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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Which Uses of AI Should Research Supervisors Explicitly Permit or Prohibit?

Research supervisors need clearer boundaries than simply allowing or banning AI. Examine which research activities may be permitted, which require prior approval, and which should be prohibited because of confidentiality, methodological validity, or independent competence requirements.

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Permitted and Prohibited AI Use in Research Supervision Guide 985 of 1196
01 · The Question

Which AI Activities Should a Research Supervisor Allow, Restrict, or Prohibit?

A doctoral supervisor permits students to use generative AI for grammar correction and preliminary literature exploration. One student subsequently uses AI to generate statistical code, another asks it to develop questionnaire items, and a third uploads confidential interview transcripts for automated thematic analysis.

All three students believe their activities fall under the supervisor's general permission to use AI for research assistance.

The supervisor disagrees. The activities introduce different questions about methodological competence, research ethics, data protection, and intellectual responsibility.

A blanket prohibition might eliminate some uncertainty, but it could also prevent legitimate educational and research applications. Unrestricted permission creates a different problem because students may not recognize when assistance becomes consequential.

The practical question is which uses of AI research supervisors should explicitly permit or prohibit, which should require prior approval, and how these boundaries should be justified and communicated.

02 · The Short Answer

What AI Permissions and Restrictions Should Supervisors Establish?

In Brief

Research supervisors should explicitly permit low-risk AI assistance when it is consistent with institutional requirements, require additional review for consequential methodological or analytical uses, and prohibit activities that violate applicable rules, expose restricted information without authorization, fabricate research evidence, or improperly replace intellectual work students must demonstrate independently.

These categories should be defined by the research task and its risks rather than by the AI product alone. A use that is acceptable for exploratory learning may be inappropriate during an independent assessment or when processing confidential participant information.

03 · What You Need to Know

Establishing Defensible Boundaries for AI in Student Research

Why Supervisors Need Explicit Permission Categories

Instructions such as "use AI responsibly" leave substantial room for interpretation. Students may understand responsibility as checking the final output, while supervisors may expect consultation before AI contributes to research design or data analysis.

A practical policy should distinguish three situations: assistance permitted under standing conditions, assistance requiring prior review, and assistance that is prohibited.

These categories should be supported by clear reasons. Restrictions may protect research participants, preserve assessment validity, prevent scientific misrepresentation, or enforce institutional obligations.

The supervisor should also distinguish personal preferences from binding institutional requirements. A supervisory agreement cannot override research ethics approval conditions or university data-security rules.

Which AI Uses Can Usually Be Permitted Under Standing Conditions?

Some activities may be permitted without requiring students to request individual approval every time.

Examples include explaining general methodological terminology, suggesting alternative search keywords, improving the clarity of nonconfidential writing, and generating practice examples using synthetic data.

Permission should still have conditions. Students must verify substantive claims, preserve scientific meaning, and comply with applicable disclosure requirements.

For example, using AI to explain the difference between statistical power and effect size may support learning. Accepting an AI-generated calculation or interpretation without checking its assumptions is a separate activity.

Standing permission should describe what students may do and where that permission ends.

Which Activities Should Require Prior Supervisory Review?

Prior discussion is especially valuable when AI may influence consequential decisions that are difficult to reverse or central to the thesis.

These may include changing the research design, generating substantial measurement instruments, selecting the primary analytical model, automating qualitative interpretation, or modifying data-exclusion procedures.

Supervisory review should examine whether the proposed AI assistance is methodologically appropriate, what information will be processed, and how the output will be verified.

Not every such activity requires formal institutional approval. That depends on the applicable rules and whether the proposed change affects an approved protocol.

The supervisor should identify which decisions can be resolved through ordinary consultation and which must be referred to a research ethics committee or another authorized body.

Which AI Uses Should Be Explicitly Prohibited?

Some activities are incompatible with responsible research because they involve misrepresentation, unauthorized processing, or violation of established requirements.

For example, students should not use AI to fabricate participant responses, invent experimental procedures, create fictitious research findings, or present analyses as performed when they were not conducted.

Students should not upload restricted participant information to an AI service when that processing has not been authorized.

AI assistance should also be prohibited where an applicable independent assessment expressly requires students to perform the relevant intellectual work themselves.

These prohibitions should identify the underlying conduct rather than imply that every AI-generated output is inherently improper.

