Drug Repurposing and Discovery
Installable Claude components for target identification, virtual screening, lead optimization, ADMET prediction, drug-repurposing knowledge graphs, and end-to-end discovery agents.
10x Genomics Cloud MCP
MCP server · 10x Genomics · GA · verified: degraded · security: caution
Conversational orchestration of 10x Cloud single-cell, immune-profiling, and spatial-transcriptomics analyses.
ADMET Prediction (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that profiles a compound’s absorption, distribution, metabolism, excretion, and toxicity into a graded pass/warn/fail scorecard.
ADMETlab MCP Server
MCP server · ToxMCP (community) · Beta · verified: degraded · security: caution
Self-hostable MCP server wrapping the ADMETlab 3.0 API for molecule washing, SVG rendering, ADMET property prediction, and CSV retrieval.
ALKYL
Claude Code Plugin · Kyllian de Vos (community) · Beta · verified: works · security: caution
Claude Code plugin bundling 27 computational-chemistry skills — RDKit, docking, MD, quantum chemistry, free energy, generative design — plus four keyless MCP servers.
Adaptyv (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: caution
K-Dense skill that submits designed protein and antibody sequences to the Adaptyv cloud lab for wet-lab binding, expression, thermostability, and activity assays, with NetSolP/SoluProt/SolubleMPNN/ESM/ipTM/pSAE pre-screening.
AdisInsight Plugin
Claude Code Plugin · Springer Nature · GA · verified: degraded · security: cleared
Springer Nature AdisInsight MCP plugin surfacing drug-development pipeline, clinical-trial, and deal intelligence to Claude for repurposing and competitive scouting.
Adverse Event Detection (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that detects adverse-drug-event signals from FDA FAERS with disproportionality statistics (PRR, ROR, IC) and a 0–100 safety signal score.
Adverse Outcome Pathway (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that maps chemicals to adverse outcome pathways using AOPWiki, GHS/IARC classification, LD50 data, and toxicogenomics.
Aging and Senescence Research (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill for geroscience — senescence markers, aging hallmarks, longevity GWAS, and senolytic target discovery with graded evidence.
AlphaFold MCP Server
MCP server · Augmented Nature · GA · verified: works · security: caution
MCP server exposing the EBI AlphaFold Protein Structure Database for structure retrieval, pLDDT analysis, comparison, and PyMOL/ChimeraX export.
AlphaFold2 (Claude Skill)
Claude Skill · Google DeepMind · GA · verified: works · security: cleared
AlphaFold2 protein/complex structure prediction, run locally or via a hosted API with an optional ColabFold MSA server; a Claude Science skill.
Anthropic PubMed Connector
MCP server · Anthropic · GA · verified: works · security: cleared
Anthropic-managed NCBI literature search via PubMed and PubMed Central.
Arboreto (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for gene-regulatory-network inference with Arboreto — GRNBoost2 / GENIE3 tree-based regression over bulk or single-cell expression, distributed via Dask.
AutoDock Vina (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Molecular docking with AutoDock Vina (Python API).
BGPT Paper Search (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
BLAST (Bio-MCP)
MCP server · Bio-MCP · GA · verified: works · security: caution
MCP server wrapping NCBI BLAST+ for nucleotide/protein similarity search and custom database creation, run locally over stdio.
Binder Discovery (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: caution
ToolUniverse agent skill that discovers small-molecule binders for a target via known-ligand mining, similarity expansion, docking, and ADMET filtering into a ranked shortlist.
Binding Site Detection (bioSkills)
Claude Skill · GPTomics bioSkills · GA · verified: works · security: cleared
Find and rank druggable pockets on an apo protein with fpocket, P2Rank, CASTp and DoGSiteScorer — including cryptic pockets over an MD ensemble
BindingDB (Claude Science Connector)
Claude.ai Connector · Anthropic · GA · verified: works · security: cleared
Measured protein–small-molecule binding affinities from BindingDB; a source in the Chemistry connector in Claude Science.
BioContextAI Knowledgebase MCP
MCP server · BioContextAI · GA · verified: works · security: cleared
Read-only MCP that unifies 14+ biomedical databases (Antibody Registry, UniProt, STRING, AlphaFold, KEGG, Open Targets) for immune and protein-context queries.
