Entering edit mode
@christoph-geisenberger-5788
Last seen 10.5 years ago
Hi,
I am currently analyzing the expression data from Glioblastoma samples
provided by the TCGA. As an additional validation data set I
downloaded a collection of Affymetrix cel files. For better
comparability I would like to use the same probeset mapping as TCGA
did for their chips.
For this purpose, a so called ADF [array description file] is supplied
(https://tcga-data.nci.nih.gov/tcga/tcgaPlatformDesign.jsp). It
contains the probeset ID, the chromosomal location and the NCBI gene
ID. I have previously used costum CDF files for the normalization of
Affy cel files. I am now wondering how I can use the information from
the ADF file for the normalization process. Do I have to convert the
ADF file to a CDF file first? Or is there some way to re-map a already
available CDF file?
Thank you very much,
Christoph
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