3dd0329ee0e804f5841a9998c4e7f024d3276921
lrnassar
  Wed Sep 9 17:20:20 2026 -0700
Releasing the AlphaGenome Variant Impact (AVI) score track for hg38. refs #38261

Moves the bigWigs to /gbdb/hg38/_alphaGenome/, the underscore convention that keeps
non-redistributable data off the download server, matching PromoterAI and PrimateAI,
and drops the alpha release tag.

Shortens the composite longLabel to fit the 85 character limit and lowercases Score
in the longLabels. Adds a New pennantIcon and points the Deleteriousness Predictions
container pennant at the Sept. 10 news post.

Corrects the median on the description page from 1.6 to 2.9. The old figure counted
the zero-filled reference base slots, which are not variants. Removes two threshold
statements that are not in the AlphaGenome Atlas preprint or any public source. Adds
the /gbdb symlink step to the makeDoc, and fixes three container page links that were
missing target=_blank.

diff --git src/hg/makeDb/trackDb/human/alphaGenome.ra src/hg/makeDb/trackDb/human/alphaGenome.ra
index d819dc317bc..3c576f79819 100644
--- src/hg/makeDb/trackDb/human/alphaGenome.ra
+++ src/hg/makeDb/trackDb/human/alphaGenome.ra
@@ -1,72 +1,73 @@
 track alphaGenome
 shortLabel AlphaGenome
-longLabel AlphaGenome Variant Impact (AVI) Score for all single-base substitutions (zoom in for scores)
+longLabel AlphaGenome Variant Impact (AVI) score for all single-base substitutions
 type bigWig
 compositeTrack on
 parent predictionScoresSuper
 visibility dense
 color 0,114,178
 maxWindowToDraw 10000000
 mouseOverFunction noAverage
 tableBrowser off
 dataVersion AlphaGenome Variant Impact score, Google DeepMind snapshot of August 27, 2026
+pennantIcon New red ../goldenPath/newsarch.html#091026 "Released Sept. 10, 2026"
 
     track alphaGenomeA
     shortLabel Mutation: A
-    longLabel AlphaGenome AVI Score: Mutation is A
+    longLabel AlphaGenome AVI score: Mutation is A
     type bigWig
     parent alphaGenome on
     visibility dense
-    bigDataUrl /gbdb/$D/alphaGenome/a.bw
+    bigDataUrl /gbdb/$D/_alphaGenome/a.bw
     maxHeightPixels 128:20:8
     viewLimits 0:30
     viewLimitsMax 0:100
     maxWindowToDraw 10000000
     maxWindowToQuery 500000
     mouseOverFunction noAverage
     tableBrowser off
 
     track alphaGenomeC
     shortLabel Mutation: C
-    longLabel AlphaGenome AVI Score: Mutation is C
+    longLabel AlphaGenome AVI score: Mutation is C
     type bigWig
     parent alphaGenome on
     visibility dense
-    bigDataUrl /gbdb/$D/alphaGenome/c.bw
+    bigDataUrl /gbdb/$D/_alphaGenome/c.bw
     maxHeightPixels 128:20:8
     viewLimits 0:30
     viewLimitsMax 0:100
     maxWindowToDraw 10000000
     maxWindowToQuery 500000
     mouseOverFunction noAverage
     tableBrowser off
 
     track alphaGenomeG
     shortLabel Mutation: G
-    longLabel AlphaGenome AVI Score: Mutation is G
+    longLabel AlphaGenome AVI score: Mutation is G
     type bigWig
     parent alphaGenome on
     visibility dense
-    bigDataUrl /gbdb/$D/alphaGenome/g.bw
+    bigDataUrl /gbdb/$D/_alphaGenome/g.bw
     maxHeightPixels 128:20:8
     viewLimits 0:30
     viewLimitsMax 0:100
     maxWindowToDraw 10000000
     maxWindowToQuery 500000
     mouseOverFunction noAverage
     tableBrowser off
 
     track alphaGenomeT
     shortLabel Mutation: T
-    longLabel AlphaGenome AVI Score: Mutation is T
+    longLabel AlphaGenome AVI score: Mutation is T
     type bigWig
     parent alphaGenome on
     visibility dense
-    bigDataUrl /gbdb/$D/alphaGenome/t.bw
+    bigDataUrl /gbdb/$D/_alphaGenome/t.bw
     maxHeightPixels 128:20:8
     viewLimits 0:30
     viewLimitsMax 0:100
     maxWindowToDraw 10000000
     maxWindowToQuery 500000
     mouseOverFunction noAverage
     tableBrowser off