Illumina SNP microarray process

Question

[hntiger1688]

Hi, everyone.

Previously, I was major in RNA microarray analysis.

However, It is my first time to analysis the SNP microarray data.

I downloaded the SNP microarray from GEO the GEO accession ID is GSE43406.

The SNP microarray platform is Illumina Human1Mv1 DNA Analysis BeadChip

I want to get the RSID and genotype of each SNP.

I would be really appreciate to anyone who give me help!

Thanks!

Answer 1

[Sam]

I am not sure if it is the same, but this is the code I use for expression microarray to extract the ids:

gpl=getGEO("GPL1261", destdir=".") //Select the appropriate platform here and replace the GPL1261
id2Name=Table(gpl)[,c(1,11)] //You will want to colnames(Table(gpl)) to get the RSID, I think mine is for the gene name

[hntiger1688]

Thanks for your help!

Yeah, I have tried this but I takes long time to get the Data.