[BioC] BeadChip location info.

Yu Chuan Tai yuchuan at stat.Berkeley.EDU
Tue Jun 5 17:40:28 CEST 2007

Thanks a lot for your help. What I have is actually a public database.
The ID_REF look like GI_10047089-S, GI_10047133-A, GI_10047133-I,
Hs.22815-S, hmm8932-S, lysA....etc. I am not sure if these are v1 or v2 
because they didn't say. But there are 47293 bead types in total.

I think before I get into any annotation package, I should ask the authors 
if they have the chr location info. already. I will keep you posted about 
this and let you know if I need anything from you.

Yu Chuan

On Tue, 5 Jun 2007, Lynn M Amon wrote:

> I have deposited some annotation files for the Illumina Sentrix beadchips in 
> Bioconductor (illuminaHumanv1 and illuminaHumanv2) which contain chromosome 
> information.  The probe identifiers are Illumina's target IDs.  If you have a 
> text file written out by the scanner with all the individual beads, you will 
> need an annotation package with bead identifiers.  I have those too but they 
> are not on Bioconductor.  I can send that if you like but the file size is 
> large.  Let me know what version your BeadChip is (v1 or v2) and what the 
> ID_REFs look like and I'll tell you which annotation package you need.
> Lynn Amon
> Research Scientist
> University of Washington
> On Mon, 4 Jun 2007, Yu Chuan Tai wrote:
>> Hi list,
>> I am new to the Illumnia Sentrix Human-6 BeadChip and have a basic
>> question which I didn't find an answer in the archive. Just want to know
>> how I can get the chromosome location informationm for each bead type, if
>> I have a txt file with all the ID_REF?
>> Thanks!
>> Yu Chuan
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