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We analyzed microarray data sets with the RACE-A software (Roche Affymetrix Chip Experiment Analysis).
The microarray data sets from the previous study7 were downloaded from GEO (accession number GSE12304).
Lee, H. K., Hsu, A. K., Sajdak, J., Qin, J. & Pavlidis, P. Coexpression analysis of human genes across many microarray data sets.
The robust multichip average (RMA) algorithm was used to normalise the microarray data sets and the Simpleaffy package64 was run to assess the quality of the arrays.
As an illustration, our approach is applied to three human breast cancer microarray data sets.
We have analyzed two Nipponbare rice microarray data sets for evidence of alternative splicing.
We generated two simulated expression microarray data sets.
Ten microarray data sets were randomly selected for training.
These sources also showed a good performance on 6 validation microarray data sets.
Many of these changes were confirmed in archived human ovarian cancer microarray data sets.
DNA microarray data sets were deposited at NCBI's Gene Omnibus Express under the accession number GSE21077.
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