A Practical Permission Matrix for Thesis Research

Research activity Suggested supervisory category Essential condition
Explaining general research concepts Standing permission Verify consequential explanations before applying them
Suggesting literature-search keywords Standing permission Test terms in appropriate databases
Editing nonconfidential prose Standing permission where policy allows Preserve meaning and meet disclosure requirements
Generating practice code using synthetic data Standing permission Inspect and test the implementation
Developing questionnaire items Prior discussion Evaluate content and measurement validity
Selecting the primary statistical model Prior discussion Require independent methodological justification
AI-assisted qualitative interpretation Prior review where consequential Ensure methodological coherence and data authorization
Changing research eligibility criteria Appropriate protocol and institutional review Obtain required authorization before implementation
Uploading restricted data without authorization Prohibited Use only an authorized processing arrangement
Fabricating research observations or results Prohibited Research evidence must represent what actually occurred
Using AI contrary to explicit assessment restrictions Prohibited during that assessment Preserve the competency being independently measured

This matrix is a recommended starting point, not a universal institutional policy. Supervisors should adapt it to the discipline, student competence, approved research protocol, and governing requirements.

Why Tool Approval Is Not the Same as Permission for Every Task

A university may provide access to an institutionally approved AI system.

That approval does not necessarily authorize all research activities or all categories of information.

For example, an approved system may be suitable for public literature exploration but not for identifiable participant records unless specific processing arrangements have been assessed.

Supervisors should distinguish permission to access a tool from authorization to use it for a particular purpose.

Relevant considerations include provider conditions, data retention, access controls, consent arrangements, and institutional policies.

How Should Confidential Research Data Affect AI Permissions?

Data sensitivity should influence the permitted processing environment and required safeguards.

Interview transcripts, institutional records, unpublished manuscripts, and participant datasets may contain information subject to confidentiality obligations.

Even removing direct identifiers may not eliminate re-identification risks.

Supervisors should establish which information can be processed using particular systems and when approval is necessary.

Where external processing is unauthorized, students may use synthetic teaching materials or approved alternatives instead.

Permission to use AI for an analytical task should never be interpreted as automatic permission to upload the underlying research data.

Why AI-Assisted Literature Searching Needs Clear Boundaries

AI can suggest search terminology, explain unfamiliar concepts, and help organize preliminary research questions.

However, generated references may be inaccurate or fabricated. An AI-generated synthesis may also omit relevant literature or misrepresent original findings.

Supervisors should permit appropriate exploratory assistance while requiring students to verify bibliographic records and examine original sources.

When a review requires systematic searching, the student must follow the methodology and reporting requirements appropriate to that review.

A chatbot-generated list of publications should not be represented as a comprehensive database search unless the actual retrieval process supports that claim.

Should AI Be Permitted to Generate Statistical Code?

AI-generated code may be legitimate research assistance when students understand the intended procedure and the implementation is appropriately tested.

However, successful execution does not guarantee analytical correctness.

A script may run while incorrectly merging datasets, excluding valid observations, or applying an unsuitable model.

Supervisors should require students to explain the analysis and preserve verified computational records.

Where the code affects consequential research findings, qualified review may be appropriate.

The central concern is not whether AI produced the syntax, but whether the final procedure is scientifically defensible and attributable to accountable researchers.

Should AI Be Permitted to Generate Research Instruments?

AI can suggest questionnaire items, interview questions, or alternative formulations.

Such suggestions may support preliminary development, but they do not establish validity or reliability.

Supervisors should require appropriate evaluation of item relevance, clarity, construct representation, and other measurement properties.

Depending on the project, substantive changes to approved instruments may also require protocol review.

Students should understand that an AI-generated instrument is not automatically a validated instrument.

Prior discussion is particularly useful when generated content may materially influence how the study measures its principal constructs.

How Should Qualitative Research Be Treated?

AI-assisted qualitative analysis requires attention to the selected methodological approach.

For example, reflexive thematic analysis emphasizes the researcher's interpretive engagement with the data, as discussed by Braun and Clarke (2022).

Automatically accepting generated themes without examining the original material may be inconsistent with the intended analytical approach.

Other qualitative methods may support different forms of structured computational assistance.

Supervisors should evaluate methodological coherence rather than impose one universal rule for qualitative research.

Confidentiality requirements must also be addressed before research material is processed.

Why Independent Research Competence Still Matters

Permitting AI does not eliminate the student's obligation to demonstrate the competencies expected by the degree program.

A student may use AI to suggest a methodology while remaining responsible for explaining why the final design is appropriate.

Similarly, generated interpretations must be evaluated against the actual findings.

Supervisors should identify the research competencies students must demonstrate independently.

This does not require every operation to be performed manually. It requires sufficient understanding to evaluate and defend consequential decisions.

Why Permission Categories Should Reflect Student Competence

Two students may need different levels of supervision for the same technical task.

A student with demonstrated programming expertise may competently inspect AI-generated code, while another may need guided instruction and independent practice.

However, supervisors should avoid treating academic seniority as proof of technical competence.

Permissions should reflect the activity's risks and the student's ability to evaluate its outputs.

