title: GSM5961935: SF8628 with shRNAs and 6Gy radiation 01; Homo sapiens; OTHER
library_construction_protocol: 1. RNA-seq samples: Total RNA was extracted by ethanol precipiation in ddH2O. 2. Genomic DNA samples: Genomic DNA was extracted with AL Buffer and Ethanol precipitation in AE Buffer. 1. RNA-seq samples: Total RNA was extracted using Qiagen miRNeasy Mini kit. 2. Genomic DNA samples: Genomic DNA was extracted with Qiagen DNeasy Blood and Tissue Mini Kit. RNA-Seq: Libraries were prepared by using the TruSeq Library Preparation Kit v2 (Agilent). Directional mRNA sequencing was performed at the University of Colorado Anschutz Medical Campus Genomics and Microarray Core on a HiSeq 2500 sequencing system (Illumina) using single-pass 125 bp reads (1 × 125) and approximately 50 million reads per sample. DNA Repair shRNA screen: Sample library preparation was performed using primers from transomic (TRP60001) and KOD HOT Start DNA polymerase kit (Millipore 17086).