GSM9450403: 22Rv1-dTAG-FOXA1, DMSO, 3h, biol rep 3; Homo sapiens; RNA-Seq
22Rv1-dTAG-FOXA1 cells (70 % confluency; 6-well plates) were treated with the indicated compounds for the specified durations. Total RNA was extracted using the RNeasy Plus Mini Kit (Qiagen) with 0.1 % (v/v) β-mercaptoethanol (BME) added to all buffers. RNA concentration was quantified using the Qubit Broad Range RNA Assay Kit (Thermo Fisher Scientific). For library preparation, 500 ng of total RNA per sample was processed using the QuantSeq 3′ mRNA-seq V2 Library Prep Kit FWD with UDI (Lexogen) according to the manufacturer's instructions. Samples were purified using the magnetic bead purification module (Lexogen). Libraries were multiplexed and sequenced on an Illumina NextSeq 2000 platform to generate 100 bp single-end reads.