[BioC] Missing chromosomal locations in hgu133a package

Nianhua Li nli at fhcrc.org
Sat Jul 22 00:57:41 CEST 2006

> 2. The base file used to build the annotation package may not be in sync with 
> the current probe-GB mapping provided by AffyMetrix. Nianhua, do you know if a 
> fresh download from AffyMetrix was used for release 1.8?

The probe-GB mapping from Affymetrix that was used for release 1.8 was dated
Dec. 19, 2005. Six files were used to get unified probe to Entrez Gene mapping:
1. probe-GB mapping from Affymetrix
2. probe-UniGene mapping from Affymetrix
3. probe-Entrez Gene mapping from Affymetrix
4. probe-Entrez Gene mapping from DCHIP
5. probe-Entrez Gene mapping from U. Michigan
6. probe-Entrez Gene mapping from another source (EA)

1 is the primary source, and 2-6 are supplimental sources. 1-3 are all dated Dec
19, 2005. 4-6 are pretty old files (>1 years old).



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