title: GSM2612488: HNSCC sensitive cell line SCC25 baseline; Homo sapiens; RNA-Seq
library_construction_protocol: RNA isolation and sequencing were performed for the parental SCC25 (C0) and each of the cetuximab and PBS generations (C1 to C11) at the Johns Hopkins Medical Institutions (JHMI) Deep Sequencing & Microarray Core Facility. Total RNA was isolated from a total of 1x106 cells using the AllPrep DNA/RNA Mini Kit (Qiagen, Hilden, Germany) following manufacturer’s instructions. The RNA concentration was determined by the spectrophotometer Nanodrop (Thermo Fisher Scientific, Waltham, MA) and quality was assessed using the 2100 Bioanalyzer (Agilent, Santa Clara, CA) system. An RNA Integrity Number (RIN) of 7.0 was considered as the minimum to be used in the subsequent steps for RNAseq. Library was constructed using TrueSeq Stranded Total RNA seq Poly A1 Gold Kit (Illumina, San diego,CA) according to manufacturer's recommendations, followed by mRNA enrichment using poly(A) enrichment for ribosomal RNA removal.