NextSeq 500 sequencing; RNA-seq of high grade serous ovarian cancer samples stratified by progression free survival
RNA-seq of high grade serous ovarian cancer samples stratified by progression free survival
Residual formalin fixed paraffin embedded samples were obtained from Pathology. Samples were sectioned, and verified for minimum cellularity and viability. Two serial sections were then placed in tubes and shipped at room temperature to Cofactor Genomics. Unstained, unmounted FFPE sections from the same FFPE block were processed for RNA extraction using the Prism Extraction Kit (Cofactor Genomics, San Francisco, CA). Total RNA was evaluated for quality and quantity using the Bioanalyzer or TapeStation assay (Agilent, Santa Clara, CA), and the Qubit RNA HS or BR Assay (ThermoFisher, Waltham, MA). RNA concentration and quantity (in ng/Î¼L and total ng) and quality (DV200, % of fragments above 200 nt) was evaluated to determine library input amount. Total RNA was processed for library construction by Cofactor Genomics according to the ImmunoPrism Assay standard protocol for FFPE materials; 20-100 ng of RNA was used as input depending on sample quality.