I have one other question regarding Illumina bead array expression data. I would like to check my samples for RNA degradation. For Affy arrays I would do this using 3' to 5' ratios for beta-actin and GAPDH. But what can I do for Illumina data? I don't see any information regarding RNA degradation in beadarray or lumi packages? Thanks again, Ina

Hi Ina: There is a column called "start" in the bead manifest file which gives the position of the first base of the probe counting from the 5' end of the transcript. This information might be used to infer RNA degradation. Cheers, Wei Ina Hoeschele wrote: > I have one other question regarding Illumina bead array expression data. > I would like to check my samples for RNA degradation. For Affy arrays I > would do this using 3' to 5' ratios for beta-actin and GAPDH. But what > can I do for Illumina data? I don't see any information regarding RNA > degradation in beadarray or lumi packages? > Thanks again, Ina > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >