title: GSM7518777: P25801_108; Homo sapiens; RNA-Seq
library_construction_protocol: Frozen cell pellets stored in RNAlater (Applied Biosystems) were allowed to thaw on ice, diluted 1:2 with cold PBS (Gibco) and centrifugated for 10 min at 200 xg for MDA-MB-231 and 300xg for SUM149-PT cells. The supernatatant was discarded and the cell pellet was resuspended in cold PBS and centrifugated at 200xg. RNA was extracted using the RNeasy mini kit (Qiagen) following the manufacturer's instruction (including DNAse digestion). The RNA amount was determined with Qbit and RIN score of selected samples were assessed using Agilent BioAnalyzer (Agilent Technologies). RNA samples were then processed for further quality control and library preparation at SciLifeLab (Stockholm, Sweden). All samples passed SciLifeLab's reception quality control and were processed by the Illumina TruSeq Stranded mRNA (polyA) protocol. Samples were sequenced on NovaSeq6000 (NovaSeq Control Software 1.7.5/RTA v3.4.4) with a 151nt(Read1)-19nt(Index1)-10nt(Index2)-151nt(Read2) setup using 'NovaSeqXp' workflow in 'S4' mode flowcell. The Bcl to FastQ conversion was performed using bcl2fastq_v2.20.0.422 from the CASAVA software suite. The quality scale used was Sanger / phred33 / Illumina 1.8+. RNA-seq , bulk (llumina TruSeq Stranded mRNA (polyA))