[BioC] Missing chromosomal locations in hgu133a package

John Zhang jzhang at jimmy.harvard.edu
Wed Jul 19 15:15:52 CEST 2006

>thanks for Your answer. I'm aware of the fact I could create annotation 
>packages on my own using AnnBuilder. However, the comparison I mentioned 
>was of GoldenPath data and annotation packages of about the same date 
>(mid 2005), and even current annotation packages show this discrepancy 
>in the number of chromosomal locations provided in hgu133a.  So I 
>wondered if there is some good reason to not provide chromosomal 
>locations for some probesets (e.g. unreliable mappings in GoldenPath) or 
>if this is because of special paths AnnBuilder uses to merge all sources.

AnnBuilder does not make any decision on who gets mapped and who does not. I 
will have to step through the mapping process to tell you what might be the 
problem. Could you give me a few of the probes that are missed again?


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

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