encode_link_reference
Link external references like PubMed IDs, DOIs, or GEO accessions to ENCODE experiments for provenance tracking and cross-referencing.
Instructions
Link an external reference to a tracked ENCODE experiment.
This is the cross-server bridge. Attach PubMed IDs, bioRxiv DOIs, ClinicalTrials.gov NCT IDs, GEO accessions, or any external identifier to your tracked experiments for provenance and cross-referencing.
After finding a relevant paper with PubMed MCP or a preprint on bioRxiv, link it to the ENCODE experiment for future reference.
WHEN TO USE: Use to attach external IDs (PMID, DOI, GEO, NCT) to tracked experiments for cross-referencing. RELATED TOOLS: encode_get_references, encode_get_citations
Args: experiment_accession: ENCODE experiment accession (e.g., "ENCSR133RZO") reference_type: Type of external reference: - "pmid": PubMed ID (e.g., "32728249") - "doi": DOI (e.g., "10.1038/s41586-020-2493-4") - "nct_id": ClinicalTrials.gov ID (e.g., "NCT04567890") - "preprint_doi": bioRxiv/medRxiv DOI - "geo_accession": GEO accession (e.g., "GSE123456") - "other": Any other identifier reference_id: The actual identifier value description: Optional description of why this reference is linked
Returns: JSON with linking result.
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| experiment_accession | Yes | ||
| reference_type | Yes | ||
| reference_id | Yes | ||
| description | No |