🎯Skills149
Retrieves biological sequences from NCBI and ENA with precise gene disambiguation, accession handling, and comprehensive sequence metadata
Performs comprehensive literature research with target disambiguation, evidence grading, and structured theme extraction for thorough scientific investigations.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A ToolUniverse skill for querying clinical guidelines, part of a platform that gives AI agents structured access to biomedical and scientific tools via MCP.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
An open-source platform that democratizes AI-powered scientific research by providing MCP server and agent skills for biomedical tool discovery, disease research, drug analysis, and protein studies via 150+ specialized tools.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
Retrieves comprehensive chemical compound data from PubChem and ChEMBL, providing detailed profiles with identifiers, properties, and bioactivity information.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A systems biology skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A network pharmacology skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
Retrieves comprehensive gene expression and multi-omics datasets from ArrayExpress and BioStudies with intelligent gene disambiguation and quality assessment.
ToolUniverse Python SDK skill for building AI scientist systems with programmatic access to 1000+ scientific tools for drug discovery, protein analysis, genomics, and literature research
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A clinical trial matching skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an open-source platform that provides over 18,000 AI scientist tools as MCP servers and agent skills, enabling AI coding agents to perform scientific tasks like bioinformatics analysis, drug discovery, and data processing.
Generates scientific tool classes and configurations for ToolUniverse framework, ensuring proper structure, validation, and automated wrapper creation.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A proteomics analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A skill for optimizing tool descriptions in ToolUniverse JSON configurations to improve clarity and usability. Reviews descriptions for missing prerequisites, unexpanded abbreviations, unclear parameters, and missing usage guidance.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A spatial transcriptomics skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A metabolomics analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools that democratizes AI-powered scientific workflows.
A multi-omics integration skill from ToolUniverse by Harvard, providing AI-powered tools for integrating genomics, proteomics, and metabolomics data in scientific research.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A drug-target validation skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A tooluniverse gwas drug discovery skill from ToolUniverse by Harvard, an AI scientist toolkit democratizing scientific tool access.
A precision medicine stratification skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
An RNA-seq DESeq2 analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A gene enrichment analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
A ToolUniverse skill for interpreting GWAS SNP data, enabling AI agents to analyze genome-wide association study results through structured scientific tool interfaces.
A cancer variant interpretation skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
Map genetic traits to associated genes using GWAS data, part of the ToolUniverse framework from Harvard's Zitnik Lab for democratizing AI scientists.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
An immunotherapy response prediction skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A spatial omics analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A tooluniverse gwas finemapping skill from ToolUniverse by Harvard, an AI scientist toolkit democratizing scientific tool access.
An immune repertoire analysis skill from ToolUniverse, an open-source platform with 30,000+ biomedical research tools for AI-powered scientific workflows.
A tooluniverse phylogenetics skill from ToolUniverse by Harvard, an AI scientist toolkit democratizing scientific tool access.
Explore and query genome-wide association studies, part of the ToolUniverse genomics research framework from Harvard.
A tooluniverse metabolomics skill from ToolUniverse by Harvard, an AI scientist toolkit democratizing scientific tool access.
A variant analysis skill from ToolUniverse by Harvard, providing AI-powered genomic variant analysis tools for scientific research and bioinformatics.
A ToolUniverse skill that installs and configures other ToolUniverse scientific skills, providing a bootstrapping entry point for the AI scientist tool ecosystem.
Calculate polygenic risk scores from genetic variants, part of the ToolUniverse biomedical research framework from Harvard.
A ToolUniverse skill for AI-assisted genetic variant interpretation, part of a platform that democratizes scientific tool access for AI agents via MCP and CLI interfaces.
A protein interaction network analysis skill from ToolUniverse, an AI scientist toolkit from Harvard that democratizes scientific tool access through MCP-compatible Claude Code skills.
Orchestrates the full ToolUniverse self-improvement cycle for life science API tools, coordinating discovery, creation, testing with researcher persona agents, bug fixing, optimization, and shipping through specialized sub-skills.
ToolUniverse is an ecosystem for building AI scientist systems that provides access to hundreds of domain-specific biomedical and scientific tools, including single-cell analysis capabilities, through a unified MCP server and skills interface.
Guides you through adding custom local tools to ToolUniverse alongside its 1,000+ built-in tools, covering JSON-config tools (no code required), Python class tools for REST/SOAP/GraphQL APIs, and plugin packages for sharing reusable tools.
Encodes code quality patterns and optimization guidelines for ToolUniverse tool development, distilled from 80+ debug rounds, covering return schema correctness, API-specific bug fixes, and pre-commit checklists.
