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alterlab-bgpt-search

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Mis à jour2 juillet 2026 à 14:17

Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server, returning 25+ fields per paper (methods, results, sample sizes, quality scores, conclusions). Use when running a literature review or evidence synthesis, or when needing experimental details (sample sizes, effect sizes, methods, quality scores) that abstracts alone do not provide. Part of the AlterLab Academic Skills suite.

Installation

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Source

AlterLab-IEU

AlterLab-IEU/AlterLab-Academic-Skills

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Métiers associésSOC

Basé sur la classification professionnelle SOC

Enseignants postsecondaires, autresEnseignement et bibliothèques·SOC 25-1199

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SKILL.md

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name	alterlab-bgpt-search
description	Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server, returning 25+ fields per paper (methods, results, sample sizes, quality scores, conclusions). Use when running a literature review or evidence synthesis, or when needing experimental details (sample sizes, effect sizes, methods, quality scores) that abstracts alone do not provide. Part of the AlterLab Academic Skills suite.
allowed-tools	Bash
license	MIT
compatibility	Connects to the BGPT MCP server. Free tier allows 50 free results with no API key; higher volume needs a BGPT API key from bgpt.pro/mcp. Requires network access.
metadata	{"skill-author":"AlterLab","version":"1.0.1","skill-source":"https://github.com/connerlambden/bgpt-mcp"}

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 BGPT when the value is in structured full-text experimental data, not titles/abstracts:

Building evidence tables for a meta-analysis, scoping review, or clinical guideline
Extracting sample sizes, effect sizes, methods, protocols, or conclusions across studies
Comparing methodologies, or filtering papers by quality score / evidence grading

For broad title/abstract discovery use alterlab-pubmed; for real-time web-grounded summaries of recent developments use alterlab-perplexity.

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 free results, no API key required
Paid: $0.02 per result (billed per result actually returned, not per search) with an API key from bgpt.pro/mcp

Complementary Skills

Pairs well with:

alterlab-literature-review — gather structured data with BGPT, then synthesize
alterlab-pubmed — PubMed for broad discovery, BGPT for deep experimental data
alterlab-biorxiv — combine preprint discovery with full-text data extraction
alterlab-pyzotero — manage citations from BGPT search results

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alterlab-multilevel-models

AlterLab-IEU/AlterLab-Academic-Skills

Fits and reports mixed-effects / multilevel / hierarchical models for clustered, nested, longitudinal, and repeated-measures data — random intercepts and slopes, variance components and the ICC, cross-level interactions, and GLMMs (logistic/Poisson) — using statsmodels MixedLM and bambi (Bayesian on PyMC) in Python, or the field-standard R lme4 / glmmTMB / brms via Rscript. It enforces the reporting items reviews find under-reported: full fixed + random specification, centering, variance components + ICC, estimation method, assumption checks, model comparisons, and effect sizes. Use when data are grouped/nested (students in schools, repeated measures, panel/longitudinal) and the question concerns within- vs between-cluster variation. For general single-level regression prefer alterlab-statsmodels; for panel fixed effects used for causal identification prefer alterlab-causal-inference. Part of the AlterLab Academic Skills suite.

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name	alterlab-bgpt-search
description	Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server, returning 25+ fields per paper (methods, results, sample sizes, quality scores, conclusions). Use when running a literature review or evidence synthesis, or when needing experimental details (sample sizes, effect sizes, methods, quality scores) that abstracts alone do not provide. Part of the AlterLab Academic Skills suite.
allowed-tools	Bash
license	MIT
compatibility	Connects to the BGPT MCP server. Free tier allows 50 free results with no API key; higher volume needs a BGPT API key from bgpt.pro/mcp. Requires network access.
metadata	{"skill-author":"AlterLab","version":"1.0.1","skill-source":"https://github.com/connerlambden/bgpt-mcp"}

BGPT Paper Search

Overview

When to Use This Skill

Use BGPT when the value is in structured full-text experimental data, not titles/abstracts:

Building evidence tables for a meta-analysis, scoping review, or clinical guideline
Extracting sample sizes, effect sizes, methods, protocols, or conclusions across studies
Comparing methodologies, or filtering papers by quality score / evidence grading

For broad title/abstract discovery use alterlab-pubmed; for real-time web-grounded summaries of recent developments use alterlab-perplexity.

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 free results, no API key required
Paid: $0.02 per result (billed per result actually returned, not per search) with an API key from bgpt.pro/mcp

Complementary Skills

Pairs well with:

alterlab-literature-review — gather structured data with BGPT, then synthesize
alterlab-pubmed — PubMed for broad discovery, BGPT for deep experimental data
alterlab-biorxiv — combine preprint discovery with full-text data extraction
alterlab-pyzotero — manage citations from BGPT search results