RNA seq of mus musculus (C57BL/6J and C57BL/6JMMP-9-/-): adult colon
RNA was extracted from snap-frozen colonic mouse tissue (Qiagen RNeasy mini kit cat # 74106, Venlo, The Netherlands) and RNA integrity and quantity was checked with Bioanalyzer 2100 (Agilent, Santa Clara, CA, USA). RNA sequencing and preparative techniques were performed by the Genomics Core (UZ Leuven, http://gc.uzleuven.be/). TruSeq stranded mRNA library preparation (Illumina, San Diego, CA, USA) was performed according to the manufacturers guidelines. Sequencing was performed on the HiSeq2500 platform with a sequencing depth ranging from 9-21M reads per sample (Illumina, San Diego, CA, USA). The adapters were trimmed from the reads with the use of ea_utils v1.1.2. Reads that were shorter than 25bp after adapter trimming were removed.