BioMCP
MCP server · GenomOncology · GA · verified: degraded · security: cleared
Unified biomedical lookup across PubMed, ClinicalTrials.gov, MyVariant, and OpenFDA.
BioPython (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Comprehensive molecular biology toolkit.
BioRender Connector
MCP server · BioRender · GA · verified: degraded · security: cleared
Scientific-figure assembly from the 50,000+ BioRender icon and template library.
BioServices (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Unified Python interface to 40+ bioinformatics services.
Biomni (Claude Skill)
Claude Skill · Stanford SNAP Lab · GA · verified: works · security: caution
General-purpose biomedical AI agent that plans and runs multi-step research workflows across genomics, drug discovery, and clinical analysis.
Blatant-Why (BY) Protein Design Agent
Claude Code Plugin · 001TMF · Beta · verified: works · security: caution
Scaffolds a Claude Code antibody and nanobody design campaign — 19 skills, 13 slash commands, and 11 MCP servers wired to design models and cloud compute.
Boltz (Claude Code Plugin)
Claude Code Plugin · Boltz · GA · verified: works · security: caution
Skills that drive the hosted Boltz API to predict biomolecular structures, screen and design small molecules, and design protein/antibody binders.
CAN-IMMUNE
MCP server · Li/Purcell Lab, Monash University · GA · verified: works · security: caution
Hosted MCP server over the CAN-IMMUNE cancer neoantigen database — mutant peptides, cell lines, tissues, and MHC-I binding predictions.
CIViC (Claude Science Connector)
Claude.ai Connector · Anthropic · GA · verified: works · security: cleared
Crowd-curated clinical interpretations of cancer variants from CIViC (WashU); a source in the Clinical Genomics connector in Claude Science.
COBRApy (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill driving COBRApy for constraint-based metabolic modelling — FBA, FVA, gene knockouts, flux sampling, gapfilling on SBML genome-scale models.
Cancer Genomics TCGA (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill for TCGA/GDC cancer genomics — cohort construction, clinical metadata, somatic mutation frequencies, CNV, survival analysis, and OncoKB variant interpretation.
Cancer Variant Interpretation (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that turns a gene + somatic variant + cancer type into an evidence-graded precision-oncology report with therapies, resistance, and matching trials.
Cell Line Profiling (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that ranks cancer cell lines for an experiment by cross-referencing DepMap, Cellosaurus, COSMIC, and PharmacoDB.
Certus Drug Information MCP Server
MCP server · Aditya Damerla (zesty-genius128) · GA · verified: works · security: caution
MIT openFDA MCP server focused on drug shortages, recalls, labels, and adverse events — with a zero-install hosted endpoint and batch analysis across up to 25 drugs.
ChEMBL Connector
Claude Code Plugin · EMBL-EBI (Anthropic-packaged) · GA · verified: works · security: cleared
Anthropic-packaged plugin and Claude.ai connector over EMBL-EBI’s ChEMBL bioactive-compound database — compound, target, bioactivity, and mechanism-of-action lookup.
Chai-1 (Claude Skill)
Claude Skill · Chai Discovery · GA · verified: works · security: cleared
Chai-1 biomolecular structure prediction (proteins, nucleic acids, ligands) run locally or via a hosted server; a Claude Science skill.
ChemLint
MCP server · molML (TU/e) · GA · verified: works · security: cleared
MCP server exposing 150+ molecular machine-learning tools — SMILES cleaning, descriptors, similarity, clustering, model training — so Claude runs cheminformatics ML without Python scripting.
Chemical Safety (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill for chemical hazard and toxicology assessment via ADMET-AI, CTD toxicogenomics, AOPWiki, GHS/IARC classification, and regulatory safety data.
Chemical Sourcing (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that finds commercial suppliers for a compound across ZINC, Enamine, eMolecules, and Mcule, with purchasable-analog fallback.
