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data/human_only_085_090/gene_counts_summary.md
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# Gene Counts Summary for Human-Only Subsets
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## Total Gene Counts (sum of GS_SIZE from metadata)
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| Metric | subset085 | subset090 |
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|---|---|---|
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| **Genesets** | 4,298 | 1,626 |
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| **Total gene count** | 4,835,958 | 1,524,443 |
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| **Mean geneset size** | 1,125.2 | 937.5 |
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| **Median geneset size** | 1,304.0 | 1,073.0 |
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## Unique Gene Counts (from membership file)
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| Metric | subset085 | subset090 |
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|---|---|---|
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| **Unique genes (raw)** | 50,524 | 43,318 |
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| **Overlap** | 43,318 genes shared (subset090 is a strict subset of subset085) |
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### Gene Symbol Breakdown (subset085)
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The raw count of 50,524 is inflated due to mixed identifier types in the membership data:
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| Category | Count | Notes |
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|---|---|---|
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| Standard gene symbols | 30,510 | Matches expected ~30K human gene count |
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| ENSG* (Ensembl IDs) | 16,907 | Raw Ensembl IDs, not resolved to HGNC symbols — likely overlap with standard symbols |
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| LINC* (lncRNAs) | 2,026 | |
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| MIR* (microRNAs) | 729 | |
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| SNORD/SNORA (snoRNAs) | 352 | |
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The ~16.9K ENSG IDs are likely duplicates of genes already counted under their HGNC symbol names (some genesets use Ensembl IDs instead of symbols). Mapping ENSG to symbols would yield a deduplicated count closer to ~30K.
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## Notes
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- Source metadata: `mcxqrhgm61ztvegwj8ltzbcvv1h06vni.csv` (GS_SIZE column)
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- Source membership: `84y8ojeeb4myn9uzcgzrodi59sfjhdta.csv` (GS_ID, GENE_SYMBOL, GENE_ID)
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- All GS_IDs from human_ids files matched in metadata (0 missing)
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- Total gene counts represent gene-geneset memberships (genes may appear in multiple genesets)
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