A ToolUniverse skill for organic chemistry research, part of an ecosystem that integrates 1000+ ML models, datasets, APIs, and scientific packages to create AI scientist systems from any LLM via the AI-Tool Interaction Protocol.
ToolUniverse is an ecosystem for creating AI scientist systems from any large language model, providing an MCP server, Python SDK, and CLI for accessing biomedical research tools. Covers drug research, genomics, proteomics, and more through the AI-Tool Interface protocol.
Performs TCGA/GDC cancer genomics analysis including cohort construction, clinical metadata retrieval, somatic mutation profiling, copy number variation analysis, survival analysis, and clinical variant interpretation.
Guides pharmacogenomics research with drug-gene interaction lookups, CPIC guideline retrieval, variant-drug annotations, allele function status, FDA biomarker labeling, and clinical dosing recommendations.
A toxicology assessment skill that links molecular initiating events through adverse outcome pathways (AOPs) to adverse outcomes, triangulating with real-world FAERS signals, FDA label data, and toxicogenomic associations from CTD. Produces structured toxicity reports with evidence grading.
A skill from ToolUniverse, an ecosystem for building AI scientist systems from any LLM. Provides MCP server integration, a Python SDK, and a CLI for discovering and running scientific tools focused on neuroscience research.
A ToolUniverse skill for systematic drug mechanism of action investigation, guiding agents to trace a drug from its primary target through pathways to clinical outcomes using OpenTargets, PharmGKB, ChEMBL, and DailyMed tools. Covers target identification, off-target effects, and pharmacogenomic interactions.
Provides immunology research workflows using ToolUniverse tools, covering antibody-antigen structural analysis (SAbDab), epitope and T-cell/B-cell assay data (IEDB), immunoglobulin gene databases (IMGT), cytokine/receptor signaling, clinical safety data, autoimmune disease genetics, and immune pathway analysis via KEGG and Reactome.
A ToolUniverse skill for inorganic and physical chemistry covering crystal structures, coordination chemistry, bonding theory, symmetry/point groups, thermodynamics, kinetics, and spectroscopy interpretation, with computation scripts for crystal validation and equilibrium solving.
An end-to-end epidemiological data analysis skill that guides AI agents from PECO research question formulation through dataset discovery, statistical modeling, confounder adjustment, and publication-ready reporting using Python code execution.
Provides comprehensive ADMET (Absorption, Distribution, Metabolism, Excretion, Toxicity) profiling of drug candidates using ToolUniverse tools including ADMETAI predictions, SwissADME drug-likeness, PubChemTox experimental toxicity, and ChEMBL clinical data. Generates structured ADMET scorecards with pass/fail verdicts per category.
ToolUniverse is an ecosystem for creating AI scientist systems from any large language model, providing an MCP server, Python SDK, and CLI for accessing biomedical research tools. Covers drug research, genomics, proteomics, and more through the AI-Tool Interface protocol.
A ToolUniverse skill for finding commercial sources for chemical compounds using ZINC, Enamine, eMolecules, and Mcule databases. Covers compound identification via PubChem/ChEMBL, vendor search, price comparison, purchasable analog discovery, and order preparation.
A ToolUniverse skill for analyzing microbiome and metagenomics data using MGnify, GTDB, ENA, and literature tools. Supports study discovery, taxonomic classification, genome quality assessment, functional annotation, and clinical association analysis for environmental and human gut microbiome research.
ToolUniverse is an ecosystem for creating AI scientist systems from any large language model, providing an MCP server, Python SDK, and CLI for accessing biomedical research tools. Covers drug research, genomics, proteomics, and more through the AI-Tool Interface protocol.
A ToolUniverse skill for clinical data integration. ToolUniverse is an ecosystem that enables AI agents to autonomously conduct scientific research by providing MCP server integration, a CLI, and a Python SDK for building AI scientist systems.
A biomedical skill for metabolomics pathway analysis that identifies metabolites, maps them to pathways, finds disease associations, and connects metabolites to enzymes and genes. It integrates PubChem, HMDB, MetaCyc, CTD, KEGG, Reactome, MetabolomicsWorkbench, and BridgeDb to support metabolite identification, cross-database enrichment, and pathway interpretation.
A skill from ToolUniverse, an ecosystem for building AI scientist systems from any LLM. Provides MCP server integration, a Python SDK, and a CLI for discovering and running scientific tools including data wrangling capabilities.
An AI scientist skill for ecology and biodiversity research, providing structured reasoning frameworks for species identification, invasive species impact assessment, pollinator ecology, population dynamics, and conservation biology using tools like GBIF, WoRMS, and PubMed.
