62b1428915cc2c8b9acbf46a86c1248833257efe mspeir Mon Nov 17 18:50:32 2025 -0800 changing rest of genome-source references to github, refs #34485 diff --git src/hg/makeDb/trackDb/human/dbSnp152.shared.html src/hg/makeDb/trackDb/human/dbSnp152.shared.html index 936f19bb787..5219d9673a6 100644 --- src/hg/makeDb/trackDb/human/dbSnp152.shared.html +++ src/hg/makeDb/trackDb/human/dbSnp152.shared.html @@ -262,36 +262,36 @@ that they enable, dbSNP has grown exponentially, requiring a new data schema, computational pipeline, web infrastructure, and download files. (Holmes et al.) The same challenges of exponential growth affected UCSC's presentation of dbSNP variants, so we have taken the opportunity to change our internal representation and import pipeline. Most notably, flanking sequences are no longer provided by dbSNP, since most submissions have been genomic variant calls in VCF format as opposed to independent sequences.
We downloaded dbSNP's JSON files available from ftp://ftp.ncbi.nlm.nih.gov/snp/archive/b152/JSON/, extracted a subset of the information about each variant, and collated it into a bigBed file using the -bigDbSnp.as schema with the information necessary for filtering and displaying the variants, as well as a separate file containing more detailed information to be displayed on each variant's details page -(dbSnpDetails.as schema).
The raw data underlying the UCSC Genome Browser track can be explored interactively with the Table Browser, Data Integrator, or Variant Annotation Integrator. For automated analysis, the track data files can be downloaded from the downloads server for hg38 and hg19 (dbSnp152.bb); the detailed variant properties can be downloaded from hgFixed (dbSnp152Details.tab.gz).