RNA-Seq of Homo sapiens: adult male normal prostate: Sample 9010
"RNA was isolated from FFPE cores using Qiagen RNeasy FFPE kit, and then quantified by NanoDrop spectrophotometer and Qubit fluorometer. Barcoded RNAseq libraries were constructed from 1ug input RNA using Illumina TruSeq Stranded Total RNA LT kits with Ribo-Zero Gold depletion of rRNA. Barcoded libraries were then quantified by NanoDrop, qualified by Agilent BioAnalyzer, pooled (6 libraries per lane), and sequenced (unpaired, 100bp) on an Illumina HiSeq2000 instrument (Stanford Genome Sequencing Service Center) to an average depth of 39 million reads."
alignment_software
TopHat/Cufflinks