Catalog
Tool catalog
Connect once and your AI can find and run any tool it needs. Below is what it can reach today: tools your agent pays for by the call.
Catalog results
67 tools in Bioinformatics.
3D Protein Models for a UniProt Accession: Experimental and Predicted Structures (3D-Beacons)
Lists the 3D structure models available for one UniProt accession across the 3D-Beacons Network: experimentally determined structures…
$0.0026 per call
3D-Beacons Network (EMBL-EBI) · Bioinformatics
Allowed Values of an EBI Sequence-Analysis Tool Parameter
The definition of one parameter of an EMBL-EBI Job Dispatcher tool: its name, description, type and allowed values with defaults (for…
$0.0026 per call
EMBL-EBI · Bioinformatics
AlphaFold Models Available for a UniProt Accession (Coverage and Confidence Summary)
Lists the AlphaFold structures that exist for one UniProt accession, including predicted complexes that contain it: for each, the model id…
$0.0026 per call
AlphaFold Protein Structure Database (EMBL-EBI) · Bioinformatics
AlphaFold Predicted Protein Structure for a UniProt Accession
The AlphaFold predicted 3D structure record for one UniProt accession: mean pLDDT confidence and the share of residues in each confidence…
$0.0026 per call
AlphaFold Protein Structure Database (EMBL-EBI) · Bioinformatics
BioSamples Lookup: One Sample Record by Accession
Returns one public BioSamples record by accession (SAMN, SAMEA or SAMD followed by digits): name, taxon id, status, release and update…
$0.0026 per call
EMBL-EBI · Bioinformatics
BioSamples Search: Find Biological Samples by Free-Text Match
Searches public BioSamples records by free text (tissue, organism, cell line, disease, accession) and returns up to 20 samples per call…
$0.0026 per call
EMBL-EBI · Bioinformatics
BioStudies Lookup: One Study Record by Accession
Returns one BioStudies study by accession (for example S-BSST1, S-EPMC10139049, S-BIAD1, E-MTAB-6694) reshaped for reading: attributes as a…
$0.0026 per call
EMBL-EBI · Bioinformatics
BioStudies Search: Find Studies and Datasets by Keyword
Searches BioStudies (EMBL-EBI) by keyword and returns up to 20 hits per page: accession, type, title, authors, release date, view count and…
$0.0026 per call
EMBL-EBI · Bioinformatics
ChEMBL Bioactivities for a Molecule (CROssBAR)
One page of ChEMBL bioactivity measurements for a ChEMBL molecule id (for example CHEMBL25, aspirin): each row gives the target, the assay,…
$0.0026 per call
EMBL-EBI · Bioinformatics
ChEMBL Bioactivities for a Target (CROssBAR)
One page of ChEMBL bioactivity measurements for a ChEMBL target id (for example CHEMBL240, the hERG channel): each row gives the molecule,…
$0.0026 per call
EMBL-EBI · Bioinformatics
ChEMBL Bioactivity Measurements for a Molecule
Measured bioactivities recorded in ChEMBL for one molecule id (for example CHEMBL25): assay type and description, target id, name and…
$0.0026 per call
ChEMBL (EMBL-EBI) · Bioinformatics
ChEMBL Molecule Lookup by ChEMBL ID
Full ChEMBL records for one to five ChEMBL molecule identifiers (for example CHEMBL25, aspirin): preferred name, molecule type, highest…
$0.0026 per call
ChEMBL (EMBL-EBI) · Bioinformatics
ChEMBL Molecule Search by Name or Keyword
Searches ChEMBL molecules by name, synonym or keyword (for example aspirin, insulin, imatinib) and returns a compact, relevance-ordered…
$0.0026 per call
ChEMBL (EMBL-EBI) · Bioinformatics
ChEMBL Target Search by Name or Keyword
Searches ChEMBL biological targets (proteins, protein complexes, cell lines, tissues, organisms) by name or keyword, for example kinase,…
$0.0026 per call
ChEMBL (EMBL-EBI) · Bioinformatics
Chemical Compound Summary by PDB Ligand Code: Formula, Weight, InChI, SMILES (PDBe-KB)
For one PDB chemical-component code (1 to 5 letters or digits, for example ATP or HEM), the compound's name, molecular formula, weight,…
$0.0026 per call
Protein Data Bank in Europe (PDBe), EMBL-EBI · Bioinformatics
Complex Portal Lookup: One Protein Complex by CPX Accession
Returns one Complex Portal record by CPX accession: name, systematic name, species, synonyms, function and property text, assembly,…
$0.0026 per call
EMBL-EBI · Bioinformatics
Complex Portal Search: Find Curated Protein Complexes by Gene or Name
