alias: E-MTAB-7017:GC1_p
title: Illumina HiSeq 2500 paired end sequencing; RNASeq data analysis of wild type and reverb alpha knockout cells from mouse liver, at different time points, with or without DEX treatment
design: RNASeq data analysis of wild type and reverb alpha knockout cells from mouse liver, at different time points, with or without DEX treatment
library_construction_protocol: Mice were treated at ZT6 (6 hours after lights on, 1:30pm) or at ZT18 (6 hours after lights off, 1:30am) with dexamethasone (1 mg/kg intraperitoneal) or vehicle (methylcyclodextrin 1mg/kg intraperitoneal) for 2 hours before sacrifice by cervical dislocation. Liver sections from mouse were used for RNASeq study. Tophat-2.0.11 Liver tissue were lysed and total RNA prepared using SV Total RNA Isolation System (Promega). RNA quality was checked using the RNA 6000 Nano Assay, RNA samples with a 260:280 nM ratio of ~2 taken forward for analysis. Quality and integrity of total RNA samples were assessed using a 2100 Bioanalyzer or a 2200 TapeStation (Agilent Technologies) according to the manufacturer's instructions. polyadenylated mRNA was purified using poly-Toligo-attached, magnetic beads. TruSeq® Stranded mRNA assay (Illumina, Inc.) according to the manufacturer's protocol
identifiers.namespace: UNIVERSITY OF MANCHESTER
identifiers.id: E-MTAB-7017:GC1_p