BOUVIER 4, Lorieza CASTILLO 2, Gessica CONTESOTTO 2, Nancy DE BREMAEKER 3, Brian DEWITT 2, Nico DIEDERICH 3, Rene DONDELINGER 5, Nancy E. RAMIA 1, Angelo Ferrari 2, Katrin FRAUENKNECHT 4, Joëlle FRITZ 2, Carlos GAMIO 2, Manon GANTENBEIN 2, Piotr GAWRON 1, Laura Georges 2, Soumyabrata GHOSH 1, Marijus GIRAITIS 2,3, Enrico GLAAB 1, Martine GOERGEN 3, Elisa GÓMEZ DE LOPE 1, Jérôme GRAAS 2, Mariella GRAZIANO 7, Valentin GROUES 1, Anne GRÜNEWALD 1, Gaël HAMMOT 2, Anne-Marie HANFF 2, 10, 11, Linda HANSEN 3, Michael HENEKA 1, Estelle HENRY 2, Margaux Henry 2, Sylvia HERBRINK 3, Sascha HERZINGER 1, Alexander HUNDT 2, Nadine JACOBY 8, Sonja JÓNSDÓTTIR 2,3, Jochen KLUCKEN 1,2,3, Olga KOFANOVA 2, Rejko KRÜGER 1,2,3, Pauline LAMBERT 2, Zied LANDOULSI 1, Roseline LENTZ 6, Laura LONGHINO 3, Ana Festas Lopes 2, Victoria LORENTZ 2, Tainá M. MARQUES 2, Guilherme MARQUES 2, Patricia MARTINS CONDE 1, Patrick MAY 1, Deborah MCINTYRE 2, Chouaib MEDIOUNI 2, Francoise MEISCH 1, Alexia MENDIBIDE 2, Myriam MENSTER 2, Maura MINELLI 2, Michel MITTELBRONN 1, 2, 4, 10, 12, 13, Saïda MTIMET 2, Maeva Munsch 2, Romain NATI 3, Ulf NEHRBASS 2, Sarah NICKELS 1, Beatrice NICOLAI 3, Jean-Paul NICOLAY 9, Fozia NOOR 2, Clarissa P. C. GOMES 1, Sinthuja PACHCHEK 1, Claire PAULY 2,3, Laure PAULY 2, 10, Lukas PAVELKA 2,3, Magali PERQUIN 2, Achilleas PEXARAS 2, Armin RAUSCHENBERGER 1, Rajesh RAWAL 1, Dheeraj REDDY BOBBILI 1, Lucie REMARK 2, Ilsé Richard 2, Olivia ROLAND 2, Kirsten ROOMP 1, Eduardo ROSALES 2, Stefano SAPIENZA 1, Venkata SATAGOPAM 1, Sabine SCHMITZ 1, Reinhard SCHNEIDER 1, Jens SCHWAMBORN 1, Raquel SEVERINO 2, Amir SHARIFY 2, Ruxandra SOARE 1, Ekaterina SOBOLEVA 1,3, Kate SOKOLOWSKA 2, Maud Theresine 2, Hermann THIEN 2, Elodie THIRY 3, Rebecca TING JIIN LOO 1, Johanna TROUET 2, Olena TSURKALENKO 2, Michel VAILLANT 2, Carlos VEGA 2, Liliana VILAS BOAS 3, Paul WILMES 1, Evi WOLLSCHEID-LENGELING 1, Gelani ZELIMKHANOV 2,3
1 Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
2 Luxembourg Institute of Health, Strassen, Luxembourg
3 Centre Hospitalier de Luxembourg, Strassen, Luxembourg
4 Laboratoire National de Santé, Dudelange, Luxembourg
5 Centre Hospitalier Emile Mayrisch, Esch-sur-Alzette, Luxembourg
6 Parkinson Luxembourg Association, Leudelange, Luxembourg
7 Association of Physiotherapists in Parkinson's Disease Europe, Esch-sur-Alzette, Luxembourg
8 Private practice, Ettelbruck, Luxembourg
9 Private practice, Luxembourg, Luxembourg
10 Faculty of Science, Technology and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
11 Department of Epidemiology, CAPHRI School for Public Health and Primary Care, Maastricht University Medical Centre+, Maastricht, the Netherlands
12 Luxembourg Center of Neuropathology, Dudelange, Luxembourg
13 Department of Life Sciences and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
This work was supported by grants from the Luxembourg National Research Fund (FNR) within the National Centre of Excellence in Research on Parkinson's disease [NCERPD(FNR/NCER13/BM/11264123)]. The funding body played no role in the design of the study and collection, analysis, interpretation of data, and in writing the manuscript.