Searches EMBL-EBI Complex Portal for curated macromolecular complexes by gene, protein or complex name and returns up to 20 per page:…
$0.0026 per call
EMBL-EBI · Bioinformatics
EBI Search Entry: One Record from a Life-Science Database by Accession
Fetches one entry from uniprot, pdbe, chembl-molecule, reactome, hgnc, go, efo or europepmc by its accession or id, with the requested…
$0.0026 per call
EMBL-EBI · Bioinformatics
EBI Search: Query Life-Science Databases (UniProt, PDBe, ChEMBL, Reactome and More)
Full-text search over one of eight EMBL-EBI databases: uniprot, pdbe, chembl-molecule, reactome, hgnc, go, efo or europepmc. Returns…
$0.0026 per call
EMBL-EBI · Bioinformatics
Expression Atlas Experiment Summary
Summary of one EMBL-EBI Expression Atlas experiment from its accession (for example E-MTAB-513, E-PROT-1, E-GEOD-26284): description,…
$0.0026 per call
Expression Atlas (EMBL-EBI) · Bioinformatics
Expression Atlas Search Suggestions
Search-term completions from EMBL-EBI Expression Atlas for a text and one species (for example brca in homo sapiens, pax6 in danio rerio):…
$0.0026 per call
Expression Atlas (EMBL-EBI) · Bioinformatics
Gene Ontology Annotations for a Gene Product (QuickGO)
Returns the Gene Ontology annotations (GOA) of one gene product, such as a UniProt accession like P04637: per annotation the GO term id,…
$0.0026 per call
EMBL-EBI · Bioinformatics
Gene Ontology Term Lookup: Definition, Synonyms, Child Terms (QuickGO)
Looks up one Gene Ontology (GO) term by its accession, such as GO:0008150, and returns its name, aspect (biological process, molecular…
$0.0026 per call
EMBL-EBI · Bioinformatics
Gene Ontology Term Search by Keyword (QuickGO)
Searches the Gene Ontology (GO) for terms matching a keyword or phrase and returns, per match, the GO accession, name, definition text,…
$0.0026 per call
EMBL-EBI · Bioinformatics
Gene Products in a WikiPathways Pathway
Lists the gene products of one WikiPathways pathway given its WikiPathways id (WP followed by digits, for example WP254): one row per…
$0.0026 per call
WikiPathways · Bioinformatics
Genes Linked to a Mouse Phenotype (IMPC)
Finds the mouse genes whose knockout produced a given phenotype in International Mouse Phenotyping Consortium screens, by exact Mammalian…
$0.0026 per call
International Mouse Phenotyping Consortium (IMPC) · Bioinformatics
Human Phenotype Ontology Ancestor Terms: Every Broader Phenotype Up to the Root
Returns every ancestor of a Human Phenotype Ontology (HPO) term: all the broader phenotypes above it, up to the root, each with its HP id,…
$0.0026 per call
Human Phenotype Ontology · Bioinformatics
Human Phenotype Ontology Child Terms: Direct Subtypes of a Phenotype
Returns the direct children of a Human Phenotype Ontology (HPO) term: the more specific phenotypes one step below it in the hierarchy, each…
$0.0026 per call
Human Phenotype Ontology · Bioinformatics
Human Phenotype Ontology Parent Terms: Direct Broader Phenotypes of a Term
Returns the direct parents of a Human Phenotype Ontology (HPO) term: the broader phenotypes one step above it in the hierarchy (a term can…
$0.0026 per call
Human Phenotype Ontology · Bioinformatics
Human Phenotype Ontology Term Lookup: Definition, Synonyms, Translations
Looks up one Human Phenotype Ontology (HPO) term by its id (HP: and seven digits) and returns its English label, definition, editor…
$0.0026 per call
Human Phenotype Ontology · Bioinformatics
Human Phenotype Ontology Term Search: Find HP Ids by Phenotype Name or Synonym
Searches the Human Phenotype Ontology (HPO) by phenotype name, synonym or id and returns the matching terms, each with its HP id, label,…
$0.0026 per call
Human Phenotype Ontology · Bioinformatics
IntAct Molecular Interactions Search (PSICQUIC)
Searches the IntAct molecular-interaction database (EMBL-EBI, PSICQUIC) and returns up to `maxResults` interactions (1 to 20, default 10)…
$0.0026 per call
EMBL-EBI · Bioinformatics
InterPro Domains and Families for a Protein: Entries and Positions (UniProt Accession)
The InterPro entries (families, domains, homologous superfamilies, repeats and sites) that a UniProt protein belongs to, each with its…
$0.0026 per call
EMBL-EBI · Bioinformatics
