71 lines
1.7 KiB
Markdown
71 lines
1.7 KiB
Markdown
---
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title: "Human Protein Atlas (HPA)"
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task: ""
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lineage_type: import
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upstream_source: https://github.com/K-Dense-AI/scientific-agent-skills/blob/9c9bd2e9/skills/database-lookup/references/human-protein-atlas.md
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upstream_sha: 9c9bd2e9
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imported_at: 2026-06-26
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prompt_class: prompt
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upstream_changes: accepted
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author: upstream
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validated: false
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---
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# Human Protein Atlas (HPA)
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## Base URL
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```
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https://www.proteinatlas.org
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```
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## Auth
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No API key required.
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## Key Endpoints
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| Purpose | URL Pattern |
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|---|---|
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| Gene data by Ensembl ID | `/{ENSEMBL_ID}.json` |
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| Gene data by symbol | `/{GENE_NAME}.json` |
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| Search (JSON) | `/search/{QUERY}?format=json` |
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| Search (XML) | `/search/{QUERY}?format=xml` |
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## Example Calls
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```
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# Gene data by Ensembl ID
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https://www.proteinatlas.org/ENSG00000141510.json
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# Gene data by symbol
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https://www.proteinatlas.org/TP53.json
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# Search
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https://www.proteinatlas.org/search/TP53?format=json
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```
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## Response Format (JSON, gene endpoint)
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```json
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{
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"Gene": "TP53",
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"Gene synonym": ["p53", "LFS1"],
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"Ensembl": "ENSG00000141510",
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"Gene description": "tumor protein p53",
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"Uniprot": ["P04637"],
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"Chromosome": "17",
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"Protein class": ["Transcription factors"],
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"RNA tissue specificity": "Low tissue specificity",
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"Subcellular location": ["Nucleoplasm"],
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"Pathology prognostics": [...]
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}
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```
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## Bulk Downloads
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For large-scale work, use TSV files from https://www.proteinatlas.org/about/download:
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- `normal_tissue.tsv` — IHC tissue expression
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- `rna_tissue_consensus.tsv` — RNA consensus
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- `subcellular_location.tsv`
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- `pathology.tsv` — cancer prognostics
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## Rate Limits
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No published limits. Be reasonable. Prefer bulk downloads for large queries.
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