title: Illumina HiSeq 2500 sequencing; Transcriptome profiling of cells depleted of hnRNPC, Upf1, or co-depleted of hnRNPC and Upf1.
design: Transcriptome profiling of cells depleted of hnRNPC, Upf1, or co-depleted of hnRNPC and Upf1.
library_construction_protocol: HR1 cells were reverse-transfected with 5nM siRNA targeting hnRNPC mRNA (HSS179304 and HSS179305) or siRNA targeting Upf1 mRNA (HSS109172) as well as control siRNA Negative Control with medium GC content (Invitrogen). Depletion of hnRNPC was achieved 48 hours after initial siRNA transfection. For depletion of Upf1, cells were transfected a second time after 48 hours, and collected 96 hours after the first siRNA transfection.   RNA was extracted using trizol as per manufacturer instructions. RNAseq libraries were produced using TruSeq stranded mRNAseq library kit (Illumina).