Authors and affiliations.
Transversal Translational Medicine, Luxembourg Institute of Health, Strassen, Luxembourg
Anne-Marie Hanff & Rejko Krüger
Translational Neurosciences, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-Sur-Alzette, Luxembourg
Department of Epidemiology, CAPHRI Care and Public Health Research Institute, Maastricht University Medical Centre+, Maastricht, The Netherlands
Anne-Marie Hanff
Department of Nutrition and Movement Sciences, NUTRIM School of Nutrition and Translational Research in Metabolism, Maastricht University Medical Centre+, Maastricht, The Netherlands
Anne-Marie Hanff & Christopher McCrum
Parkinson Research Clinic, Centre Hospitalier du Luxembourg, Luxembourg, Luxembourg
Rejko Krüger
Department of Mathematics, University of Luxembourg, Esch-Sur-Alzette, Luxembourg
Christophe Ley
You can also search for this author in PubMed Google Scholar
A-MH: Conceptualization, Methodology, Formal analysis, Investigation, Visualization, Project administration, Writing – original draft, Writing – review & editing. RK: Conceptualization, Methodology, Funding, Resources, Supervision, Project administration, Writing – review & editing. CMC: Conceptualization, Methodology, Supervision, Writing – original draft, Writing – review & editing. CL: Conceptualization, Methodology, Writing – original draft, Writing – review & editing.
Correspondence to Anne-Marie Hanff .
Ethics approval and consent to participate.
The study involved human participants, was reviewed and obtained approval from the National Ethics Board Comité National d’Ethique de Recherche (CNER Ref: 201407/13). The study was performed in accordance with the Declaration of Helsinki and patients/participants provided their written informed consent to participate in this study. We confirm that we have read the Journal’s position on issues involved in ethical publication and affirm that this work is consistent with those guidelines.
Competing interests.
The authors declare no competing interests.
Publisher’s note.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary material 1., rights and permissions.
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ . The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/ ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
Reprints and permissions
Cite this article.
Hanff, AM., Krüger, R., McCrum, C. et al. Mixed effects models but not t-tests or linear regression detect progression of apathy in Parkinson’s disease over seven years in a cohort: a comparative analysis. BMC Med Res Methodol 24 , 183 (2024). https://doi.org/10.1186/s12874-024-02301-7
Download citation
Received : 21 March 2024
Accepted : 01 August 2024
Published : 24 August 2024
DOI : https://doi.org/10.1186/s12874-024-02301-7
Anyone you share the following link with will be able to read this content:
Sorry, a shareable link is not currently available for this article.
Provided by the Springer Nature SharedIt content-sharing initiative
ISSN: 1471-2288
Maintenance work is planned from 21:00 BST on Tuesday 20th August 2024 to 21:00 BST on Wednesday 21st August 2024, and on Thursday 29th August 2024 from 11:00 to 12:00 BST.
During this time the performance of our website may be affected - searches may run slowly, some pages may be temporarily unavailable, and you may be unable to log in or to access content. If this happens, please try refreshing your web browser or try waiting two to three minutes before trying again.
We apologise for any inconvenience this might cause and thank you for your patience.
Thermodynamically stable low-na o3 cathode materials driven by intrinsically high ionic potential discrepancy †.
* Corresponding authors
a GRINM (Guangdong) Research Institute for Advanced Materials and Technology, Foshan, Guangdong, P.R. China E-mail: [email protected]
b University of Science and Technology Beijing, Beijing, P.R. China
c China Automotive Battery Research Institute Co., Ltd, Beijing, P.R. China
d School of Materials Science and Engineering, Hubei University, Wuhan, P.R. China
e Eastern Institute for Advanced Study, Eastern Institute of Technology, Ningbo, Zhejiang, P.R. China E-mail: [email protected]
f Powder Metallurgy Research Institute, Central South University, Changsha, Hunan, P.R. China
g Nanjing University of Information Science & Technology, Nanjing, Jiangsu, P.R. China E-mail: [email protected]
h Graphene Composite Research Center, College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen, P.R. China E-mail: [email protected]
i General Research Institute for Nonferrous Metals, Beijing, P.R. China
The thermodynamically stable window for an O3-type layered sodium cathode material is largely determined by its Na stoichiometry; a spontaneous transition to the P-type structure occurs when it is relatively low. With such limitation, the capacity and stability of O3-structured materials become restricted and a potentially promising class of O3-type materials that garner the structural stability of P2-type materials is underexplored. This work discovers that a large ionic potential discrepancy within the transition metal layer acts as a driving force that pushes the Na-ions from prismatic coordination to octahedral coordination. Utilizing this strategy, we have explored a class of off-stoichiometric O3-type materials with exceptionally low Na-stoichiometry (generally forming P2-type structures with higher thermodynamic stability) yet having the structural parameter features of P-type materials. These materials demonstrate rapid O3–P3 phase transition while maintaining a stable solid solution reaction at high voltages, resulting in an impressive P-phase range of 81.4%, thus showing superior performance compared with conventional O3-type materials. This principle provides a great extension to the existing family of layered cathode materials for sodium-ion batteries.