ClinPGx (PharmGKB) (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query the ClinPGx (formerly PharmGKB) REST API plus the CPIC PostgREST companion API for pharmacogenomic clinical annotations, CPIC/DPWG dosing guidelines, gene-drug pairs, variant-drug associations …
Clinical Trial Design (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that scores trial feasibility across endpoint, population, comparator, effect size, duration, and regulatory pathway using precedent trials.
Clinical Trial Matching (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that turns a molecular profile into ranked trial matches across ClinicalTrials.gov, EU CTIS, and ISRCTN with evidence tiers.
ClinicalTrials.gov MCP Server (cyanheads)
MCP server · cyanheads (Casey Hand) · GA · verified: works · security: cleared
Apache-2.0 MCP server over the ClinicalTrials.gov v2 API — trial search, full study records, outcomes / adverse-event extraction, and patient-to-trial matching. Hosted public instance available.
Composer
Plugin · Scripps AI Enablement · Beta · verified: works · security: cleared
Turns a plain-language scientific problem into a grounded, runnable Claude solution composed from this catalog, reusing recipes and, for open-ended goals, assembling a multi-agent system from those same components.
Consensus Plugin
Claude Code Plugin · Consensus · GA · verified: degraded · security: cleared
Consensus.app MCP plugin bringing AI-powered scientific literature search and evidence synthesis into Claude across all research areas.
Cortellis Plugin
Claude Code Plugin · Clarivate · GA · verified: degraded · security: caution
Clarivate Cortellis MCP plugin surfacing global drug-pipeline, clinical-trial, regulatory, safety, and deals intelligence to Claude for competitive scouting and regulatory work.
CovaSyn Chemistry MCP
MCP server · CovaSyn · GA · verified: degraded · security: caution
Hosted deterministic cheminformatics MCP with 130+ tools spanning ADMET, docking, retrosynthesis, ICH M7 toxicology, NMR/MS, and biologics design.
DDInter (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: caution
Query DDInter drug-drug interactions via REST API (1.7M+ interactions, 2,400+ drugs).
DailyMed (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query FDA drug labels (DailyMed) via REST API.
Database Lookup (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Search 78 public scientific, biomedical, materials science, and economic databases via REST APIs.
Datamol (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill wrapping Datamol — an RDKit-based Python library for molecular standardization, transformations, featurization, and parallel processing on large compound libraries.
DeepChem (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill driving DeepChem for molecular machine learning — graph neural nets (GCN, GAT, MPNN, AttentiveFP), featurization, and the MoleculeNet benchmarks (toxicity, ADMET, quantum properties).
DepMap (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for querying the Cancer Dependency Map — CRISPR Chronos gene-effect scores, PRISM drug sensitivity, mutation, expression, and CN data across cancer cell lines.
DiffDock (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill driving DiffDock, a diffusion-based deep-learning docker that predicts protein–ligand binding poses from PDB plus SMILES with per-pose confidence scores.
Dose-Response Analysis (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that fits four-parameter logistic curves to concentration-response data, returning IC50/EC50, Hill slope, Emax, and fit quality.
Drug Mechanism Research (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that traces a drug’s mechanism from primary target through off-targets, pathways, FDA label, and pharmacogenomics.
Drug Pipeline MCP Server
MCP server · DasClown (community) · GA · verified: degraded · security: caution
MCP server aggregating clinical trials, FDA/EMA approvals, safety data, and labels into source-traceable drug pipeline intelligence — no predictions, every output cites its primary source.
Drug Regulatory Research (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill for jurisdiction-aware approval status — UNII identity, ATC/EPC class, Orange Book patents and exclusivity, generic availability, label parsing.
Drug Repurposing (Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that finds drug-repurposing candidates via target-, compound-, and disease-driven strategies with mechanism and feasibility scoring.
Drug Research (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that compiles a comprehensive drug dossier — mechanism, targets, ADMET, trials, FAERS safety, pharmacogenomics, and approval history.
Drug Synergy (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that quantifies drug-combination synergy using Bliss, HSA, Loewe, ZIP, and Chou-Talalay reference models.
Drug Target Validation (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that scores a drug target 0–100 across genetic, druggability, safety, and clinical-precedent gates with a GO/NO-GO recommendation.
