89491842e0ec6b2250aa6f6dc2c83c294930e6d6
max
  Sun May 17 14:38:40 2026 -0700
Add ChinaMAP phase 1 variant frequencies subtrack on hg38

ChinaMAP (Cao et al. 2020, Cell Res, PMID 32355288) is a deep-WGS
cohort of 10,588 Chinese individuals across 27 provinces and 8 ethnic
groups, with 147.4 M autosomal variants (136.7 M SNPs + 10.7 M short
indels). The released VCF is already on GRCh38 with chr-prefixed
chromosomes and ships AC/AF/AN plus matched 1KGP_* INFO fields, so it
is served directly via vcfTabix.

The ChinaMAP Limitations on Use prohibit redistribution, so the gbdb
directory is _chinamap (hidden from hgdownload) and the trackDb stanza
has tableBrowser off. Registered in scripts/varFreqs/databases.tsv so
the next varFreqsAll combined rebuild picks it up; filter UI is
deliberately not added yet (WBBC/TPMI precedent).

, refs #36642

diff --git src/hg/makeDb/trackDb/human/varFreqs.html src/hg/makeDb/trackDb/human/varFreqs.html
index 758d0dcef68..8144f5d596f 100644
--- src/hg/makeDb/trackDb/human/varFreqs.html
+++ src/hg/makeDb/trackDb/human/varFreqs.html
@@ -149,30 +149,39 @@
   <td>61k</td>
   <td>WGS</td>
   <td>General population</td>
   <td>&mdash;</td>
   <td>Yes</td>
 </tr>
 <tr>
   <td><a href="hgTrackUi?g=wbbc">WBBC China</a></td>
   <td>China</td>
   <td>4.5k</td>
   <td>WGS</td>
   <td>Westlake BioBank for Chinese pilot (now part of China Precision BioBank), autosomes only</td>
   <td>North Han, Central Han, South Han, Lingnan Han (by recruitment region)</td>
   <td>Yes</td>
 </tr>
+<tr>
+  <td><a href="hgTrackUi?g=chinamap">ChinaMAP phase 1</a></td>
+  <td>China</td>
+  <td>10.5k</td>
+  <td>WGS</td>
+  <td>China Metabolic Analytics Project, ~40x depth, 27 provinces and 8 ethnic groups, autosomes only</td>
+  <td>&mdash;</td>
+  <td>No</td>
+</tr>
 <tr>
   <td><a href="hgTrackUi?g=mgrb">Australia MGRB</a></td>
   <td>Australia</td>
   <td>4k</td>
   <td>WGS</td>
   <td>Healthy elderly (age &ge;70)</td>
   <td>&mdash;</td>
   <td>No</td>
 </tr>
 <tr>
   <td><a href="hgTrackUi?g=gasp">GenomeAsia Pilot</a></td>
   <td>Asia (219 groups)</td>
   <td>1.7k</td>
   <td>WGS</td>
   <td>Diverse populations across Asia</td>