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Illumina Zhonghua Chip Two Snp The Same Position

I am very confused about illumina Zhonghua, why different SNPs have the same chrosome position, take one for example, rs28456011 and kgp4449990, both chr1:1567206(hg19)???

snp position
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updated by JC JC • written by Liyf • Liyf

When you contacted Illumina, what did they say, just out of curiosity?

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written by Sean Davis Sean Davis

I just contacted illumina, and not get reply. I am waiting.

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written by Liyf • Liyf

1 answer

One simple explanation (besides duplicate entries with different IDs) is they represent an unique variation at the same position, chr1:1567206 in the reference is a G, the rs28456011 is reported as A, maybe kgp4449990 is a T or C (I didn't find the genotype).

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written by JC JC

Thank you！I am still confused about this, I think may be you are right. In fact, I felt that if I use all the SNPs, I will not miss any important SNPs

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written by Liyf • Liyf

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