[BioC] Response - difference between hgu95aprobe and hgu95acdf

[James W. MacDonald]

Recently, a few people (Saroj Mohapatra, Ernest Turro and Bao Cao) have 
wondered why there appear to be more probes in the hgu95acdf environment 
than in the hgu95aprobe package.

This is also true of the hgu95av2cdf/hgu95av2probe packages as well, and 
appears to be due to the fact that 172 of the probesets on these chips 
were based on TIGR annotations. If you were to search netaffx for any 
one of them, there won't be any sequence information there, just the 
statement "Contact The Institute for Genomic Research for sequence and 
details". Unfortunately, the link they give to tigr is busted, but I am 
sure those interested could be able to wrest the information they desire 
from the Dana Farber website that you get directed to.

Anyway, I would imagine that there are some patent issues that keep Affy 
from being able to redistribute the sequences, which is why they don't 
appear in the probe sequence files, nor on netaffx.

Best,

Jim


-- 
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


**********************************************************
Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.