Merged timeline of 188 items — blog publish times and listing timestamps, cut at midnight . Page 4 of 4.
### Quickgo Database - name: "quickgo-database" - description: "Query the QuickGO and Evidence & Conclusion Ontology (ECO) REST API. Use this when you need to map genes to biological processes, molecular functions, or c…
### Unibind Database - name: "unibind-database" - description: "Queries the UniBind database for experimentally validated transcription factor (TF) binding sites. Use when retrieving direct TF-DNA interaction datasets,…
### Gnomad Database - name: "gnomad-database" - description: "Query the Genome Aggregation Database (gnomAD). Use when determining the rarity or allele frequency of specific genetic variants, retrieving gene constraint…
### Workflow Skill Creator - name: "workflow-skill-creator" - description: "Distills a completed user workflow or interaction into a reusable agent skill. Use when the user asks to turn their workflow, interaction, or m…
### Literature Search Arxiv - name: "literature-search-arxiv" - description: "Search for scientific papers, preprints, and publications on arXiv. Extract metadata, abstracts, and download full-text PDFs or HTML versions…
### Pymol - name: "pymol" - description: "Visualize, analyze, and render protein and molecular structures using PyMOL. Use when the user wants to create images of protein structures, perform structural alignments or sup…
### Uv - name: "uv" - description: "Checks whether the uv Python package manager is installed and installs it if missing. Ensures uv is on PATH. Use when another skill requires uv as a prerequisite."
### Pubchem Database - name: "pubchem-database" - description: "Query PubChem, search by name/CID/SMILES, retrieve properties, similarity/substructure searches, bioactivity, for cheminformatics. Use when a user asks abo…
### Clinical Trials Database - name: "clinical-trials-database" - description: "Query ClinicalTrials.gov via APIv2. Use when you want to search for trials by condition, drug, location, status, or phase; retrieve trial d…
### Ucsc Conservation And Tfbs - name: "ucsc-conservation-and-tfbs" - description: "Fetch Evolutionary Conservation scores (phyloP, phastCons) and Transcription Factor Binding Sites (TFBS) from the UCSC Genome Browser.…
### Human Protein Atlas Database - name: "human-protein-atlas-database" - description: "Use when you want to retrieve semi-quantitative protein expression and spatial localisation data from the Human Protein Atlas (HPA)…
### String Database - name: "string-database" - description: "Query the STRING database for protein-protein interactions (PPIs), functional enrichment, and homology. Use when the user asks about interactions between spe…
### Pubmed Database - name: "pubmed-database" - description: "Search PubMed for scientific literature, including published clinical trials. Fetch abstracts and full text. Link published research to biological databases…
### Gtex Database - name: "gtex-database" - description: "Use when you want to retrieve quantitative RNA expression data and variant eQTL information from the GTEx (Genotype-Tissue Expression) Project across 54 non-dise…
### Scienceskillscommon - name: "scienceskillscommon" - description: "Shared Python package for Science Skills, currently containing http_client -- a unified HTTP client with rate limiting, retries, and exponential back…
### Ensembl Database - name: "ensembl-database" - description: "Query the Ensembl database to resolve gene, transcript, and protein IDs, fetch genomic or protein sequences, retrieve gene structures (exons), and get vari…
### Protein Sequence Similarity Search - name: "protein-sequence-similarity-search" - description: "Searches for homologous protein sequences using MMseqs2 (fast, default) or BLAST (comprehensive, fallback). Trigger thi…
### Literature Search Biorxiv - name: "literature-search-biorxiv" - description: "Browse, filter, and download life sciences, biology, and medical preprints from bioRxiv and medRxiv. Supports fetching paper metadata by…
### Pdb Database - name: "pdb-database" - description: "Use when you want to search for or download experimentally-determined 3D structures for biomolecules (proteins, nucleic acids, bound ligands). Supports searching b…
### Reactome Database - name: "reactome-database" - description: "Query the Reactome database (Analysis and Content Services). Use when the user asks about pathway analysis, gene list enrichment, retrieving results by t…
### Embl Ebi Ols - name: "embl-ebi-ols" - description: "Query and search the EMBL-EBI Ontology Lookup Service (OLS) for biomedical ontology terms, definitions, and hierarchies across 250+ ontologies (e.g., GO, DOID, HP)…
### Chembl Database - name: "chembl-database" - description: "Query the ChEMBL database for bioactive molecules, drug targets, bioactivity data, approved drugs, and chemical structures. Use when the user asks about comp…
### Encode Ccres Database - name: "encode-ccres-database" - description: "Query the ENCODE Registry of cis-Regulatory Elements (cCREs) via the SCREEN GraphQL API, or make custom queries to the ENCODE Portal REST API for…
### Interpro Database - name: "interpro-database" - description: "Identify domains, families, and sites in proteins; find all proteins in a family or sharing a domain; explore species distribution for a domain; annotate…
### Protein Sequence Msa - name: "protein-sequence-msa" - description: "Performs multiple sequence alignment of proteins with EBI Clustal Omega. Use when you need to align multiple sequences to assess similarity, domain…
### Foldseek Structural Search - name: "foldseek-structural-search" - description: "Performs 3D structural searches of proteins against various databases (PDB, AlphaFold, CATH, MGnify, etc.) using the Foldseek API. Use…
### Opentargets Database - name: "opentargets-database" - description: "Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data, genetics/omics evidence, known drugs,…
### Openfda Database - name: "openfda-database" - description: "Query, search, and download data from the openFDA API for drugs, devices, foods, tobacco, cosmetics, animal and veterinary products, substances, and transp…
### Ncbi Sequence Fetch - name: "ncbi-sequence-fetch" - description: "Retrieve protein and nucleotide sequences from NCBI databases using E-utilities. Supports direct accession lookup, CDS translation, gene+organism sea…
### Alphagenome Single Variant Analysis - name: "alphagenome-single-variant-analysis" - description: "Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP),…
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