Manuel B. Garcia

Manuel B. Garcia serves as the Senior Director for Educational Technology and Digital Learning at FEU Institute of Technology, Manila, Philippines. Read More

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Should AI Use Be Reported in the Methods Section Instead of the Acknowledgments?

AI assistance may belong in the methods section, acknowledgments, or a designated disclosure statement, depending on how the tool was used. Learn why methodological AI use requires different reporting from writing assistance and how to follow journal-specific requirements.

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AI Disclosure: Methods vs. Acknowledgments Guide 568 of 1196
01 · The Question

Where Should You Report AI Use When Preparing a Research Manuscript?

A researcher uses ChatGPT to improve the wording of a manuscript and another AI system to assist with coding qualitative interview responses. Both activities involve artificial intelligence, but they serve different purposes.

Should both tools be mentioned in the acknowledgments? Should they appear in the methods section? Or would a separate AI-use declaration be more appropriate?

The distinction matters because disclosure is not simply an acknowledgment that technology was involved. Readers may need to understand how AI influenced the research process, particularly when its outputs contributed to data processing, analysis, or interpretation.

Different publishing authorities also specify different reporting locations. A disclosure can therefore be accurate in substance while failing to meet the journal's formatting or submission requirements.

02 · The Short Answer

Report AI Where Its Role Can Be Properly Understood

In Brief

AI use should generally be described in the methods section when it forms part of the research methodology, while AI-assisted manuscript writing may be reported in acknowledgments or a designated disclosure statement, depending on the journal's policy. Neither location is universally correct for every type of AI assistance.

The International Committee of Medical Journal Editors (ICMJE) distinguishes writing assistance from methodological AI use. COPE emphasizes disclosure in materials and methods or an equivalent section. Publishers may impose additional instructions, so researchers should follow the requirements of the intended journal.

The guiding question is what readers need to know about the role of AI. Assistance affecting the conduct or interpretation of research may require methodological detail, while assistance limited to manuscript preparation may require a different form of transparency.

03 · What You Need to Know

How to Choose the Appropriate Location for AI Disclosure

Why Does the Location of an AI Disclosure Matter?

Different manuscript sections serve different scholarly purposes.

The methods section explains how research was conducted. It provides information needed to evaluate the design, procedures, analysis, and limitations of a study.

The acknowledgments section ordinarily recognizes assistance that supported the work without necessarily qualifying a contributor for authorship.

A dedicated AI-use declaration may serve a publisher's administrative and transparency requirements without replacing methodological reporting.

These functions can overlap, but they are not identical.

Methods section Explains AI-assisted procedures that materially affected how research data were collected, processed, analyzed, or interpreted.
Acknowledgments section Recognizes AI assistance with manuscript preparation where this is an appropriate reporting location under the journal's policy.

Choosing the correct location helps readers distinguish between technology used to conduct the research and technology used to communicate it.

What Does the ICMJE Recommend?

The ICMJE recommends that authors disclose whether AI-assisted technologies were used in producing submitted work and explain how they were used.

Its guidance distinguishes between AI assistance with writing and AI involvement in research activities.

Writing assistance is to be reported in the acknowledgment section, while AI use for data collection, analysis, or figure generation should be described in the methods section as applicable.

The ICMJE also addresses disclosure in submission correspondence, so reporting AI use within the manuscript may not satisfy every submission requirement.

These recommendations are particularly influential in medical publishing, although journals in other fields may adopt them.

Researchers should consult the journal's current instructions rather than assuming that every publisher follows the ICMJE reporting structure.

What Does COPE Recommend?

The Committee on Publication Ethics (COPE) states that AI tools cannot be listed as authors and that authors must remain responsible for AI-assisted content.

Its position on authorship and AI tools also emphasizes transparency about AI use in manuscript writing, image production, and research activities.

COPE specifies disclosure of the tool and how it was used in materials and methods or an equivalent section.

This differs from the ICMJE's explicit distinction between acknowledgments for writing assistance and methods for methodological AI use.

The positions are consistent in requiring transparency and human accountability, but they do not prescribe identical manuscript locations.

A journal's own author instructions should therefore determine how these principles are implemented in a particular submission.