Drug-Drug Interaction (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: caution
ToolUniverse agent skill that assesses drug-drug interactions via CYP/transporter pharmacokinetics, pharmacodynamic overlap, and 0-100 clinical risk scoring.
DrugBank MCP Server
MCP server · openpharma-org (community) · GA · verified: works · security: caution
Community MCP server exposing a local DrugBank SQLite (17k+ drugs) with 16 query methods for repurposing, target lookup, interactions, and structural similarity.
EMBL-EBI OLS (Claude Skill)
Claude Skill · Google DeepMind · GA · verified: degraded · security: cleared
Resolve and navigate biomedical ontology terms (GO, MONDO, HP, CHEBI, CL, UBERON, EFO, …) across 250+ ontologies via the EMBL-EBI Ontology Lookup Service.
Ensembl MCP Server
MCP server · effieklimi · GA · verified: works · security: cleared
MCP server over the Ensembl REST API for gene/transcript lookup, sequence retrieval, variant consequences, comparative genomics, and assembly lift-over.
Enzyme Kinetics (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill that fits Michaelis-Menten kinetics to substrate-velocity data and classifies inhibition mechanism with a Ki estimate.
FDA MCP Server (OpenPharma)
MCP server · OpenPharma · Beta · verified: works · security: cleared
MIT MCP server over the FDA Orange Book, Purple Book, and openFDA — patent-cliff forecasting, therapeutic equivalents, and biosimilar interchangeability.
GPCR Structural Pharmacology (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill for GPCR drug discovery — ligand classification, GPCRdb structures, mutation effects, and antibody-antigen interface analysis.
GWAS Drug Discovery (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that turns GWAS-significant loci into druggable targets and repurposing candidates via fine-mapping, tractability scoring, and drug matching.
GWAS-MCP
MCP server · ZaEyAsa · GA · verified: works · security: caution
Single-install MCP server exposing 30+ tools across 14 biological databases (UniProt, Ensembl, ClinVar, GWAS Catalog, STRING, AlphaFold, KEGG, Open Targets, OMIM) for variant-to-target research.
Gene Liability Evaluation (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill that scores the human safety liability of inhibiting or knocking out a gene across five evidence dimensions.
Gene Ontology MCP Server
MCP server · Augmented Nature · Beta · verified: works · security: caution
Query GO terms, annotations, and enrichment inputs from the Gene Ontology; part of the Genes & Ontologies connector in Claude Science.
GlyGen MCP Server
MCP server · GlyGen · Beta · verified: degraded · security: caution
First-party remote MCP server over GlyGen’s integrated glycan, glycoprotein, biomarker, and disease data — protein, site, glycan, biomarker, and disease summaries.
Glycoengineering (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for protein-glycosylation analysis — N-glycosylation sequon scanning, O-glycosylation hotspot prediction, and access to NetOGlyc/GlycoShield/GlycoWorkbench for therapeutic antibody and vaccine design.
Guide to Pharmacology (GtoPdb) (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.
Hypothesis Crucible (Claude Plugin)
Claude Plugin · Scripps AI Enablement · GA · verified: works · security: cleared
Agentic cross-corpus hypothesis generation — mines typed knowledge fragments from literature, structured databases, and raw experimental data, bridges them Swanson-style into novel connections, then runs a falsification gauntlet that aggressively rejects non-novel, ungrounded, contradicted, or implausible ideas, emitting only survivors with cited support and a discriminating experimental test.
Hypothesis Generation (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Structured hypothesis formulation from observations.
Immunotherapy Response Prediction (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that predicts immune-checkpoint-inhibitor response by integrating TMB, MSI, PD-L1, HLA, and immune gene expression into a 0–100 score.
Indication Dossier (Claude Skill)
Claude Skill · Anthropic · GA · verified: works · security: cleared
Anthropic agent skill that compiles an indication/target dossier by orchestrating Claude Science connectors (Open Targets, ClinicalTrials, literature).
Inductive Bio ADMET Connector
Claude.ai Connector · Inductive Bio · GA · verified: degraded · security: cleared
Claude.ai connector surfacing Inductive Bio’s ADMET prediction models so drug-discovery chemists can predict compound properties in-conversation.