To support increased transparency, we offer authors the option to publish the peer review history alongside their article.
View this article’s peer review history
Download citation, permissions.
M. Li, H. Zhuo, Y. Xu, Q. Jing, Y. Wu, Y. Gu, Z. Liao, K. Wang, M. Song, X. Li, J. Liang, C. Zhao, Y. Jiang, T. Wu, D. Geng, J. Hu, X. Sun and B. Xiao, Energy Environ. Sci. , 2024, Advance Article , DOI: 10.1039/D4EE02359E
To request permission to reproduce material from this article, please go to the Copyright Clearance Center request page .
If you are an author contributing to an RSC publication, you do not need to request permission provided correct acknowledgement is given.
If you are the author of this article, you do not need to request permission to reproduce figures and diagrams provided correct acknowledgement is given. If you want to reproduce the whole article in a third-party publication (excluding your thesis/dissertation for which permission is not required) please go to the Copyright Clearance Center request page .
Read more about how to correctly acknowledge RSC content .
Search articles by author.
This article has not yet been cited.
IMAGES
COMMENTS
Identifying limitations adds credibility to research and provides a deeper understanding of how you arrived at your conclusions. Constraints may have prevented you from collecting specific data or information you hoped would prove or disprove your hypothesis or provide a more comprehensive understanding of your research topic.. However, identifying the limitations contributing to your ...
Possible Limitations of the Researcher. Access-- if your study depends on having access to people, organizations, data, or documents and, for whatever reason, access is denied or limited in some way, the reasons for this needs to be described.Also, include an explanation why being denied or limited access did not prevent you from following through on your study.
Common types of limitations and their ramifications include: Theoretical: limits the scope, depth, or applicability of a study. Methodological: limits the quality, quantity, or diversity of the data. Empirical: limits the representativeness, validity, or reliability of the data. Analytical: limits the accuracy, completeness, or significance of ...
Limitations represent weaknesses within the study that may influence outcomes and conclusions of the research. The goal of presenting limitations is to provide meaningful information to the reader; however, too often, limitations in medical education articles are overlooked or reduced to simplistic and minimally relevant themes (e.g., single ...
Limitations in Research. Limitations in research refer to the factors that may affect the results, conclusions, and generalizability of a study.These limitations can arise from various sources, such as the design of the study, the sampling methods used, the measurement tools employed, and the limitations of the data analysis techniques.
3. Identify your limitations of research and explain their importance. 4. Provide the necessary depth, explain their nature, and justify your study choices. 5. Write how you are suggesting that it is possible to overcome them in the future. Limitations can help structure the research study better.
sentence tha. signals what you're about to discu. s. For example:"Our study had some limitations."Then, provide a concise sentence or two identifying each limitation and explaining how the limitation may have affected the quality. of the study. s findings and/or their applicability. For example:"First, owing to the rarity of the ...
The ideal way is to divide your limitations section into three steps: 1. Identify the research constraints; 2. Describe in great detail how they affect your research; 3. Mention the opportunity for future investigations and give possibilities. By following this method while addressing the constraints of your research, you will be able to ...
Limitations put medical research articles at risk. The accumulation of limitations (variables having additional limitation components) are gaps and flaws diluting the probability of validity. There is currently no assessment method for evaluating the effect(s) of limitations on research outcomes other than awareness that there is an effect.
Answer: The limitations of a study are its flaws or shortcomings which could be the result of unavailability of resources, small sample size, flawed methodology, etc. No study is completely flawless or inclusive of all possible aspects. Therefore, listing the limitations of your study reflects honesty and transparency and also shows that you ...
