Research Proposal Generator

Source: https://github.com/aipoch/medical-research-skills

Research Proposal Generator

This skill analyzes a given literature text (paper) and generates a complete research proposal design, including scientific hypothesis, research outline, detailed experimental design, budget, and yearly plan.

When to Use

• Use this skill when the request matches its documented task boundary.
• Use it when the user can provide the required inputs and expects a structured deliverable.
• Prefer this skill for repeatable, checklist-driven execution rather than open-ended brainstorming.

Key Features

• Scope-focused workflow aligned to: Generates a comprehensive research proposal design based on input literature, including hypothesis, mechanism verification, and budget. Use when the user wants to design a research project from a paper.
• Documentation-first workflow with no packaged script requirement.
• Reference material available in references/ for task-specific guidance.
• Structured execution path designed to keep outputs consistent and reviewable.

Dependencies

• Python: 3.10+. Repository baseline for current packaged skills.
• Third-party packages: not explicitly version-pinned in this skill package. Add pinned versions if this skill needs stricter environment control.

Example Usage

See ## Usage above for related details.

Skill directory: 20260316/scientific-skills/Protocol Design/research-proposal-generator
No packaged executable script was detected.
Use the documented workflow in SKILL.md together with the references/assets in this folder.

Example run plan:

1. Read the skill instructions and collect the required inputs.
2. Follow the documented workflow exactly.
3. Use packaged references/assets from this folder when the task needs templates or rules.
4. Return a structured result tied to the requested deliverable.

Implementation Details

• Execution model: validate the request, choose the packaged workflow, and produce a bounded deliverable.
• Input controls: confirm the source files, scope limits, output format, and acceptance criteria before running any script.
• Primary implementation surface: instruction-only workflow in SKILL.md.
• Reference guidance: references/ contains supporting rules, prompts, or checklists.
• Parameters to clarify first: input path, output path, scope filters, thresholds, and any domain-specific constraints.
• Output discipline: keep results reproducible, identify assumptions explicitly, and avoid undocumented side effects.

Usage

Input: The text content of a scientific paper.

Output: A structured research proposal in Markdown format.

Procedure

Please follow these steps to generate the proposal. Refer to prompts.md for detailed prompts for each step.

Step 1: Analysis & Extraction

1. Extract Hypothesis: Analyze the input text to extract the scientific hypothesis and cell phenotype.
2. Extract Key Info: Extract molecular mechanisms, signaling pathways, and regulatory relationships. Identify the "Start Variable" (first gene in results).
3. Extract Clinical Info: Extract clinical questions and their relation to the hypothesis.

Step 2: Outline Generation

1. Generate Outline: Based on the Hypothesis, Key Info, and Clinical Info, generate a research proposal outline (Section 2. Research Plan).
   • Constraint: The outline should start from bioinformatic screening to mechanism verification.

Step 3: Detailed Experimental Design

1. Identify Molecules: Scan the outline to identify key genes/molecules.
2. Design Experiments: For each section of the outline, design detailed experiments.
   • Requirement: Include Model, Groups, Sample, Method, Index, Expected Results.
   • Rule: Each part usually studies relationship between two variables.
   • Rule: Animal experiments must start with modeling.
   • Reference: Use the "Design Experiments" prompt in references/prompts.md.

Step 4: Final Compilation

1. Generate Overview: Write Section "1. Overview" (Disease introduction) based on the hypothesis.
2. Generate Budget: Create a budget explanation (Section "3. Budget") for a 3-year plan (RMB).
3. Generate Yearly Plan: Create a 3-year research schedule (Section "4. Yearly Plan").

Step 5: Output Assembly

Assemble the final report in the following order:

1. 1. Overview
2. 2. Research Plan (With detailed experiments inserted)
3. 3. Budget
4. 4. Yearly Plan

Note: This process simulates a multi-step expert workflow. Ensure consistency between the hypothesis and the designed experiments.