LabMate MCP
MCP server · Jonas Rackl · GA · verified: works · security: caution
One-install cheminformatics MCP with 81 tools — retrosynthesis, forward/ADMET/pKa/NMR prediction, 202 named reactions, reagent calculators, compound and literature lookup.
LigandMPNN (Claude Skill)
Claude Skill · Baker Lab, UW Institute for Protein Design · GA · verified: works · security: cleared
LigandMPNN ligand-aware protein sequence design (fixed-backbone) accounting for small molecules, metals, and nucleotides; a Claude Science skill.
Literature Review (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.).
MedChem (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill wrapping MedChem — drug-likeness filters (Lipinski, Veber, Egan, Muegge), ADMET-flag detection, and medicinal-chemistry alerts on top of RDKit.
Mendelian Randomization (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA
ToolUniverse agent skill that uses genetic variants as instrumental variables to test whether an exposure causally affects a disease outcome.
Molecular Dynamics (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill that runs and analyzes OpenMM molecular dynamics simulations and MDAnalysis trajectory analyses for proteins, ligands, and biomolecular complexes.
Molecule-MCP
MCP server · chatmol · GA · verified: works · security: caution
MCP bundle letting Claude drive PyMOL and ChimeraX visualization and run GROMACS molecular dynamics simulations via natural language.
Molfeat (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill wrapping Molfeat — a unified API over 100+ molecular featurizers spanning classical fingerprints, descriptors, and pre-trained chemical foundation-model embeddings.
MyGene.info MCP (BioThings)
MCP server · longevity-genie · GA · verified: works · security: cleared
Gene annotation and ID conversion across species via MyGene.info/BioThings; the Genes & Ontologies connector in Claude Science.
Neoantigen Prediction (bioSkills)
Claude Skill · GPTomics bioSkills · GA · verified: works · security: cleared
Identify tumor neoantigens from somatic variants with pVACtools for personalized cancer vaccines and checkpoint biomarkers, centering clonality, HLA LOH, expression, and validation tiers
NovoMCP
MCP server · Quant NexusAI · Preview · verified: degraded · security: unknown
Hosted computational-chemistry engine MCP — ADMET, GFN2-xTB QM, GPU GROMACS MD, and AutoDock-GPU docking over a precomputed compound layer.
Ontology Lookup Service (OLS) MCP Server
MCP server · seandavi · Beta · verified: works · security: caution
Search and resolve terms across hundreds of biomedical ontologies via EMBL-EBI’s OLS; part of the Genes & Ontologies connector in Claude Science.
Open Targets (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query Open Targets GraphQL API for target-disease associations, evidence, drug links, safety.
Open Targets Plugin
Claude Code Plugin · Open Targets · GA · verified: degraded · security: caution
Official Open Targets MCP plugin giving Claude GraphQL access to target-disease associations, drug evidence, and target-prioritisation scores.
OpenFDA MCP Server (cyanheads)
MCP server · cyanheads · GA · verified: works · security: cleared
Apache-2.0 MCP server federating the full openFDA API — drugs, food, devices (510k/PMA), veterinary, recalls, and shortages — with a public HTTP instance.
OpenFDA MCP Server (ythalorossy)
MCP server · Ythalo Saldanha · GA · verified: works · security: caution
MIT-licensed npm MCP server over the openFDA drug API — adverse events, safety/labeling, manufacturer lookups, and NDC resolution.
OpenFold3 (Claude Skill)
Claude Skill · OpenFold Consortium / AQ Laboratory · GA · verified: works · security: cleared
OpenFold3 open-source biomolecular structure prediction (AlphaFold-class), run locally; a Claude Science skill.
OpenMM MCP Server
MCP server · PhelanShao (community OSS) · GA · verified: works · security: caution
MCP server that sets up and runs OpenMM molecular dynamics simulations (protein, membrane, advanced sampling) and Abacus DFT jobs from natural language.
Owkin Pathology Explorer Connector
Claude.ai Connector · Owkin · GA · verified: degraded · security: cleared
Owkin’s Pathology Explorer agent — H&E whole-slide image analysis, cell-type detection, and tumour-microenvironment profiling — exposed to Claude as a remote MCP connector.
