PGx: all CPIC gene kinds — G6PD, variant-based, HLA tags, *0 CN genes (PGX-006/007/021)

- DB build resolves the PGX-007 tag variants from the manifest's probes; coverage over all gene kinds.
- Variant-based genes reported per variant (rs.. REF/ALT | Reference) with the CPIC lowest-activity diplotype;
  tagging genes as positive/negative with the population caveat; GSTM1/GSTT1/UGT2B17 *0 from targeted CN.
- Case-insensitive phenotype keys (MT-RNR1). GeT-RM check extended to VKORC1 and the CN genes:
  131/144 gene calls (docs/validation/V2_pgx_star.md).

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv

docs/validation/V2_pgx_star_getrm16.json

@@ -32,6 +32,16 @@
    "top": 8,
    "equivalent": 8
   },
+  "GSTM1": {
+   "n": 9,
+   "top": 9,
+   "equivalent": 9
+  },
+  "GSTT1": {
+   "n": 9,
+   "top": 7,
+   "equivalent": 7
+  },
   "NAT2": {
    "n": 9,
    "top": 8,
@@ -56,6 +66,16 @@
    "n": 9,
    "top": 0,
    "equivalent": 1
+  },
+  "UGT2B17": {
+   "n": 2,
+   "top": 2,
+   "equivalent": 2
+  },
+  "VKORC1": {
+   "n": 15,
+   "top": 13,
+   "equivalent": 13
   }
  },
  "legacy_nomenclature_genes": [
@@ -63,9 +83,9 @@
   "UGT1A1"
  ],
  "total": {
-  "n": 109,
-  "top": 100,
-  "equivalent": 103
+  "n": 144,
+  "top": 131,
+  "equivalent": 134
  },
  "discordant": [
   {
@@ -110,6 +130,13 @@
    "call": "*1/*1",
    "within_equivalents": false
   },
+  {
+   "individual": "NA06991",
+   "gene": "VKORC1",
+   "truth": "AA",
+   "call": "rs9923231 T/T",
+   "within_equivalents": false
+  },
   {
    "individual": "NA12878",
    "gene": "CYP2D6",
@@ -145,6 +172,20 @@
    "call": "*28/*80",
    "within_equivalents": false
   },
+  {
+   "individual": "NA12003",
+   "gene": "VKORC1",
+   "truth": "AA",
+   "call": "rs9923231 T/T",
+   "within_equivalents": false
+  },
+  {
+   "individual": "NA12003",
+   "gene": "GSTT1",
+   "truth": "(*A/*A)",
+   "call": "*1/*0",
+   "within_equivalents": false
+  },
   {
    "individual": "NA07029",
    "gene": "CYP2B6",
@@ -229,6 +270,13 @@
    "call": "*80/*80",
    "within_equivalents": false
   },
+  {
+   "individual": "NA12813",
+   "gene": "GSTT1",
+   "truth": "(*A/*A)",
+   "call": "*1/*0",
+   "within_equivalents": false
+  },
   {
    "individual": "NA11881",
    "gene": "SLCO1B1",