"Iterative Code Development and Analysis Guidelines" matching MCP servers:

• pgx-mcp

  Julius-Schmidt

  A

  license

  -

  quality

  D

  maintenance

  Enables real-time pharmacogenomics analysis, including variant clinical significance, drug-gene interactions, and dosing guidelines, by connecting to ClinVar, PharmGKB, gnomAD, and other databases.

  Last updated 2026-02-27

  1

  MIT

• AACT Clinical Trials MCP

  navisbio

  A

  license

  -

  quality

  D

  maintenance

  Provides access to the ClinicalTrials.gov AACT database, enabling analysis of clinical trial data, tracking development trends, and generating therapeutic landscape insights.

  Last updated 2026-03-11

  18

  MIT

• encode-toolkit

  ammawla

  A

  license

  A

  quality

  A

  maintenance

  MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments

  Last updated 2026-07-26

  20

  44

  30

  AGPL 3.0

• rnaseq-mcp

  sbarbi-gh

  F

  license

  A

  quality

  C

  maintenance

  Enables analysis of bulk RNA-seq data using natural language queries, executing R and Python in a Docker container with automatic sample anonymization and privacy controls.

  Last updated 2026-06-23

  7

• Gigwa-MCP

  gkanogiannis

  A

  license

  A

  quality

  A

  maintenance

  An MCP server that interfaces with Gigwa for genotyping data import, analysis, and audit, enabling users to perform complex workflows through natural language commands.

  Last updated 2026-07-09

  42

  29

  Apache 2.0

• WetLab-MCP

  muslus

  A

  license

  A

  quality

  D

  maintenance

  Enables AI-assisted molecular biology experiment design with tools for qPCR primer design, cloning strategy optimization, TaqMan probe design, and multiplex compatibility analysis.

  Last updated 2026-04-08

  6

  1

  MIT

• just-prs-mcp

  dna-seq

  A

  license

  A

  quality

  B

  maintenance

  MCP server for polygenic risk score analysis, wrapping just-prs to enable catalog search, PRS computation, VCF normalization, percentile and risk estimation, and quality assessment.

  Last updated 2026-07-23

  16

  1

  MIT

• MCP GeneLab Server

  sbl-sdsc

  A

  license

  A

  quality

  B

  maintenance

  Converts natural language queries into Cypher queries against the NASA GeneLab Knowledge Graph, enabling AI-assisted analysis of spaceflight experiments and their biological effects.

  Last updated 2026-07-21

  12

  3

  BSD 3-Clause

• lineageverse-mcp

  colganwi

  A

  license

  A

  quality

  C

  maintenance

  MCP server for single-cell lineage tracing analysis, enabling conversational reconstruction, visualization, and heritability analysis of lineage trees using Cassiopeia, pycea, and treedata.

  Last updated 2026-07-15

  18

  MIT
• 

  seosiri-bioroboticsofficial

  SEOSiri-Official

  A

  license

  A

  quality

  A

  maintenance

  A stateless, deterministic Bio-Robotics Core Engine converting biological data (UniProt API) to G-code.

  Last updated 2026-07-16

  30

  6

  MIT
• 

  openpgxofficial

  open-pgx

  A

  license

  A

  quality

  D

  maintenance

  Enables AI-driven pharmacogenomic analysis by querying structured genetic variant, drug response, and disease risk data. Supports natural language questions about medications, traits, and health risks based on user genome data, with privacy-first local execution.

  Last updated 2026-04-13

  16

  90

  10

  MIT

• BioNext-mcp

  Cherine0205

  A

  license

  A

  quality

  D

  maintenance

  Enables bioinformatics analysis through natural language conversations with Claude Desktop, automatically generating and executing Python scripts to produce HTML reports and visualizations.

  Last updated 2025-08-31

  3

  5

  8

  MIT

• Enrichr MCP Server

  tianqitang1

  A

  license

  A

  quality

  B

  maintenance

  Enables gene set enrichment analysis using the Enrichr API across hundreds of gene set libraries including Gene Ontology, pathways, diseases, tissues, drugs, and transcription factors. Returns only statistically significant results for interpretation.

  Last updated 2026-07-14

  2

  357

  15

  MIT

• AlphaFold Sovereign MCP

  smaniches

  A

  license

  A

  quality

  B

  maintenance

  Integrates AlphaFold DB and eight other biomedical data sources into MCP tools for variant clinical reporting, disease-target analysis, structural intelligence, and drug repurposing, with results persisted to a local SQLite knowledge graph.

  Last updated 2026-07-29

  29

  4

  Apache 2.0

• ChatSpatial

  cafferychen777

  A

  license

  A

  quality

  A

  maintenance

  Natural language-driven spatial transcriptomics analysis via MCP. Integrates 60+ methods for preprocessing, visualization, spatial statistics, cell communication, deconvolution, and trajectory analysis.

  Last updated 2026-07-16

  20

  42

  MIT

• Omics AI MCP Server

  mfiume

  A

  license

  A

  quality

  D

  maintenance

  Enables AI agents to conversationally interact with genomics research networks for data analysis and discovery across multiple Omics AI Explorer platforms. It provides tools for exploring data collections, examining table schemas, and executing SQL queries against datasets like Viral AI and Neuroscience AI.

  Last updated 2025-06-20

  6

  1

  MIT

• Heuris-BioMCP

  SachinGawande2003

  A

  license

  A

  quality

  D

  maintenance

  A bioinformatics MCP server that connects AI clients to over 30 life science databases and 32 curated tools for research, drug discovery, and clinical analysis.

  Last updated 2026-04-05

  32

  1

  MIT

• STRING MCP Server

  munch-group

  A

  license

  B

  quality

  D

  maintenance

  Provides access to the STRING protein-protein interaction database for mapping identifiers, retrieving interaction networks, and performing functional enrichment analysis. It enables users to explore protein partners, pathways, and cross-species homology through natural language interactions.

  Last updated 2025-12-09

  9

  1

  ISC

• genome-mcp

  gqy20

  A

  license

  B

  quality

  C

  maintenance

  Intelligent Genomic Data Server Provides high-quality gene information queries, homologous gene analysis, and evolutionary research functions via the MCP protocol.

  Last updated 2025-12-08

  6

  2

  MIT

• BioPython MCP Server

  kmaneesh

  A

  license

  B

  quality

  C

  maintenance

  Provides comprehensive BioPython capabilities for biological sequence analysis, alignment, database access (GenBank, UniProt, PubMed), protein structure analysis, and phylogenetics through a Model Context Protocol interface for AI-assisted bioinformatics workflows.

  Last updated 2026-01-16

  32

  2

  MIT