Rv0004 Zn-ribbon-containing, possibly RNA-binding protein and truncated derivatives
Rv0004 (Zn-ribbon-containing, possibly RNA-binding protein and truncated derivatives) is predicted to be co-regulated in modules bicluster_0128 with residual 0.56 and bicluster_0516 with residual 0.52.
This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0128 and 2,900.00 and 10,000.00 for bicluster_0516 respectively.
These modules are enriched for following go terms: anion transport, external encapsulating structure, cell periphery, transmembrane transporter activity, transporter activity.
This gene is found to be for growth on cholesterol.
|Product (LegacyBRC)||Product (RefSeq)|
|UPF0232 protein Rv0004_MT0004|
|BioCyc Gene Page||Cellular Overview Map|
Quantitative Proteomics Data
|t-test p-value||Cholesterol/Glycerol Ratio|
How essentiality calculations were done?
The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.
TRIP log2 fold abundance change
reports the log2 abundance fold change of each TFI strain, relative to no induction, in absence or presence of drug, averaged across experimental replicates. Also reported are the accompanying z-scores and two-sided t-test p-values for each TFI strain under each condition. Please refer to Ma et al., 2020, Nature Microbiology for more information.