How Does Springer Nature Approach AI Reporting?

Springer Nature distinguishes different categories of AI assistance and provides reporting instructions according to their role.

Its guidance permits certain declarations in the introduction or acknowledgments while addressing methodological AI use through more specific reporting requirements.

It also distinguishes routine AI-assisted copyediting from substantive generative AI assistance. Under its defined conditions, some copyediting activities do not require declaration.

These distinctions demonstrate why the reporting location cannot be determined solely from the fact that an AI tool was used.

The researcher must identify the actual activity and consult the applicable publication policy.

How Do the Main Reporting Approaches Compare?

Publishing Authority Writing Assistance Methodological AI Use
ICMJE Acknowledgments, with applicable submission disclosure. Methods section for data collection, analysis, or figure generation.
COPE Materials and methods or equivalent section, according to its position statement. Materials and methods or equivalent section.
Springer Nature Introduction or acknowledgments may be appropriate; defined copyediting exceptions apply. Follow methodological reporting and journal-specific requirements.

This comparison summarizes general positions rather than every policy applicable to journals associated with these organizations.

Researchers should verify the current instructions for the publication receiving their manuscript.

When Does AI Use Become a Methodological Issue?

AI use becomes methodologically relevant when it contributes to procedures through which research evidence is generated, processed, selected, analyzed, or interpreted.

For example, an AI system might assist with classifying survey responses, extracting information from documents, generating analytical code, or identifying themes in interview transcripts.

These activities may affect the findings and therefore require sufficient information for readers to understand how the research was conducted.

A brief acknowledgment naming the tool would not necessarily explain the procedure or allow readers to evaluate its limitations.

Methodological reporting should describe the AI contribution at a level appropriate to its significance and the journal's standards.

Should AI-Assisted Qualitative Coding Be Described in Methods?

Generally, yes, when AI materially contributes to the coding or interpretation of research data and the journal requires methodological transparency.

Qualitative coding involves analytical decisions about how data are categorized and interpreted.

If AI suggests codes or themes, readers may need to know how those suggestions were generated, reviewed, modified, and incorporated.

For example, a researcher might use an AI model to propose preliminary codes and then conduct a human review of every coded excerpt.

The methods section should accurately describe that process rather than merely stating that AI assistance was acknowledged.

Questions about disclosing AI-assisted qualitative analysis are particularly important because the tool may influence interpretive judgments rather than only manuscript wording.

Should AI-Generated Statistical Code Be Reported in Methods?

When AI-generated code materially contributes to the analysis, methodological reporting may be appropriate or required.

The relevant information may include the analytical procedure, software environment, code verification, and role of the AI tool.

The extent of detail depends on the research design and publication requirements.

Researchers should distinguish between AI assistance used to write code and the statistical method actually implemented.

A manuscript must accurately report the analysis performed, regardless of how the code was generated.

The question of disclosing AI-generated research code also involves reproducibility and verification.

What If AI Was Used Only to Improve Manuscript Language?

Language assistance generally concerns manuscript preparation rather than the underlying research methodology.

Where disclosure is required, acknowledgments or a designated AI-use statement may therefore be appropriate.

However, journal policies differ in how they treat grammar correction, translation, paraphrasing, and substantive rewriting.

A tool used only to correct punctuation may fall under an exemption, while a tool used to generate or reconstruct arguments may require more detailed disclosure.

The researcher should accurately describe the assistance and avoid presenting substantive drafting as routine copyediting.

What If the Same AI Tool Was Used for Both Writing and Analysis?

A single AI tool can contribute to several distinct research activities.

For example, ChatGPT might be used to suggest analytical code and later to improve the wording of the discussion.

The tool's identity does not determine the disclosure location. Its role does.

Under a policy distinguishing writing and methodological assistance, the researcher may need to describe the analytical use in methods and report writing assistance in acknowledgments or another designated section.

These statements should be consistent without unnecessarily repeating the same information.

Where the journal requires one consolidated AI-use declaration, researchers should still ensure that any methodological information needed for reproducibility appears in the appropriate research section.

What Details Belong in a Methodological AI Disclosure?

Methodological reporting should provide enough information to understand the AI-assisted procedure and evaluate its implications for the findings.

