524e5cc6f3b58992e985c6f8b3ab2837460ec96c
kate
  Fri Sep 29 16:58:55 2017 -0700
Update schema so variant and gene are displayed. refs #20236

diff --git src/hg/lib/gtexEqtl.as src/hg/lib/gtexEqtl.as
index e5b3bb4..1058c39 100644
--- src/hg/lib/gtexEqtl.as
+++ src/hg/lib/gtexEqtl.as
@@ -1,18 +1,19 @@
 table gtexEqtl
 "BED 9+ of expression Quantitative Trait Loci (eQTL). These are variants affecting gene expression"
     (
     string chrom;      "Reference sequence chromosome or scaffold"
     uint   chromStart; "Start position in chromosome"
     uint   chromEnd;   "End position in chromosome"
-    string name;       "Variant (rsID or GTEx identifier if none)"
-    uint   score;      "Score from 0-1000"
+    string name;       "Variant/gene pair"
+    uint   score;      "Score from 0-1000 (highest probabiliity in cluster * 1000)"
     char[1] strand;    "."
     uint thickStart;   "Start position"
     uint thickEnd;     "End position"
     uint reserved;     "R,G,B color: red +effect, blue -effect. Bright for high, pale for lower (cutoff effectSize 2.0 RPKM)."
+    string variant;    "Variant (rsID or GTEx identifier if none)"
     string gene;       "Target gene"
     int distance;      "Distance from TSS"
     float effectSize;  "Effect size (FPKM)"
     float pValue;      "Nominal p-value"
     float causalProb;  "Probability variant is in 95% credible set"
     )