title: GSM3499445: H37Rv_DMSO_24h_repC; Mycobacterium tuberculosis; RNA-Seq
library_construction_protocol: Cell pellets were re-suspended in TRIzol reagent and subjected to three cycles of 1 minute bead-beating (0.5 mm silica/zirconia beads) followed by RNA extraction using the Direct-zol RNA Kit (Zymo research) according to the manufactures' protocol. DNA was removed by TURBO DNase (Ambion) until no genomic DNA was detected by PCR. The quality and integrity of the total RNA was checked on the Bioanalyzer system (Agilent). Ribosomal RNA depletion was performed using the Bacteria RiboZero kit (Illumina). From rRNA-depleted RNA, directional libraries were prepared using the TruSeq Stranded mRNA Sample preparation kit following the manufacturer's instructions (Illumina). Libraries were checked for quality on Bioanalyzer DNA chips (Agilent). More precise and accurate quantification was performed with the fluorescent-based quantitation Qubit® dsDNA HS Assay Kit (ThermoFisher). 65 bp single read sequences were generated on the Hiseq2500 sequencer according to manufacturer's instructions (Illumina). The multiplexing level was 10 samples per lane. Directional libraries were prepared using the TruSeq Stranded mRNA Sample Preparation kit following the manufacturer's instructions (Illumina). Libraries were checked for quality on Bioanalyzer DNA chips (Agilent). 65 bp single read sequences  Were generated on the Hiseq2500 sequencer according to manufacturer's instructions (Illumina). The  multiplexing level was 10 samples per lane.