PDB MCP Server
MCP server · RCSB PDB · GA · verified: works · security: cleared
MCP servers that let Claude search, fetch, and validate RCSB Protein Data Bank structures — including the official first-party RCSB server.
PDBe MCP Servers
MCP server · PDBe (EMBL-EBI) · GA · verified: works · security: cleared
First-party PDBe Europe MCP servers giving Claude access to protein structure data via REST API, Solr search, and an optional Neo4j graph.
Paper Lookup (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: caution
Search 10 academic paper databases via REST APIs for research papers, preprints, and scholarly articles.
Pharmacovigilance (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that mines FAERS adverse-event reports and FDA labels, computes disproportionality signals (PRR, ROR, IC), and assesses pharmacogenomic risk.
Precision Oncology (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that maps a tumor molecular profile to matched FDA-approved/investigational therapies, resistance mechanisms, and clinical trials.
PrimeKG (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: caution
Query the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biological data including genes, drugs, diseases, phenotypes, and more.
ProteinMPNN (Claude Skill)
Claude Skill · Baker Lab, UW Institute for Protein Design · GA · verified: works · security: cleared
ProteinMPNN deep-learning fixed-backbone protein sequence design; runs locally as a Claude Science skill.
Proto-OKN MCP Server
MCP server · SBL-SDSC (San Diego Supercomputer Center) · Beta · verified: works · security: cleared
Natural-language access to 30+ NSF Proto-OKN scientific knowledge graphs (SPOKE biomedicine, BioBricks chemical safety, more) via SPARQL, schema inspection, and cross-graph bridging.
PubChem MCP Server
MCP server · JackKuo666 · GA · verified: works · security: caution
MCP server that lets Claude query PubChem for compounds by name, SMILES, CID, or formula and pull structure files.
PyDESeq2 (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for bulk RNA-seq differential expression with PyDESeq2 — size factors, dispersion, Wald / LRT testing, BH-adjusted p-values.
PyTDC (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill driving PyTDC for Therapeutics Data Commons benchmarks — ADMET, drug-target / drug-drug interactions, drug response, molecular generation, retrosynthesis.
RDKit Agent
MCP server · scottmreed · Alpha · verified: works · security: caution
WASM-based cheminformatics CLI, Node library, and MCP server that validates, converts, and analyzes SMILES/SMIRKS/InChI with no Python runtime.
RDKit MCP Server
MCP server · TandemAI · GA · verified: works · security: cleared
MCP server exposing the full RDKit API as discrete tool calls so Claude can run cheminformatics without executing Python locally.
Rare Disease Genomics (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill for rare-disease investigation — Orphanet characterization, HPO phenotypes, causative genes, GenCC validity, ClinVar variants, trials, and repurposing.
Revvity Signals AI Connector
Claude.ai Connector · Revvity Signals Software · GA · verified: degraded · security: cleared
Claude.ai connector giving natural-language access to the Revvity Signals electronic lab notebook and connected R&D data.
Rowan
Claude Skill, MCP server · K-Dense / Rowan · GA · verified: works · security: caution
Cloud-native molecular modeling and medicinal-chemistry workflow platform, installable as a Claude Skill or an MCP server.
SAR Analysis (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Structure-activity relationship (SAR) analysis guide for drug discovery including molecular descriptor analysis, scaffold analysis, and activity cliff detection
Scanpy-MCP
MCP server · scmcphub · GA · verified: works · security: caution
MCP server wrapping Scanpy so Claude can run end-to-end single-cell RNA-seq analyses (QC, clustering, DE, plotting) from natural language.
Scholar Gateway Connector (Wiley)
MCP server · Wiley · Beta · verified: works · security: cleared
Wiley remote connector for peer-reviewed scholarly content — 3M+ articles, 300+ Life Sciences journals.
Scientific Brainstorming (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Creative research ideation and exploration.
Scientific Critical Thinking (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Evaluate scientific claims and evidence quality.
Small Molecule Discovery (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill for compound identification, analog search, bioactivity, ADMET, target prediction, and commercial sourcing across PubChem, ChEMBL, BindingDB, and vendor catalogs.
