[BioC] rule of MM design on Affymetrix?

[James W. MacDonald]

Hi Simon,

Simon Lin wrote:
> What is the rule of the MM desing on the Affymetrix array?
> 
> I think it is a one-basepair change in the middle, but how exactly?
> 
> A-> C
> T->G,
> C->T
> G->A?

In most cases, the middle base pair is switched with its complement 
(e.g, T -> A, etc). The only time I know that Affy doesn't follow this 
convention is with the SNP arrays in the cases where the SNP is at the 
central base of the probe, and the SNPs are complements.

Best,

Jim


> 
> Many thanks,
> 
> Simon
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623