Depending on the activity, relevant details may include:

  • The AI tool or model used and its role in the procedure.
  • The types of inputs or research materials processed.
  • The tasks assigned to the system and how outputs were incorporated.
  • The human verification, correction, or validation performed.
  • Relevant limitations and reproducibility information.

Some research contexts may also require model versions, dates, settings, or prompt documentation.

These details should be proportionate to the methodological significance of the AI assistance.

The question of what an AI disclosure statement should contain should be distinguished from the fuller reporting required for reproducible research methods.

Can an Acknowledgment Replace a Methods Description?

Not when the methods description is necessary to understand or evaluate the research.

An acknowledgment can identify that assistance occurred, but it may not explain how AI affected sampling, coding, analysis, or interpretation.

For example, a statement that an AI model assisted with thematic analysis would not necessarily reveal whether it independently generated codes, classified all transcripts, or merely suggested possible categories for human consideration.

Those differences may materially affect how readers interpret the findings.

Methodological transparency therefore requires reporting the actual procedure, not merely naming the tool.

Does Reporting AI in Methods Make Its Use Automatically Acceptable?

No. Disclosure and permission are separate questions.

A journal may restrict particular AI activities even when they are fully documented.

Researchers must therefore establish whether the assistance is permitted and whether it has been reported appropriately.

They also remain responsible for the validity of the resulting research.

A detailed methods disclosure does not excuse unverified analysis, inappropriate processing of confidential data, or unsupported interpretations.

What If the Journal's Instructions Are Ambiguous?

Researchers should review the journal's author guidelines, publisher-level AI policy, and submission declarations.

If the appropriate reporting location remains unclear, they may request clarification from the editorial office.

Any clarification should be retained with the manuscript preparation records where appropriate.

Researchers should not assume that a disclosure placed somewhere in the manuscript automatically satisfies an unspecified requirement.

Clear reporting is preferable to a technically present but insufficiently informative statement.

04 · A Practical Example

How to Report AI Used for Both Manuscript Writing and Data Analysis

Hypothetical Example

AI Assistance in a Study of Student Engagement

A researcher investigates student engagement in online learning environments.

During analysis, an AI system is used to suggest preliminary categories for open-ended survey responses. The researcher reviews the suggested categories against the original responses and revises the coding framework.

Later, ChatGPT is used to improve sentence clarity in the discussion section.

The intended journal follows ICMJE-style disclosure requirements.

Identify methodological assistance. The AI-assisted coding procedure is documented because it contributed to the analysis of research data.
Prepare the methods description. The researcher explains how categories were generated, reviewed, and incorporated into the final coding framework.
Identify writing assistance. ChatGPT's role in language refinement is recorded separately from the analytical procedure.
Prepare the acknowledgment. The researcher describes the language assistance according to the journal's requirements.
Complete submission declarations. Any required AI-use information is also supplied through the journal's submission process.

The methods section explains an activity that may affect the findings, while the acknowledgment reports assistance with communicating those findings.

Neither statement transfers responsibility to the AI system. The researcher remains accountable for the coding decisions and final manuscript.

05 · What Researchers Often Get Wrong

Misconceptions About Where AI Use Should Be Disclosed

Misconception

All AI Use Belongs in the Acknowledgments

AI assistance that affects research methods or analysis may require detailed methodological reporting. Acknowledgments are not a universal substitute for methods disclosure.

Misconception

All AI Use Must Be Reported in the Methods Section

Some publishers distinguish manuscript writing assistance from methodological AI use and direct authors to acknowledgments or a designated declaration. Reporting requirements vary.

Misconception

COPE and ICMJE Require Identical AI Disclosure Locations

Their guidance differs in reporting location. Both emphasize transparency and human accountability, but their instructions should not be treated as interchangeable.

Misconception

Naming the AI Tool Is Enough to Explain Its Methodological Role

Readers may need to know what the system did, how its outputs were used, and what verification occurred. Naming the tool alone may not provide adequate methodological transparency.

Misconception

A Methods Disclosure Automatically Makes Prohibited AI Use Acceptable

Disclosure does not override restrictions. Researchers must comply with both the journal's permitted-use rules and its reporting requirements.

