Tag Snp Vs Sentinel Snp?

Question

[2184687-1231-83-]

Is there a difference in the definition for "tag SNP" and "sentinel SNP"?

[Larry_Parnell]

We've never heard of the term "sentinel SNP." And that is with a combined experience of decades in this field. Give some context where you came across sentinel and I'll be happy to give this a try.

Answer 1

[aishafurqan]

I found this in Ehret et al 2011. "For genotyping and other purposes, a proxy SNP (“target SNP”) rather than the SNP with the best association P-value (“sentinel SNP”) was chosen for follow-up in some cases." Hope this helps.

Answer 2

[Larry_Parnell]

Well, yesterday just after posting my comment I happened to pick up a paper in which the term sentinel SNP was used. My interpretation is a sentinel SNP is that SNP which gave the best (typically as measured by P value of association) signal in a multi-SNP analysis. A tag SNP is the SNP which is in very high or absolute linkage disequilbrium (LD) with a tested SNP. Thus, these are not equivalent terms.

[Khader Shameer]

Larry, can you please share that paper ? Thanks in advance !

[Larry_Parnell]

Hmm, that was so many papers ago... Try Suhre as first author from 2011.