Where Can I Get Gene Name Annotations By Position
For a university project I need a file containing the gene names and their positions on the hg19 chromosome 1. For this reason I downloaded a .bed file from USCS containing entries such as
chr1 248457917 248458880 uc010pzj.2 0 - 248457917 248458880 0 1 963, 0
chr1 248436153 248437116 uc010pzi.2 0 - 248436153 248437116 0 1 963, 0,
However I believe these are USCS identifiers (they can map to gene names) and not gene names. How can I map these identifiers to gene names, or where can I download data containing gene names and their locations? I know very little about genetics, I have searched the USCS downloads page but I was not able to find anything.
Thank you in advance.
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$ wget -qO - "http://hgdownload.cse.ucsc.edu/goldenpath/hg19/database/kgXref.txt.gz" | gunzip -c | grep -wE '(uc010pzj\.2|uc010pzi\.2)'
uc010pzi.2 NM_001004695 Q8NG76 O2T33_HUMAN OR2T33 NM_001004695 NP_001004695 Homo sapiens olfactory receptor, family 2, subfamily T, member 33 (OR2T33), mRNA.
uc010pzj.2 NM_001004692 Q8NG77 O2T12_HUMAN OR2T12 NM_001004692 NP_001004692 Homo sapiens olfactory receptor, family 2, subfamily T, member 12 (OR2T12), mRNA.
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