GSM4878934: Lit cells3; Mycolicibacterium smegmatis; RNA-Seq
Dim and lit cells (n= 300,000) were PerSorted into 1 mL TriZol having ~ 1000 bone marrow derived macrophage cells. RNA was extracted with phenol chloroform method described previously by Peterson et al., 2019. rRNA was depleted with Illumina rRNA depletion kit (20040526), and mycobacterium RNA was enriched with Path-seq methodology described previously in Peterson et al., 2019. A total of 100,240 probes were designed to cover M. smegmatis mc2155 (Agilent probe library ELID number S3206492). cDNA was made with   Invitrogen SuperScript II (18064022). Library was constructed with Illumina Nextera XT DNA Library Preparation Kit (FC-131-1024) using their suggested protocol.