Where students lack relevant expertise, the appropriate response may be additional training or qualified review rather than an unconditional prohibition.

How Should Disclosure Requirements Be Attached to Permissions?

Permitted AI assistance may still require documentation or disclosure.

For example, routine grammar correction might be covered by standing permission, while AI-generated analytical code may require a record of the generated contribution, tests, and final decisions.

Students should understand the difference between authorization, documentation, and disclosure.

The question of which AI interactions students should disclose to supervisors should be addressed explicitly rather than left to personal interpretation.

Applicable institutional and publication requirements may impose additional obligations.

Should Supervisors Require Every Prompt to Be Reviewed?

Not necessarily.

Complete prompt histories may contain sensitive information, unrelated conversations, and preliminary ideas that are not needed for research oversight.

For consequential assistance, a concise decision record may be more useful than an extensive interaction history.

Such a record can identify the AI contribution, verification undertaken, and final human decision.

However, detailed logs may be justified in specific research protocols or institutional processes.

Supervisors should establish requirements that are proportionate to their purpose and consistent with confidentiality obligations.

How Should Supervisors Communicate Restrictions?

Rules should be communicated before the relevant activity begins.

For each restriction, students should know which assistance is prohibited, why the restriction exists, and whether any alternatives are permitted.

For example, an instructor may prohibit AI-generated statistical interpretation during an independent assessment while permitting a calculator and ordinary reference materials.

The rule should identify the intellectual competency being protected.

Clear boundaries are part of establishing explicit supervisory AI expectations.

New supervisory preferences should not be retrospectively presented as previously binding institutional rules.

What If Institutional and Supervisory Rules Conflict?

A supervisor cannot ordinarily authorize conduct prohibited by a binding institutional requirement.

Conversely, institutions may allow supervisors to establish additional task-specific expectations within their authority.

Where a proposed restriction or permission conflicts with a formal policy, the relevant graduate school, research ethics committee, or institutional governance office should be consulted.

Students should not be expected to resolve ambiguous institutional authority independently.

Written clarification is particularly useful when research involves multiple institutions or supervisors.

Why a Prohibition Should Have a Defensible Purpose

Prohibitions should address identifiable concerns rather than general discomfort with AI.

For example, preventing unauthorized processing of confidential data protects existing research obligations.

Restricting AI during an independent methodological assessment protects the validity of the assessment.

Prohibiting fabricated research evidence protects scientific integrity.

These rationales differ, but each can be communicated clearly.

Supervisors should periodically examine whether restrictions remain appropriate as the research progresses and available safeguards change.

04 · A Practical Example

Developing AI Permission Rules for a Doctoral Thesis

Hypothetical Example

A Mixed-Methods Study of Faculty AI Literacy

A doctoral student plans to conduct a mixed-methods investigation of faculty AI literacy and instructional practices.

The project includes a questionnaire, confidential interviews, and quantitative analysis.

Before data collection begins, the student and supervisor review the anticipated AI-assisted activities and agree on appropriate boundaries.

1. Identify standing permissions

The supervisor permits AI assistance with general concept explanations, preliminary search terminology, and nonconfidential language editing, subject to verification and applicable disclosure rules.

2. Identify approval-required uses

AI-generated questionnaire items and substantial changes to the analytical plan require discussion and appropriate methodological review.

3. Protect confidential interviews

The student is prohibited from uploading interview transcripts to unauthorized external services.

4. Establish analytical safeguards

Generated statistical code must be inspected and tested, and the student must explain the selected procedures.

5. Define documentation

Consequential AI recommendations, verification procedures, and final research decisions are recorded.

6. Review the agreement

The supervisor and student reconsider the boundaries when the project enters data analysis and manuscript preparation.

The arrangement permits legitimate assistance without treating every research activity as equally suitable for AI.

Its effectiveness depends on the student understanding the requirements and the supervisor applying them consistently with institutional authority.

05 · What Researchers Often Get Wrong

Misconceptions About Permitting and Prohibiting Student AI Use

Misconception

Supervisors Must Either Permit All AI Use or Ban It Completely

Task-specific permissions and restrictions can better reflect different educational objectives, research risks, and institutional obligations.

Misconception

An Approved AI Tool Can Be Used With Any Research Dataset

Tool approval does not automatically authorize every processing purpose or data category. Confidentiality and research ethics requirements still apply.

Misconception

Permitted AI Assistance Requires No Human Verification

Permission does not establish accuracy. Consequential references, methods, code, and interpretations still require appropriate scrutiny.

Misconception

All AI-Generated Code Should Be Prohibited

Generated code may be legitimate assistance when permitted, understood, tested, and appropriately documented. Restrictions should reflect the task and student's competence.