InterPro Protein Record: Name, Gene, Organism, Sequence, GO Terms (UniProt Accession)
The InterPro record for one UniProt protein accession: protein name, gene, source organism (taxonomy id and scientific name), length, the…
$0.0026 per call
EMBL-EBI · Bioinformatics
List the Parameters of an EBI Sequence-Analysis Tool
The parameter ids that an EMBL-EBI Job Dispatcher tool accepts (for example ncbiblast answers program, matrix, database, exp, sequence and…
$0.0026 per call
EMBL-EBI · Bioinformatics
MGnify Biomes: Environment Categories with Sample Counts
Lists MGnify biomes, the environment classification used for samples, up to 20 per page: lineage id (for example…
$0.0026 per call
EMBL-EBI · Bioinformatics
MGnify Study Lookup: One Metagenomics Study by MGYS Accession
Returns one MGnify study by MGYS accession as a JSON:API record: name, abstract, BioProject and secondary accession, centre, sample count,…
$0.0026 per call
EMBL-EBI · Bioinformatics
MGnify Study Search: Metagenomics Studies by Keyword
Lists MGnify metagenomics studies, optionally filtered by a keyword, up to 20 per page. Each study carries accession (MGYS...), name,…
$0.0026 per call
EMBL-EBI · Bioinformatics
Mouse Gene to Phenotype Associations (IMPC)
Statistically significant phenotypes that the International Mouse Phenotyping Consortium found in knockout mice for one mouse gene symbol…
$0.0026 per call
International Mouse Phenotyping Consortium (IMPC) · Bioinformatics
OMA Orthologs of a Protein Across Species (OMA Browser)
Lists the orthologs of one protein in other species from the OMA Browser, filtered to one relation type: 1:1, 1:n, m:1 or m:n. Each…
$0.0026 per call
OMA Browser · Bioinformatics
OMA Protein Cross-References: UniProt, Ensembl, RefSeq IDs (OMA Browser)
Lists the external identifiers OMA holds for one protein: each cross-reference has the identifier, its source (for example…
$0.0026 per call
OMA Browser · Bioinformatics
OMA Protein Domains: CATH/Gene3D Regions of a Protein (OMA Browser)
Returns the annotated domain regions of one protein from the OMA Browser: for each region its source (for example CATH/Gene3D), domain id,…
$0.0026 per call
OMA Browser · Bioinformatics
OMA Protein Entry: Species, Locus, Orthologous Group, Sequence (OMA Browser)
Looks up one protein in the OMA Browser (Orthologous MAtrix) by UniProt entry name or accession, or by OMA id, and returns its OMA entry:…
$0.0026 per call
OMA Browser · Bioinformatics
Ontology Catalogue (OLS)
Lists the ontologies held by the EMBL-EBI Ontology Lookup Service (about 290): ontology id, title, description, homepage, preferred prefix,…
$0.0026 per call
Ontology Lookup Service (EMBL-EBI) · Bioinformatics
Ontology Term Autocomplete (OLS)
Compact ontology term suggestions from the EMBL-EBI Ontology Lookup Service: for a text, the matching terms as IRI, label, OBO id and…
$0.0026 per call
Ontology Lookup Service (EMBL-EBI) · Bioinformatics
Ontology Term Record by OBO ID (OLS)
The full Ontology Lookup Service record of one term, given its ontology id and OBO id (for example go and GO:0008150, hp and HP:0005978):…
$0.0026 per call
Ontology Lookup Service (EMBL-EBI) · Bioinformatics
Ontology Term Search (OLS)
Searches the EMBL-EBI Ontology Lookup Service, which indexes about 290 biomedical ontologies (GO, HP, MONDO, EFO, CHEBI, UBERON, NCBITaxon…
$0.0026 per call
Ontology Lookup Service (EMBL-EBI) · Bioinformatics
PDB Entry Molecules: Chains, Sequences, Ligands and Source Organisms of a Structure (PDBe)
Every molecule (entity) in one Protein Data Bank entry by its four-character PDB id: polymers with amino acid or nucleotide sequence,…
$0.0026 per call
Protein Data Bank in Europe (PDBe), EMBL-EBI · Bioinformatics
Every tool has an explicit pricing model and a usage guide written for it and checked against its schema.
You pay the price shown. If a call turns out to cost more than its quote, you pay the actual price, capped at twice the quote. Run omnial_execute with dry_run: true for an exact quote.
Search here runs the same omnial_search call your agent makes over MCP: ranked matches, each showing the keyword or field it matched on. It always answers with what it found; an empty result means the catalog carries none of those terms, and the full list is right below.