How to Write a Thesis Protocol for MD, MS & DNB

Every component your ethics committee expects, in the right order — and the mistakes that get protocols sent back.

The protocol (or synopsis) is the most consequential document of your residency: it is reviewed by your guide, the scientific committee and the institutional ethics committee (IEC), and once approved it becomes a contract — your final thesis is evaluated against what you promised here. Here is each component, with what reviewers actually look for.

1. Title

Specific, self-explanatory and honest about the design: "A hospital-based cross-sectional study of vitamin D deficiency among patients with type 2 diabetes mellitus attending a tertiary care centre." Avoid abbreviations and question marks.

2. Introduction and need for the study

One to two pages: the burden of the problem (global → India → your region), what is known, what gap remains, and why your setting matters. End with one explicit sentence beginning "Therefore, this study was planned to…" — reviewers look for it.

3. Aims and objectives

One aim, stated broadly. One primary objective — specific, measurable, matching your sample size calculation. At most two or three secondary objectives. Every objective must have a corresponding method, a planned analysis and (eventually) a results table.

4. Brief review of literature

For the protocol, 1–2 pages and 15–25 key references suffice — the full 60–80 reference review comes in the thesis itself (see our RoL guide). Prioritise the study you cite for your sample size assumptions.

5. Materials and methods — the heart of the protocol

6. Statistical analysis plan

Name the software (SPSS version/R), the descriptive statistics, the normality test, and the specific tests per objective — our Statistical Test Chooser helps. A protocol that says only "appropriate statistical tests will be used" invites a query.

7. Ethical considerations

Informed consent process, confidentiality measures, risks and benefits, and a statement that the study will begin only after IEC approval. Attach the consent form and patient information sheet in English and the local language.

8. References, proforma and annexures

Vancouver style, numbered in citation order. Attach the proforma, consent forms, information sheets and any validated questionnaires.

Why protocols get rejected

MistakeFix
No sample size justificationState formula, assumptions and cited reference — generate it here
Objectives don't match methodsMap each objective to a method and an analysis before submitting
Vague inclusion/exclusion criteriaMake every criterion measurable and unambiguous
Missing consent documentsAttach consent form + information sheet in English and local language
"Appropriate tests will be used"Name the exact tests per objective

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Frequently asked questions

How long should the protocol be?
Most universities expect 10–20 pages. Methodology carries the most weight — detailed enough that another researcher could repeat your study exactly.
Can I change my methodology after approval?
Significant changes (sample size, study population, design) need a formal amendment to the ethics committee. Minor clarifications usually don't — ask your IEC member-secretary before deviating.
When should the protocol be submitted?
Most universities require it within the first 6 months of residency. Start in month 2–3 — ethics committees meet monthly and queries cost you a cycle each time.

Written by Dr. Simon Jude, MD (Community Medicine) — Assistant Professor and founder of Glomerulus. Last updated June 2026.

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