SolubleMPNN (Claude Skill)
Claude Skill · Baker Lab, UW Institute for Protein Design · GA · verified: works · security: cleared
Soluble-optimized ProteinMPNN weights that bias sequence design away from exposed hydrophobics; a Claude Science skill.
Synapse.org Connector
MCP server · Sage Bionetworks · GA · verified: works · security: cleared
Discovery and metadata retrieval across Synapse-hosted biomedical datasets and consortium projects.
Target Research (ToolUniverse Claude Skill)
Claude Skill · Zitnik Lab (Harvard Medical School) · GA · verified: works · security: cleared
ToolUniverse agent skill that profiles a drug target across nine parallel research paths — expression, pathways, interactions, variants, druggability — into a cited report.
ToolUniverse
MCP server · Zitnik Lab (Harvard Medical School) · MIT Lincoln Laboratory · GA · verified: works · security: cleared
Harvard / MIT MCP server bundling 600+ vetted scientific tools — literature, chemistry, omics, clinical trials — for AI-scientist-style hypothesis exploration.
TorchDrug (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
PyTorch-native graph neural networks for molecules and proteins.
UniChem (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Cross-reference compound IDs across 20+ databases (ChEMBL, DrugBank, PubChem, ChEBI, PDB, SureChEMBL, HMDB, DrugCentral, BindingDB) via UniChem REST API.
UniProt MCP Server
MCP server · Augmented Nature · GA · verified: works · security: caution
MCP server giving Claude 26 tools over the UniProt REST API for protein search, domains, orthologs, PTMs, pathways, and multi-format export.
ZINC (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query ZINC15/ZINC22 virtual compound libraries (1.4B compounds, 750M purchasable).
arXiv MCP Server
MCP server · blazickjp · GA · verified: works · security: cleared
Search and retrieve arXiv preprints (incl. q-bio) and metadata; part of the Literature Graph connector in Claude Science.
bio-research (Claude Code Plugin)
Claude Code Plugin · Anthropic · GA · verified: degraded · security: cleared
Umbrella plugin bundling 5 analysis skills and ~10 MCP connectors (PubMed, BioRender, ChEMBL, Synapse, Wiley, Open Targets, Benchling, etc.) for preclinical R&D.
cBioPortal MCP Server
MCP server · cBioPortal · GA · verified: works · security: caution
Query cancer genomics studies, mutations, and clinical data from cBioPortal; also the Cancer Models connector in Claude Science.
clinical-trial-protocol (Anthropic Healthcare Plugin)
Claude Code Plugin · Anthropic · GA · verified: works · security: caution
Anthropic Claude Code plugin that drafts FDA/NIH-compliant Phase 2/3 clinical-trial protocols for drugs or devices via a waypoint-based workflow.
gget (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill wrapping the gget command-line / Python tool for fast unified queries against Ensembl, UniProt, NCBI, PDB, COSMIC, and other genomics databases.
instrument-data-to-allotrope
Claude Skill · Anthropic · GA · verified: works · security: cleared
Converts 40+ lab-instrument output formats to Allotrope Simple Model JSON / CSV for LIMS and data-lake ingestion.
nextflow-development
Claude Skill · Anthropic · GA · verified: works · security: cleared
Runs nf-core rnaseq, sarek, and atacseq pipelines on local FASTQ or GEO/SRA inputs.
openFDA (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Query openFDA REST API for adverse events (FAERS), labeling, product info, recalls, enforcement.
scientific-problem-selection
Claude Skill · Anthropic · GA · verified: works · security: caution
Structured framework for research project ideation, risk assessment, and troubleshooting, based on Fischbach & Walsh (Cell 2024).
scvi-tools
Claude Skill · Anthropic · GA · verified: works · security: cleared
Deep-learning workflows for scVI, scANVI, totalVI, MultiVI, PeakVI, DestVI, and related scvi-tools models for single-cell omics.
single-cell-rna-qc
Claude Skill · Anthropic · GA · verified: works · security: cleared
scverse MAD-based QC for .h5ad and 10x .h5 single-cell RNA-seq inputs.
smina (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Smina molecular docking CLI.
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