mRNA expression data of Mes vs. Epi cells in mouse non-NE SCLC

Distinct mRNA populatins have been detected in Epi vs. Mes cells of mouse non-NE SCLC The aim of the study was to globally profile the differential gene expression in Mes vs. Epi cells of mouse non-NE SCLC. Single clones from mouse non-NE SCLC were picked and expaned to obtain enough cells for further study. Total RNA was extracted and Labeled cRNA were purified by RNeasy mini kit (QIAGEN). Each slide was hybridized with 1.65ug Cy3-labeled cRNA using Gene Expression Kit (Agilent technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. After 17 hours hybridization, slides were washed in staining dishes (Thermo Shandon, Waltham, MA, US) with Gene Expression Wash Buffer Kit (Agilent technologies, Santa Clara, CA, US) following the manufacturer’s instructions. Slides were scanned by Agilent Microarray Scanner (Agilent technologies, Santa Clara, CA, US) with default settings, Dye channel: Green, Scan resolution = 5 um, PMT 100%, 16 bits. Data were extracted with Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US). Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US). GSEA was performed following the developer’s protocol (http://www.broad.mit.edu/gsea/).