A research skill for GPCR structural pharmacology that integrates GPCRdb, SAbDab, and PDBePISA databases. Enables querying receptor families, ligand classification (agonists/antagonists/biased), mutations, crystal structures, antibody CDR annotations, and protein-protein interface analysis.
Connects GWAS variants to biological pathways for drug target discovery by mapping disease-associated SNPs to causal genes via eQTL colocalization and identifying druggable targets in enriched pathways.
A skill that guides AI agents to systematically find and evaluate research datasets for scientific questions by determining study design requirements, searching multi-layer repositories (CDC, GEO, ClinicalTrials, etc.), and assessing dataset fitness before settling on a source.
An AI scientist skill for small molecule discovery covering the full pipeline from compound identification to commercial sourcing. Integrates PubChem, ChEMBL, BindingDB, SwissADME, and ADMET-AI for compound search, structure analysis, binding affinity data, drug-likeness prediction, and procurement via eMolecules and Enamine.
A ToolUniverse skill for comparative genomics research. ToolUniverse is an ecosystem that enables AI agents to autonomously conduct scientific research by providing MCP server integration, a CLI, and a Python SDK for building AI scientist systems.
A skill from ToolUniverse, an ecosystem for building AI scientist systems from any LLM. Provides MCP server integration, a Python SDK, and a CLI for discovering and running scientific tools focused on protein structure prediction.
A ToolUniverse skill for population genetics and 1000 Genomes data analysis. ToolUniverse is an ecosystem that enables AI agents to autonomously conduct scientific research by providing MCP server integration, a CLI, and a Python SDK for building AI scientist systems.
A ToolUniverse skill for adverse outcome pathway analysis. ToolUniverse is an ecosystem that enables AI agents to autonomously conduct scientific research by providing MCP server integration, a CLI, and a Python SDK for building AI scientist systems.
ToolUniverse is an MCP-based ecosystem from Harvard that provides AI agents with a curated set of scientific tools, enabling researchers to build AI scientist systems that can discover, inspect, and run biomedical and data analysis tools via a CLI, Python SDK, or natural language.
Finds and retrieves proteomics datasets from MassIVE and ProteomeXchange repositories, supporting search by species, keyword, or accession with detailed metadata including instruments and publications.
Analyzes post-translational modifications (PTMs) of proteins using iPTMnet, ProtVar, UniProt, and STRING, covering modification sites, proteoforms, functional effects, and PTM-dependent interactions.
A biomedical skill for systematically exploring disease-drug-variant relationships using KEGG Disease, Drug, Network, and Variant databases via 12 dedicated tools. It supports disease gene lookup, drug-target analysis, network exploration of disease-gene-drug connections, and variant annotation with guidance on distinguishing direct versus indirect drug-target relationships.
A biological sequence analysis skill for retrieving and analyzing gene/protein sequences from NCBI, Ensembl, and UniProt. Covers nucleotide database search, sequence fetching by accession, ortholog discovery, gene summaries, and protein sequence extraction.
A ToolUniverse skill for structural proteomics research, providing AI-powered workflows for protein structure analysis through the ToolUniverse ecosystem that integrates 1000+ scientific tools, ML models, and databases.
Lipidomics analysis pipeline using LIPID MAPS, HMDB, PubChem, KEGG, and CTD for lipid identification, classification, pathway mapping, biomarker discovery, and disease association analysis.
Finds and compares gene-disease associations across DisGeNET, OpenTargets, Monarch Initiative, OMIM, GenCC, and Orphanet databases, producing unified evidence tables with confidence levels.
An AI scientist skill for model organism genetics research, part of ToolUniverse — an ecosystem for creating AI scientist systems from any LLM. Provides MCP server integration, agent skills, and a Python SDK for programmatic access to scientific tools and databases.
A ToolUniverse skill for investigating plant genes, metabolic pathways, and species taxonomy using PlantReactome, Ensembl Plants, POWO, UniProt, and KEGG. Supports cross-species comparison of crop genomes, plant-specific pathway analysis, and evidence-graded functional annotation.
A ToolUniverse skill for discovering and analyzing electron microscopy data, including cryo-EM density maps from EMDB, raw micrographs from EMPIAR, and cryo-electron tomography datasets. Cross-references with PDB structures and AlphaFold predictions for comprehensive structural biology analysis.
A ToolUniverse skill for computational biophysics research, enabling AI-driven molecular simulations and biophysical analysis through the ToolUniverse ecosystem that integrates 1000+ scientific tools, ML models, and databases.
