hpa-expression-context

name	hpa_expression_context
description	Human Protein Atlas expression and localization via VenusFactory download tools. Use when the user needs tissue expression, subcellular location, single-cell type, blood expression, or protein summary by gene symbol for therapeutic/target context. Do NOT use for mouse/non-human expression atlases or PPI networks (string_database).
license	Unknown
metadata	{"version":"1.0","skill-author":"VenusFactory2"}

HPA Expression Context

Overview

Downloads Human Protein Atlas JSON/TSV-style payloads for a human gene symbol (e.g. TP53, EGFR). Always set a session-scoped out_path.

Project Tools (VenusFactory2)

Tool	Purpose
download_hpa_protein_by_gene	Protein summary / atlas entry
download_hpa_subcellular_location_by_gene	Subcellular localization
download_hpa_tissue_expression_by_gene	Tissue expression ranks
download_hpa_single_cell_type_by_gene	Single-cell type expression
download_hpa_blood_expression_by_gene	Blood / immune context

Args pattern: gene_name, out_path.

Workflow

1. Confirm human gene symbol (map via UniProt / NCBI Gene if needed).
2. Fetch tissue + subcellular (minimum useful pair).
3. Optional single-cell / blood for immunology or circulating targets.
4. Figure: bar chart of top tissues (nature_figure if publication).

When NOT to use

• Non-human organisms → other databases / literature
• Interaction partners → string_database
• Domain architecture → interpro_domain_annotation

Common mistakes

• Using UniProt accession as gene_name without checking HPA expects a gene symbol
• Skipping tissue figure after download (CB policy expects a plot for expression tables)