06 · What This Means for You

How Should You Decide Where to Disclose AI Assistance?

The most practical approach is to classify AI assistance according to its function before selecting the reporting location.

A Practical Disclosure Decision Framework

If AI was used for manuscript language or drafting
Check whether the journal requires acknowledgments, a designated AI-use declaration, or another reporting location.
If AI was used for data collection, coding, or analysis
Describe its methodological role in sufficient detail in the methods section or equivalent location.
If AI was used for both writing and research procedures
Report the distinct activities in the appropriate locations while maintaining consistency across disclosures.
If the publisher exempts defined routine copyediting
Confirm that the actual assistance falls within the exemption before deciding that disclosure is unnecessary.
If the journal's instructions are unclear
Consult publisher guidance and seek editorial clarification where necessary.

Researchers should aim for a disclosure that is accurate enough to support transparency without implying that every minor interaction has the same methodological significance.

Watch Out

Do not report AI-assisted data analysis only as language editing or place a generic acknowledgment where the journal requires methodological details. The reporting location should reflect the actual activity, not conceal its significance.

The most defensible disclosure is one that allows readers and editors to understand how AI contributed to the work and what responsibilities remained with the human researchers.

07 · A Quick Checklist

What to Check Before Choosing an AI Disclosure Location

Before submitting your manuscript, verify:
Review the journal's current AI-use and disclosure policies.
Identify whether AI assistance concerned manuscript preparation, research methods, or both.
Determine whether the assistance is permitted and whether disclosure is required.
Use the methods section for AI-assisted procedures that require methodological transparency.
Use acknowledgments or a designated declaration for writing assistance where the journal specifies that location.
Include relevant tool information, procedures, and verification details when required.
Ensure that disclosures in different sections are consistent and not misleading.
Complete any separate AI-use declarations required during submission.
Confirm that the human authors remain accountable for the final manuscript.
08 · Frequently Asked Questions

Frequently Asked Questions About AI Disclosure Locations

Should ChatGPT use be disclosed in the methods or acknowledgments?

It depends on how ChatGPT was used and the journal's policy. Writing assistance may belong in acknowledgments or a designated declaration, while methodological use generally requires reporting in methods or an equivalent section.

Does the ICMJE require AI writing assistance in acknowledgments?

The ICMJE recommends reporting AI writing assistance in acknowledgments and describing AI use for data collection, analysis, or figure generation in the methods section, as applicable.

Does COPE require AI disclosure in the methods section?

COPE's position emphasizes disclosing the AI tool and how it was used in materials and methods or an equivalent section. Journals may provide their own implementation instructions.

Can AI use appear in both methods and acknowledgments?

Yes, where different AI activities require different reporting locations. The statements should accurately describe their respective purposes and remain consistent.

Should AI-assisted statistical analysis be reported in acknowledgments?

Substantive AI-assisted analysis generally requires methodological information that an acknowledgment alone may not provide. The journal's policy and the role of AI determine the required reporting.

Can a separate AI-use statement replace methods reporting?

Not necessarily. A dedicated declaration may satisfy an administrative disclosure requirement, but research methods still need to be described adequately when AI materially affects the procedures or findings.

What if the journal does not specify where AI should be disclosed?

Review the publisher's policy and submission instructions. If ambiguity remains, seek clarification from the editorial office and retain an accurate record of the assistance.

09 · The Bottom Line

The Correct Disclosure Location Depends on What AI Actually Did

The Bottom Line

AI assistance should be reported in the methods section when it materially contributes to research procedures, while writing assistance may belong in acknowledgments or another designated disclosure location. The intended journal's policy determines the specific requirement.

Researchers should distinguish methodological AI use from manuscript preparation, provide enough information for readers to understand consequential procedures, and ensure that all disclosures accurately reflect the assistance received. Transparency depends on both what is reported and where it is reported.

10 · Sources and Further Reading

Official Guidance on AI Disclosure in Research Manuscripts

11 · Cite this Guide

How to Cite This Guide

This guide is intended to be read, shared, and used in research, teaching, and academic work. If you draw on its ideas, explanations, or other content, please acknowledge the source by citing the guide. Doing so gives appropriate credit and helps your readers locate the original resource.

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