c587d5eb02bb241e36ddead11497ce2426c0c7d4 rhead Mon Apr 18 13:43:11 2011 -0700 Added snp132 announcement. diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 628d5d8..90d2126 100644 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -15,30 +15,115 @@

To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the genome-announce mailing list.

+ +

+ 18 March 2011 - dbSNP 132 Available for hg19 +

+

+ We are pleased to announce the release of four tracks derived from + dbSNP build 132, available on the human assembly (GRCh37/hg19). + dbSNP build 132 is available at NCBI. The new tracks contain + additional annotation data not included in previous dbSNP tracks, + with corresponding coloring and filtering options in the Genome + Browser. +

+

+ As for prior builds of dbSNP, there is a track that contains all + mappings of reference SNPs to the human assembly; it is now labeled + "All SNPs (132)". Three new tracks have been added to show + interesting and easily defined subsets of dbSNP: +

+
    +
  • Common SNPs (132): uniquely mapped variants that appear in at + least 1% of the population
    • + +
  • Flagged SNPs (132): uniquely mapped variants, excluding Common + SNPs, that have been flagged by dbSNP as "clinically associated"
    • + +
  • Mult. SNPs (132): variants that have been mapped to more than one + genomic location
    • +
+

+ By default, only the Common SNPs (132) are visible; other tracks must + be made visible using the track controls. +

+

+ The counts of distinct reference SNPs and their mappings to hg19 + differ greatly among the tracks: +

+ + + + + + + + + + + + + + + + + + + + + + + + + + +
TrackReference SNPsMappings to hg19
Common SNPs (132)13,842,38114,024,295 *
Flagged SNPs (132)17,89918,084 *
Mult. SNPs (132)1,114,5993,568,988
All SNPs (132)30,030,75433,026,121
+

+ * There are more mappings than SNPs even for the Common and Flagged + subsets, because single mappings to alternate haplotype sequences + and the Pseudo-Autosomal Regions on X and Y don't disqualify a SNP + from consideration as uniquely mapped. +

+

+ You will find the four SNPs (132) tracks on the Human Feb. 2009 + (GRCh37/hg19) browser in the "Variation and Repeats" group. +

+

+ Many thanks to dbSNP at NCBI for the data, and to + Mary-Claire King + at the University of Washington for helpful comments that motivated + us to enhance our dbSNP annotations. The tracks were produced at UCSC + by Angie Hinrichs, Brooke Rhead, Bob Kuhn, and Jim Kent. +

+ +
+

18 March 2011 - Sheep Browser Released

We are happy to announce a Genome Browser for the initial release of sheep (Ovis aries) genome. The Feb. 2010 Ovis aries draft assembly (NCBI project 10709, GCA_000005525.1) was produced by the International Sheep Genomics Consortium (ISGC) sequencing center. The mitochondrial genome was sequenced by Justus-Liebig-University.