All tools
- uniprot_lookup
Resolve a protein identifier to UniProt metadata (sequence, function, domains, PTMs).
- scidex_search
Lexical full-text search across all indexed substrate artifacts.
- scidex_get
Fetch a single artifact by ref. Returns full envelope with content, signals, and links.
- pubmed_search
Search PubMed for biomedical papers matching a query. Bridges to v1's pubmed_search service.
- pdf_extract
Extract structured content (sections, figures, tables, references) from a PDF URL.
- pathway_lookup
Resolve a pathway name or id to its members, parent pathway, and annotations (Reactome / KEGG / WikiPathways).
- llm_complete
General-purpose LLM completion. Routes through v1's LLM gateway (model selection + budget enforcement).
- knowledge_graph_query
Query the SciDEX knowledge graph (entities + typed edges) by SPARQL-flavored predicates.
- gene_lookup
Resolve a gene symbol or identifier to canonical metadata (HGNC, Ensembl, NCBI, function).
- figure_extract
Extract figures + captions from a paper PDF, with optional OCR + caption summarization.
- doi_resolve
Resolve a DOI to canonical metadata (title, authors, journal, year, abstract).
- disease_lookup
Resolve a disease name or identifier to OMIM / MONDO / DOID metadata + associated genes.
- crossref_search
Search Crossref for scholarly works by query, author, or journal.
- citation_graph
Walk a citation graph from a seed paper (forward = cited-by, backward = cites).
- arxiv_search
Search arXiv preprints by query, with optional category and date range filters.