Search set of SNPs on genome browser by rsid

Question

[lordoftheowl]

Hopefully a simple question.

I have a list of SNPs in rs12345 format. I want to visually see these SNPs and their positions on the genome (they are all relatively close to one another, same chromosome). How can I use genome browser to look up a list of SNPs by rsid?

[GenoMax]

One option would be to search the SNP at NCBI. See this example (click on the SNP name to open genome view). You can search with rs number at UCSC.

Answer 1

[Pierre Lindenbaum]

create an UCSC custom track with your SNP, and open it in the UCSC browser.

mysql --user=genome --host=genome-mysql.soe.ucsc.edu -A -D hg19  -e 'select chrom,chromStart,chromEnd,name  from snp150 where name in ("rs1052373574", "rs953910623", "rs766295811", "rs62651026", "rs386641822", "rs145427775", "rs370233998", "rs1008829651", "rs905296478", "rs555500075") ' -N > custom.bed