{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Frances Marks"],"organism":["Mycobacterium tuberculosis"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16127"],"description":["This experiment was done to look at the transcriptional profile of bacteria upon whiB2 transcriptional depletion. RNA-seq of an inducible whiB2 CRISPRi strain grown with 0 or 500 ng/mL anhydrotetracycline, which turns on the CRISPRi machinery. Samples were collected after 2 days of treatment."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Libraries were constructed using NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (New England Biolabs) using 150 ng of input RNA. Libraries were amplified using 8 cycles on the thermocycler. Post amplification libraries were size selected ay 250-450 bp in length using SparQ beads. Libraries were validated using Bioanalyzer high sensitivity DNA analysis.","Nucleic Acid Extraction - RNA extraction was performed using Zymo RNA miniprep kit","Sequencing - Sequencing was done using a Illumina NovaSeq X Plus","Sample Collection - Bacteria were mixed with 5M GTC, pelleted, and resuspended in Trizol."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - Trimmed a filtered sequencing reads were mapped to the H37Rv reference genome (GenBank AL123456.3; RefSeq NC_000962.3; GCF_000195955.2; Genome assembly ASM19595v2)","Data Transformation - Raw read counts were done using featureCounts and normalized read counts were done using DESeq2"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["RNA-seq of coding RNA"],"species":["Mycobacterium tuberculosis"],"pubmed_authors":["Frances Marks"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of an inducible whiB2 CRISPRi strain grown with 0 or 500 ng/mL anhydrotetracycline, which turns on the CRISPRi machinery","description":"This experiment was done to look at the transcriptional profile of bacteria upon whiB2 transcriptional depletion. RNA-seq of an inducible whiB2 CRISPRi strain grown with 0 or 500 ng/mL anhydrotetracycline, which turns on the CRISPRi machinery. Samples were collected after 2 days of treatment.","dates":{"release":"2026-08-06T00:00:00Z","modification":"2026-08-06T21:35:42.924Z","creation":"2025-11-14T13:19:52.251Z"},"accession":"E-MTAB-16127","cross_references":{"ENA":["ERP184448"],"EFO":["EFO_0002944","EFO_0004170","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"]}}