title: Illumina HiSeq 2000 paired end sequencing; RNA-seq of Xist deletion mouse models
design: RNA-seq of Xist deletion mouse models
library_construction_protocol: Tissue samples from animals chemically induced for colorectal cancer using a combination of Azoxymethane and Dextran Sulfate administration were homogenized using Tissue Lyzer II (Qiagen) before total RNA extraction using Trizol. TRIzol to extract total RNA Ribosomal RNA was depleted from samples using RiboMinus Eukaryote System v2 (Thermo Fisher Scientific), DNAse treated, and size selected using Rneasy MinElute Cleanup kit (Qiagen). RNA was fragmented in buffer containing magnesium before first (Superscript III, Thermo Fisher Scientific) and second strand (NEBnext Ultra Directional RNA second strand synthesis module) cDNA synthesis. Subsequent library preparation was performed using NEBnext Chip-seq Library Prep Master Mix for Illumina (NEB), per manufacturer's instructions.
attributes.tag: Experimental Factor: genotype
attributes.value: wild type genotype
attributes.tag: Experimental Factor: organism part
attributes.value: gastrointestinal polyp