Databases

The AI Chat agent can query 41 bioinformatics databases across 8 categories. These are accessible via the bio_query and query_entrez_database tools.

How to Query Databases

Just ask the AI in plain English. The agent automatically selects the right database and translates your question into an API call. For example:

• “Find the 3D structure of BRCA1” → queries pdb via bio_query
• “What clinical trials exist for lung cancer?” → queries clinicaltrials via bio_query
• “Search PubMed for CRISPR gene editing” → queries pubmed via query_entrez_database

Complete Database Reference

Protein

Protein

8 databases

UniProtProtein sequences, annotations, cross-references

AlphaFoldProtein structure predictions

InterProProtein domain and feature predictions

PDB3D structures of proteins and nucleic acids

PRIDEProteomics data repository

EMDBElectron Microscopy Data Bank — 3D structures

Human Protein AtlasTissue expression and subcellular localization

QuickGOGene Ontology terms and annotations