UCT has several Tuberculosis researchers tackling the problem of TB and TB-related issues. In order to be more effective in dealing with TB, collobration between groups are crucial. We have summarised the current UCT human resources involved in Mycobacterium (MTB) and MTB host data generation and analysis.

 

Current MTB Research Data at UCT

Principal investigator Data source and Type
This email address is being protected from spambots. You need JavaScript enabled to view it. MTB: WGS
This email address is being protected from spambots. You need JavaScript enabled to view it. Host: Whole blood RNA-Seq, Plasma proteomic
This email address is being protected from spambots. You need JavaScript enabled to view it. MTB: WGS
This email address is being protected from spambots. You need JavaScript enabled to view it. MDR MTB: WGS
This email address is being protected from spambots. You need JavaScript enabled to view it. MTB: Tn-seq; MTB: Tn-seq
Keertan Dheda Host: BAL RNAseq, lung tissue RNAseq, urine proteomics; MTB: WGS, RNAseq, proteomics; MDR and XDR TB: WGS and RNAseq

 

Several tools exist for investigating TB drug resistance mutations in sequence data:

TB Profiler: Given raw sequence data as input, TB Profiler infers strain type and identifies known drug resistance markers. This in silico diagnostic uses a library generated from 1,325 mutations predictive of drug resistance for 15 anti-tuberculosis drugs. The library was validated for 11 of these drugs using genomic-phenotypic data from 792 strains (Coll et al).

 

ReSeqTB: "...catalogs a vast amount of genotypic, phenotypic and related metadata from Mycobacterium tuberculosis (Mtb) strains to enable the development of clinically useful, WHO-endorsed in vitro diagnostic assays for rapid drug susceptibility testing of MTb..."


 

 

CBIO tools