RNA-Seq of Homo Sapien: polyp (tubulovilllous histology; low grade dysplasia) tissue: Sample A07_10008100
"Total RNA was quantified using the Quant-iT(tm) RiboGreen(R) RNA Assay Kit and normalized to 5ng/ul. 200 ng of RNA was used to prepare libraries, using an automated version of the Illumina TruSeq(tm) Stranded mRNA Sample Preparation kit. mRNA was selected from the total RNA samples using oligo dT beads. The cDNA that resulted was indexed using Broad Institute designed indexed adapters substituted in for multiplexing. After enrichment the libraries were quantified with qPCR using the KAPA Library Quantification Kit for Illumina Sequencing Platforms and then pooled equimolarly. Each sequencing run was101bp paired-end with barcoding. Pooled libraries were normalized and denatured prior to sequencing. Flow cell cluster amplification and sequencing were performed according to the manufacturer's protocols using either the HiSeq 2000 or HiSeq 2500. Data was analyzed using the Broad Picard Pipeline, which includes de-multiplexing and data aggregation."
alignment_software
Tophat V2