Misconception

Supervisor Approval Overrides Institutional Policy

Supervisors must operate within their authority. Binding ethics, data-security, and institutional requirements cannot be disregarded through informal permission.

Misconception

The Number of AI Prompts Determines Whether Use Is Acceptable

A single interaction may materially influence a consequential decision, while many routine interactions may have little scientific significance. The nature of assistance matters more than frequency alone.

06 · What This Means for You

How to Establish Clear AI Permissions for Research Students

Supervisors should begin with applicable requirements and the research activities students are expected to undertake.

The resulting permissions should identify when students may proceed independently, when consultation is necessary, and when AI use is prohibited.

A simple decision framework

If AI supports routine, authorized learning or editing
Consider standing permission with clear verification and disclosure conditions.
If AI may influence a consequential research decision
Require appropriate methodological review and documentation before implementation.
If AI processing involves restricted research information
Confirm authorization and safeguards before allowing the processing.
If AI would replace a competency being independently assessed
Restrict that assistance during the relevant assessment.
If the proposed activity involves fabrication or misrepresentation
Prohibit the conduct and apply relevant research integrity requirements.

Write Rules Around Activities, Not Product Names

Identify what students may do with AI rather than relying exclusively on a list of permitted platforms.

Product approval and task authorization should both be addressed.

Explain the Rationale for Each Restriction

Students should understand whether a boundary protects learning, methodological validity, confidentiality, or research integrity.

This supports informed compliance rather than rule memorization.

Document Standing Permissions and Approval Requirements

A concise supervisory agreement can clarify which activities require consultation.

It should remain consistent with institutional rules and research ethics conditions.

Assess Whether Students Can Verify the Work

Students should demonstrate the understanding necessary to evaluate consequential AI outputs.

Where competence is insufficient, additional instruction or qualified review may be needed.

Review Permissions as the Project Develops

Research tasks and risks change between proposal development, data collection, analysis, and publication.

Permissions should be reconsidered when those changes materially affect the research.

07 · A Quick Checklist

Are Your Student AI Permissions Clear and Defensible?

Before approving an AI-use arrangement, check:
Have applicable institutional, ethics, and data-protection requirements been identified?
Are standing permissions clearly distinguished from approval-required activities?
Are prohibited uses defined through specific conduct and relevant obligations?
Does the proposed AI processing match the authorization for the research data?
Can the student independently explain consequential methodological decisions?
Are appropriate verification and documentation procedures established?
Have students been told when prior consultation is required?
Are the restrictions consistent with independent assessment objectives?
Is the agreement documented and reviewed when research conditions change?
08 · Frequently Asked Questions

Common Questions About AI Permissions in Research Supervision

Which AI uses should research supervisors normally permit?

Standing permission may be appropriate for authorized, relatively low-risk assistance such as general concept explanations, preliminary search terminology, and nonconfidential language editing, subject to applicable rules and verification.

Which student AI uses should be prohibited?

Supervisors should prohibit conduct involving fabricated research evidence, unauthorized processing of restricted information, explicit policy violations, or improper replacement of independently assessed intellectual work.

Should AI-generated statistical code be allowed in thesis research?

It may be appropriate when permitted, tested, understood, and documented. Consequential analytical choices should remain subject to qualified human evaluation.

Can students use AI to develop questionnaire items?

AI may suggest preliminary items, but generated instruments require appropriate methodological evaluation. Substantive changes to approved protocols may also require authorization.

Can supervisors prohibit AI even if the university generally permits it?

Supervisors may be authorized to establish task-specific restrictions, particularly for independent assessments or consequential research work. Such restrictions must be consistent with institutional authority and communicated fairly.

Does permission to use AI include permission to upload participant data?

No. Data processing requires authorization appropriate to the information, system, research protocol, and applicable institutional obligations.

Should students request approval before every AI interaction?

Not necessarily. Standing permissions can cover routine activities, while consequential or restricted uses may require prior consultation.

How often should supervisory AI permissions be reviewed?

They should be reconsidered when the project enters materially different phases or when relevant institutional requirements, tools, or risks change.

09 · The Bottom Line

Permit Useful Assistance, Restrict Consequential Delegation, and Prohibit Misconduct

The Bottom Line

Research supervisors should establish task-specific AI permissions that allow legitimate assistance, require appropriate review for consequential research decisions, and prohibit unauthorized processing, fabrication, explicit policy violations, and inappropriate outsourcing of independently assessed intellectual work.

These boundaries should be communicated before the relevant activities, supported by clear reasons, and aligned with institutional requirements. The objective is to preserve student competence and research integrity without treating every AI interaction as equally risky.

10 · Sources and Further Reading

Research Integrity and AI Governance Sources

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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