drug-discovery-prompts/upstream/K-Dense-AI-scientific-agent-skills/skills/database-lookup/references/human-protein-atlas.md

title, task, lineage_type, upstream_source, upstream_sha, imported_at, prompt_class, upstream_changes, author, validated

title	task	lineage_type	upstream_source	upstream_sha	imported_at	prompt_class	upstream_changes	author	validated
Human Protein Atlas (HPA)		import	https://github.com/K-Dense-AI/scientific-agent-skills/blob/9c9bd2e9/skills/database-lookup/references/human-protein-atlas.md	9c9bd2e9	2026-06-26	prompt	accepted	upstream	false

Human Protein Atlas (HPA)

Base URL

https://www.proteinatlas.org

Auth

No API key required.

Key Endpoints

Purpose	URL Pattern
Gene data by Ensembl ID	/{ENSEMBL_ID}.json
Gene data by symbol	/{GENE_NAME}.json
Search (JSON)	/search/{QUERY}?format=json
Search (XML)	/search/{QUERY}?format=xml

Example Calls

# Gene data by Ensembl ID
https://www.proteinatlas.org/ENSG00000141510.json

# Gene data by symbol
https://www.proteinatlas.org/TP53.json

# Search
https://www.proteinatlas.org/search/TP53?format=json

Response Format (JSON, gene endpoint)

{
  "Gene": "TP53",
  "Gene synonym": ["p53", "LFS1"],
  "Ensembl": "ENSG00000141510",
  "Gene description": "tumor protein p53",
  "Uniprot": ["P04637"],
  "Chromosome": "17",
  "Protein class": ["Transcription factors"],
  "RNA tissue specificity": "Low tissue specificity",
  "Subcellular location": ["Nucleoplasm"],
  "Pathology prognostics": [...]
}

Bulk Downloads

For large-scale work, use TSV files from https://www.proteinatlas.org/about/download:

• normal_tissue.tsv — IHC tissue expression
• rna_tissue_consensus.tsv — RNA consensus
• subcellular_location.tsv
• pathology.tsv — cancer prognostics

Rate Limits

No published limits. Be reasonable. Prefer bulk downloads for large queries.