pirl-unc / hitlist / 24465224995
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coverage: 43.83%. Remained the same
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v1.7.3: Split 5 more pooled mono-allelic transfectant entries (#51)

Audit of pmid_overrides.yaml found 16 ms_samples entries with
suspiciously many alleles (>6 class I or >10 class II) — union of
multiple donors/transfectants, not per-sample genotypes.  Joining
peptides against a 95-allele 'sample' is meaningless.

This PR fixes Category 1 (mono-allelic transfectant papers — one
transfectant per allele, easy mechanical split):

  PMID 31844290 Sarkizova 2020       95 alleles  → 95 sample entries
  PMID 28228285 Abelin 2017          16 alleles  → 16 sample entries
  PMID 28904123 Di Marco 2017 HLA-C  15 alleles  → 15 sample entries
  PMID 25418920 Schittenhelm 2015     8 alleles  →  8 sample entries
  PMID 31495665 Abelin 2019 MAPTAC    8 alleles  →  8 sample entries
                                    ===         ===
                                    142 alleles → 142 sample entries

Each per-allele sample entry preserves the original shared metadata
(source, condition, ip_antibody) and adds a specific sample_label
of the form '<host>-<allele>' (e.g. '721.221-HLA-A*02:01').  Each
observation's IEDB mhc_restriction now joins to the correct
single-transfectant sample rather than collapsing into one pooled
row.

Category 2 (multi-donor pooled tissue samples: Marcu HLA Ligand
Atlas, Khazan-Kost pleural effusion, Chong 2020, Bassani-Sternberg
GBM) is flagged for follow-up PRs — requires reading each paper's
per-donor HLA typing supplement.

Rebuild verification on 1.7.2 confirmed mono-allelic PR #48 fix:
36,353 rows in PMID 31844290 correctly de-flagged (Glial cell,
Other, PBMC — all class-only validation rows); other 11 mono-
allelic PMIDs unchanged.

See tasks/per_sample_allele_curation_audit.md for the full audit.

1165 of 2658 relevant lines covered (43.83%)

0.44 hits per line

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Source Files on build 24465224995