How to get list of GeneIDs using SNP ID list?

Is there any way to get the list of gene IDs by giving SNP IDs, via a web (REST) service? I need services like following:

http://www.kegg.jp/kegg/docs/keggapi.html

I have a SNP list (like rs1312321, rs4524523), and I need to find the mapping gene list of these SNPs. Then I will search for KEGG pathways having these gene IDs.

SNP List --> Gene List --> Pathway List

snp pathway gene dbsnp kegg

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updated 4.5 years ago by Ram

• written 11.7 years ago by goksoy66 •

3 answers

You can use the Ensembl VEP.

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updated 4.5 years ago by Ram

• written 11.7 years ago by Emily

Thanks for answer.

Now I can get gene ids, but they are in type of Ensembl Gene ID. So I need to convert them to KEGG Gene ID.

KEGG REST API allows conversion from ncbi-gi, ncbi-geneid and uniprot. So these types are also ok for me. I can convert them using following rest url.

http://rest.kegg.jp/conv/genes/ncbi-geneid:3113320

Do you know a way to convert from ENSG to other ids?

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updated 4.5 years ago by Ram

• written 11.7 years ago by goksoy66 •

You can get Uniprot IDs as VEP output. Just open up the Identifiers and frequency data menu and select Uniprot.

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updated 4.5 years ago by Ram

• written 11.7 years ago by Emily

I couldn't find any web service. Here we can query via graphical user interface, only.

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updated 4.5 years ago by Ram