Extract rs IDs

0

Entering edit mode

3.8 years ago

monowar.hossain4518 • 0

How can I pick out all rs Ids of a specific gene from https://www.ncbi.nlm.nih.gov/snp/. I get them all in SNP database but my question is, I need them serially to perform on many bioinformatics tools, so is there any process to gather them all without taking one by one from SNP database?

rsID • 906 views

ADD COMMENT • link updated 3.7 years ago by Biostar 20 • written 3.8 years ago by monowar.hossain4518 • 0

0

Entering edit mode

, I need them serially to perform on many bioinformatics tools, so is there any process to gather them all without taking one by one from SNP database?

what does it mean ?

ADD REPLY • link 3.8 years ago by Pierre Lindenbaum 161k

0

Entering edit mode

You can get them through biomart

ADD REPLY • link 3.8 years ago by Asaf 10k

0

Entering edit mode

Use EntrezDirect. Remove (head -5) to get them all.

$ esearch -db snp -query "GAPDH AND Homo sapiens [ORGN]" | esummary | xtract -pattern DocumentSummary -element SNP_ID | head -5
1592191707
1592191325
1592191293
1592191058
1592191047

ADD REPLY • link 3.8 years ago by GenoMax 141k

Login before adding your answer.