Bgpt paper search

Skill BioTender-max/awesome-bio-agent-skills/skills/kdense/bgpt-paper-search

A curated collection of AI agent skills for biomedical research, covering genomics, proteomics, single-cell analysis, clinical AI, and protein design.

Install

npx -y skills add BioTender-max/awesome-bio-agent-skills --skill bgpt-paper-search

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

One thing to look at

no licenseNo license file was found in the repository. Code published without one is not open source by default, so using it at work is a question for whoever answers licensing questions where you are.

What its author says it does

Copied from the file, not written here

Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server. Returns 25+ fields per paper including methods, results, sample sizes, quality scores, and conclusions. Use for literature reviews, evidence synthesis, and finding experimental details not available in abstracts alone.

The file declares its own license as MIT. That is the author’s claim about this one file, and it is not the same thing as the license GitHub reports for the repository, which is listed with the other numbers below.

SKILL.md

2.4 KB, 432 tokens by cl100k_base, as published. Nobody here has run it

BGPT Paper Search

Overview

BGPT is a remote MCP server that searches a curated database of scientific papers built from raw experimental data extracted from full-text studies. Unlike traditional literature databases that return titles and abstracts, BGPT returns structured data from the actual paper content — methods, quantitative results, sample sizes, quality assessments, and 25+ metadata fields per paper.

When to Use This Skill

Use this skill when:

Searching for scientific papers with specific experimental details
Conducting systematic or scoping literature reviews
Finding quantitative results, sample sizes, or effect sizes across studies
Comparing methodologies used in different studies
Looking for papers with quality scores or evidence grading
Needing structured data from full-text papers (not just abstracts)
Building evidence tables for meta-analyses or clinical guidelines

Setup

BGPT is a remote MCP server — no local installation required.

Claude Desktop / Claude Code

Add to your MCP configuration:

{
  "mcpServers": {
    "bgpt": {
      "command": "npx",
      "args": ["mcp-remote", "https://bgpt.pro/mcp/sse"]
    }
  }
}

npm (alternative)

npx bgpt-mcp

Usage

Once configured, use the search_papers tool provided by the BGPT MCP server:

Search for papers about: "CRISPR gene editing efficiency in human cells"

The server returns structured results including:

Title, authors, journal, year, DOI
Methods: Experimental techniques, models, protocols
Results: Key findings with quantitative data
Sample sizes: Number of subjects/samples
Quality scores: Study quality assessments
Conclusions: Author conclusions and implications

Pricing

Free tier: 50 searches per network, no API key required
Paid: $0.01 per result with an API key from bgpt.pro/mcp

Gives 0 of the 12 instructions most mcp tooling skills give in 432 tokens

Counted across 638 of the 750 authors here whose files we hold, read 2026-08-06

create ten complex read-only evaluation questionsin 71 of 638, across 17 files
test servers using MCP Inspectorin 60 of 638, across 18 files
provide actionable error messagesin 56 of 638, across 14 files
prioritize comprehensive API coverage over specific workflowsin 54 of 638, across 12 files
use TypeScript and Streamable HTTP for remote serversin 53 of 638, across 7 files
define structured output schemas where possiblein 51 of 638, across 9 files
use Zod or Pydantic for input schemasin 48 of 638, across 6 files
fetch MCP specification pages with markdown suffixin 46 of 638, across 4 files
load framework documentation using WebFetchin 45 of 638, across 3 files
verify each evaluation answer independentlyin 45 of 638, across 3 files
implement API client with authentication and paginationin 45 of 638, across 3 files
Define input schemas with validationin 28 of 638, across 10 files

Grouped from the skills themselves: near-identical wordings counted once, and counted by distinct author, so one author publishing three of these counts once. Length counted with cl100k_base; the agent that loads this file may tokenize it differently.