Under the hood
How our AI thinks.
Click any agent or data source to inspect its tools. A single user message fans out across seven specialist sub-agents, ~50 tools, and three backends — every claim is cited and reproducible.
Which genes drive EGFR resistance?
Meta-tools (7)
- research_target → target-agent
- research_single_cell_expression → single-cell-agent
- research_association → association-agent
- research_oncology → oncology-agent
- research_literature → literature-agent
- research_competitors → competitive-intelligence-agent
- query_file_data → file-query-agent per-request, only when CSV is attached
Direct tools (21)
- discovery_query SQL on science DB · science DB
- discovery_data_query SQL on reference DB · discovery_data
- discovery_expression RNA / protein expression · science DB
- discovery_bgee Bgee expression atlas · Bgee
- discovery_multiomics CPTAC / TCGA / Xena · science DB
- discovery_coexpression Co-expression analysis · science DB
- discovery_coamplification CNA co-amplification · science DB
- discovery_pathways Pathway / MSigDB · science DB
- discovery_pgs PGS Catalog · discovery_data
- open_targets_pqtl UKB-PPP pQTLs · Open Targets
- clinical_trials Trial registry · ClinicalTrials.gov
- trial_sponsor_landscape Sponsor-pivoted trials · ClinicalTrials.gov
- therapeutic_landscape Curated concept → target sets · discovery_data
- patent_search Google Patents + EPO OPS · BigQuery / EPO
- industry_news_search Trade press · web
- generate_chart Plotly rendering · client
- generate_interaction_network Network visualization · client
- generate_mutation_chart Lollipop / mutation plot · client
- generate_protein_diagram Domain diagram · client
- remember Per-user memory write · memory
- recall_memory Per-user memory read · memory
Deep gene / protein characterization across expression, interactions, structure, and constraint.
- discovery_target Gene / protein lookup · science DB
- discovery_expression RNA / protein expression · science DB
- discovery_interactions PPI network · science DB
- discovery_protein UniProt features / domains · science DB
- discovery_go_filter GO + Reactome memberships · science DB
- discovery_query SQL escape hatch · science DB
- gnomad_constraint pLI / LOEUF · discovery_data
- cell_type_markers PanglaoDB · discovery_data
- cellxgene_expression Single-cell · CELLxGENE
- alphafold_confidence pLDDT / PAE · AlphaFold EBI
- ncbi_gene Entrez Gene · NCBI
- omnipath_interactions Signaling / regulation · OmniPath
- adcdb_search Antibody-drug conjugates · discovery_data
- plabdab_search Antibody sequences · discovery_data
- clinical_trials Trial registry · ClinicalTrials.gov
Single-cell transcriptomics across CELLxGENE, HPA v24, and canonical cell-type markers.
- cellxgene_expression Single-cell RNA · CELLxGENE
- discovery_single_cell_expression HPA v24 single-cell · discovery_data
- cell_type_markers PanglaoDB canonical markers · discovery_data
Target–disease evidence: GWAS, eQTLs, regulatory context, and aggregated scoring.
- discovery_scoring Target-disease scores · science DB
- discovery_variants Variant-level evidence · science DB
- discovery_phenotype Phenotype lookup · science DB
- discovery_query SQL escape hatch · science DB
- eqtl_lookup Variant → gene expression · EBI eQTL
- encode_screen cCRE regulatory context · ENCODE SCREEN
- open_targets_pqtl UKB-PPP pQTLs · Open Targets
Cancer genomics: somatic mutations, multi-omics, drug sensitivity, and CRISPR dependencies.
- discovery_oncology cBioPortal / GENIE / Cancer Hotspots / OncoKB · science DB
- discovery_multiomics CPTAC / TCGA / Xena · science DB
- discovery_compounds ChEMBL drugs · science DB
- discovery_drug_sensitivity PharmacoDB · science DB
- discovery_query SQL escape hatch · science DB
- open_targets_crispr CRISPR dependencies · Open Targets
- adcdb_search Antibody-drug conjugates · discovery_data
Scholarly + web evidence: PubMed, OpenAlex citation graph, and Tavily web search.
- ncbi_pubmed PubMed search · NCBI
- openalex_search Scholarly search · OpenAlex
- openalex_citations Citation graph · OpenAlex
- web_search General web · Tavily
Patent + trial + news landscape across BigQuery, EPO OPS, and the trade press.
- patent_search Google Patents + EPO OPS · BigQuery / EPO
- trial_sponsor_landscape Sponsor-pivoted trials · ClinicalTrials.gov
- clinical_trials Trial registry · ClinicalTrials.gov
- industry_news_search Trade press · web
Activated only when a CSV / spreadsheet is attached. In-context file analysis, no external tools.
- query_file_data In-context CSV / spreadsheet analysis · in-context
The main curated science database. Core entities, evidence, expression, and mutation tables.
- target / phenotype / compound (core entities)
- target_score · phenotype_aggregated_score
- target_rna_expression · target_cancer_expression
- clinvar_variant · gwas_result · azphewas_coding
- multiomics_* · oncology_* (TCGA / CPTAC / GENIE)
- target_interaction · target_functional_interaction
- cancer_hotspot · pathway · msigdb
Curated reference datasets indexed for fast lookup. Read-only.
- cell_type_marker (PanglaoDB)
- pgs_metadata · pgs_scores (PGS Catalog)
- gnomad_constraint (v4.1 MANE Select)
- adcdb · plabdab_antibodies
- single_cell_expression (HPA v24)
Direct HTTPS calls through src/lib/integrations/ for live, authoritative data.
- AlphaFold EBI
- EBI eQTL Catalogue
- ENCODE SCREEN
- Open Targets Platform
- NCBI Entrez
- OmniPath
- OpenAlex
- CELLxGENE Discover
- Bgee expression atlas
- ClinicalTrials.gov
- Google Patents (BigQuery) + EPO OPS
- Tavily web search
Response to user
- Streamed text
- Inline charts
- Interaction networks
- Citations · PMID · NCT