P-MTAB-67925 -

Type
normalization data transformation protocol
Description
Each sample was independently processed with Cufflinks in order to generate an initial transcriptome. We used the Cuffmerge tool to merge the private transcriptomes into a single reference, and at the same time annotated known genes and extended partial transcripts. This common transcriptome was used in a second pass with Cufflinks, which quantified each transcript and gene (known or novel) in each sample. The reference annotation used was based on the UCSC knownGenes table.
Software
Cufflinks/Cuffmerge
Links
Experiment E-MTAB-6017