How do I find the gene name with the allele number from the databases?
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24 days ago

How do I find the gene name with the allele number from the databases?

rna-seq • 193 views
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Provide examples whenever any sort of identifiers are being mentioned. Without that information there is no way to answer this question.

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X_84670461

ID chr- SNP position 26_23089878 How do I find the gene name with the allele number from the databases?

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I don't immediately see a connection between the two examples you provided. What is X_84670461 and how is it related to 26_23089878? What genome is this from?

e.g. If we were looking at a SNP rs1593939233 then you can find the gene name and the allele frequency by using EntrezDirect like this:

\$ esearch -db snp -query "1593939233" | esummary | xtract -pattern DocumentSummary -element NAME,FREQ,DOCSUM
BRCA2   A=0.5/1 HGVS=NC_000013.11:g.32381866A>G,NC_000013.10:g.32956003A>G,NG_012772.3:g.71387A>G,NG_056630.1:g.375A>G|SEQ=[A/G]|LEN=1|GENE=BRCA2:675