S3J_MDM-1_MOI_5_replicate2
MDM-1 were infected with Mtb at MOI=5, 1 day later cells were washed once with Dulbecco's phosphate-buffered saline (PBS), and RNA was extracted using TRIzol and Chloroform:Isoamyl alcohol, as stated in the Methods. RNA was further purified using Qiagen RNeasy mini kit (with on column DNase digestion). Sequencing libaries were prepared using Illumina TruSeq Stranded mRNA Library Preparation (Poly-A selection and Stranded RNA-Seq). After Illumina NovaSeq 6000 sequencing, the Binary Base Call (BCL) raw reads were processed through bcl2fastq 2.20 (Illumina) for FASTQ conversion and demultiplexing. Adaptors were trim with cutadapt (version1.18).