A biomedical skill for analyzing HLA genes, MHC-peptide binding, epitope associations, and immunogenomics by integrating databases including IMGT, IEDB, BVBRC, UniProt, and DGIdb. It supports clinical applications such as transplant compatibility matching, vaccine design, neoantigen prediction, and drug hypersensitivity interpretation.
A biomedical skill for interpreting non-coding regulatory variants by integrating GWAS Catalog, GTEx, ENCODE, RegulomeDB, OpenTargets, OLS, and Ensembl regulatory features. It covers GWAS association lookup, eQTL analysis, chromatin state annotation, regulatory element overlap, and evidence-graded functional impact prediction for trait-associated SNPs.
A ToolUniverse skill for ACMG variant classification, part of a platform that provides over 1,000 scientific tools including ML models, datasets, and APIs for AI-powered research workflows. It integrates via MCP and supports Claude, GPT, Gemini, and other LLMs.
A ToolUniverse skill for cell line profiling, part of an ecosystem providing over 1,000 scientific tools for AI-powered research. Supports MCP integration, async operations for long-running experiments, tool composition, and works with Claude, GPT, Gemini, and other LLMs.
An AI scientist skill for standardizing cancer type nomenclature using the OncoTree ontology. Translates free-text tumor descriptions to OncoTree codes, looks up cancer subtypes and tissue hierarchies, resolves UMLS/NCI cross-references, and provides OncoKB-compatible tumor type codes for variant annotation.
A rare disease genomics research skill that supports disease identification via Orphanet, causative gene discovery, gene-disease validity assessment via GenCC, pathogenic variant lookup via ClinVar, HPO phenotype mapping, and clinical trial search. Follows a phenotype-to-variant investigation strategy.
A ToolUniverse skill for mapping genetic variants to molecular mechanisms, leveraging the ToolUniverse ecosystem with 1000+ integrated scientific tools, ML models, and databases for AI-driven variant interpretation.
A ToolUniverse skill for functional genomics screens, providing AI-driven workflows for analyzing genome-wide screening data through the ToolUniverse ecosystem with 1000+ integrated scientific tools and ML models.
A ToolUniverse skill for researching aging biology, cellular senescence, and longevity. Integrates GWAS data, gene expression analysis, pathway databases, senolytic drug discovery, epigenetic aging clocks, and literature to investigate aging mechanisms and age-related diseases.
A ToolUniverse skill for computational vaccine candidate design through epitope prediction, population coverage optimization, and immunogenicity assessment. Uses IEDB for MHC-I/II binding prediction, UniProt for antigen sequences, and PDB/AlphaFold for structural epitopes, supporting multi-epitope construct design across diverse HLA populations.
A ToolUniverse skill for variant functional annotation, enabling AI-powered analysis of genetic variants using the ToolUniverse ecosystem that integrates 1000+ scientific tools, ML models, and databases.
A ToolUniverse skill for analyzing non-coding RNAs including miRNAs, lncRNAs, and circRNAs using miRBase, LNCipedia, RNAcentral, and Rfam. Covers ncRNA identification, miRNA target prediction with evidence grading, disease associations, expression profiling, and functional annotation.
A research pipeline skill for investigating stem cell biology, iPSC characterization, and organoid models using ToolUniverse tools. Integrates CellxGene, CellMarker, GEO, KEGG, and PubMed for marker identification, differentiation pathway analysis, and disease modeling.
ToolUniverse is an MCP server from Harvard MIMS providing access to a collection of AI tools via a standardized protocol for Claude Code and other agents.
ToolUniverse skill for microbiome research that democratizes AI-powered scientific investigation with MCP-compatible tools for biological data analysis and discovery.
An ecosystem from Harvard Zitnik Lab for building AI scientist systems from any large language model, providing MCP server integration, a Python SDK, and a CLI for discovering, inspecting, and running scientific research tools across domains.
An open-source platform from Harvard that provides AI agents with access to scientific tools via MCP server and agent skills, covering bioinformatics, cheminformatics, and biomedical research tasks.
Part of ToolUniverse by Harvard's Zitnik Lab, an ecosystem for building AI scientist systems that integrates over 1,000 ML models, datasets, APIs, and scientific packages with MCP support, 68 pre-built research workflows, and multi-source literature search.
ToolUniverse provides a Python toolkit and MCP server for democratizing AI-driven scientific research, offering tools for protein interactions, molecular analysis, and biomedical discovery.
A skill from ToolUniverse, an ecosystem for creating AI scientist systems from any large language model. It provides an MCP server, Python SDK, and CLI for discovering, inspecting, and running scientific tools across biology, chemistry, and other domains.
An ecosystem for building AI scientist systems from any LLM, providing scientific research tools via MCP server and Claude Code skills with a CLI and Python SDK for tool discovery and execution.
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