GSM3040323: 48hr treated timepoint #1; Mus musculus; RNA-Seq
Following cardiac puncture and exsanguination, liver (caudate lobe) was harvested and immediately frozen on dry ice. Samples were stored for <6months at  -80. Total RNA was extracted from 30-50mg tissue samples using a combination of TRIzol reagent (Invitrogen) and Qiagen RNeasy Mini system (Qiagen, UK) according to both manufacturers' instructions. Purified RNA was tested on an Agilent 2200 Tapestation using RNA screentape. Libraries for cluster generation and DNA sequencing were prepared following an adapted method from  Fisher et al.PLOS Biology 9;e1001091(2011), using Illumina TruSeq Stranded mRNA LT Kit, Quality and quantity of the DNA libraries was assessed on a Agilent 2200 Tapestation (D1000 screentape) and Qubit (Thermo Fisher Scientific) respectively. The libraries were run on the Illumina Next Seq 500 using the High Output 75 cycles kit (2x36cycles, paired end reads, single index). Quality checks on the raw RNASeq data files were done using fastqc version 0.10.1 and fastq_screen version 0.4.2.