Writing the limitations of the research papers is often assumed to require lots of effort. However, identifying the limitations of the study can help structure the research better. Therefore, do not underestimate the importance of research study limitations. 3. Opportunity to make suggestions for further research.
Research Limitations. It is for sure that your research will have some limitations and it is normal. However, it is critically important for you to be striving to minimize the range of scope of limitations throughout the research process. Also, you need to provide the acknowledgement of your research limitations in conclusions chapter honestly.
Step 1. Identify the limitation (s) of the study. This part should comprise around 10%-20% of your discussion of study limitations. The first step is to identify the particular limitation (s) that affected your study. There are many possible limitations of research that can affect your study, but you don't need to write a long review of all ...
Abstract. Study limitations represent weaknesses within a research design that may influence outcomes and conclusions of the research. Researchers have an obligation to the academic community to ...
Limitations. Limitations of a dissertation are potential weaknesses in your study that are mostly out of your control, given limited funding, choice of research design, statistical model constraints, or other factors. In addition, a limitation is a restriction on your study that cannot be reasonably dismissed and can affect your design and results.
A quick look through the articles in this issue offers a handy instant view of the focus of current research into learning with technologies. Educational researchers are overwhelmingly keen on using technology to flip learning, to bring context into the classroom through Virtual and Augmented Reality, and to use enquiry or problem-based scenarios and game-based activities for collaborative and ...
In research, studies can have limitations such as limited scope, researcher subjectivity, and lack of available research tools. Acknowledging the limitations of your study should be seen as a strength. It demonstrates your willingness for transparency, humility, and submission to the scientific method and can bolster the integrity of the study.
conference, or a published research paper in an academic journal. "Limitations of Research". is a section in the standard research report (the research report is usually divided into the ...
To cite this article: Sue Greener (2018) Research limitations: the need for honesty and common sense, Interactive Learning Environments, 26:5, 567-568, DOI: 10.1080/10494820.2018.1486785
In this article, we'll explore the nature of research implications as a means for contextualizing the findings of qualitative research and the foundation it sets for further research. ... These limitations differ from implications in that they explore already acknowledged shortcomings in a study (e.g., a small sample size, an inherent weakness ...
While many books and articles guide various qualitative research methods and analyses, there is currently no concise resource that explains and differentiates among the most common qualitative approaches. We believe novice qualitative researchers, students planning the design of a qualitative study or taking an introductory qualitative research course, and faculty teaching such courses can ...
Read the Discussion & Limitations Section. The discussion section is where you will find the researcher's interpretation of the results. The author should answer the article's research question. Remember, you should evaluate the data to form your own conclusions. Don't just accept the author's conclusions without looking at the data for yourself.
Limitations and future research. One limitation of this study is that it focused on a specific population of medical students, which may limit the generalizability of the findings to other student populations. Additionally, the study relied on self-report data from panelists and audience members, which may introduce bias and affect the validity ...
Research has also brought to light elements of adequate support related to the pandemic, such as a review by Dickson et al. that presents six tentative theories for healthful leadership, all of which are intertwined with genuine encounter, ... Limitations of the study. In this study, we utilized essay material written in the fall of 2020, in ...
Using the right mix of policies is more important than using a lot of policies, says Annika Stechemesser, a co-author and researcher at the Potsdam Institute for Climate Impact Research in Germany.
Abstract. Ethics, as an integral component of human decision-making, undeniably shape the landscape of scientific research. This article delves deeply into the nuanced realm of ethical ...
The emergence of spatial multi-omics has helped address the limitations of single-cell sequencing, which often leads to the loss of spatial context among cell populations. Integrated analysis of the genome, transcriptome, proteome, metabolome, and epigenome has enhanced our understanding of cell biology and the molecular basis of human diseases. Moreover, this approach offers profound insights ...
Introduction While there is an interest in defining longitudinal change in people with chronic illness like Parkinson's disease (PD), statistical analysis of longitudinal data is not straightforward for clinical researchers. Here, we aim to demonstrate how the choice of statistical method may influence research outcomes, (e.g., progression in apathy), specifically the size of longitudinal ...
This paper conducts a sy stematic literature review in the quest to identify the weaknesses and strengths of qualitat ive resear ch with. reference to 22 published journal articles. The choice of ...
The thermodynamically stable window for an O3-type layered sodium cathode material is largely determined by its Na stoichiometry; a spontaneous transition to the P-type structure occurs when it is relatively low. With such limitation, the capacity and stability of O3-structured materials become restricted and a pot