[BioC] Affymetrix annotation package

[John Zhang]

>> 
>> Is "HG919-HT919" really an accession number? I do not get any hits at NCBI's 
GenBank. NetAffx gives the same identifier for that probeset, but in a field 
called "Representative Public ID".
>> There are some more probesets with "HGXXX-HTXXX" as ACCNUM on the hgu95av2 
chip. Where can get more information about this identifiers?


The Public IDs Affymetrix provides may be a mixture of GenBank and other IDs. 
Since most of the IDs on earlier arrays are GenBank IDs, BioC annoation package 
names the environment "ACCNUM", although they are not all GenBank IDs. In fact, 
some of the IDs (not sure if this applies to the 95av2 chip) are TIGR IDs. I 
used Google to figure out the identity of the non-GeneBank ids.


>> 
>> Thanks,
>> Hans-Ulrich
>> 
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>
>-- 
>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
>
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Jianhua Zhang
Department of Medical Oncology
Dana-Farber Cancer Institute
44 Binney Street
Boston, MA 02115-6084