Robin M. Warren

This paper shows that considering intermediate results in phenotypic drug susceptibility testing can detect bedaquiline heteroresistance at low frequencies, improving resistance determination.

The paper evaluates pan-genome analysis methods using M. tuberculosis isolates, finding that annotation discrepancies and assembly quality affect results, and introduces panqc to address these issues.

The MAGMA pipeline improves variant calling and drug resistance analysis for Mycobacterium tuberculosis samples with low coverage and high contamination.

The paper evaluates DNA decontamination methods and a new target enrichment protocol to improve Mycobacterium tuberculosis whole-genome sequencing from direct patient samples.

The paper identifies distinct microbial community clusters in tuberculosis lymphadenitis linked to clinical features and immune responses.

COSMO predicts operons in Mycobacterium tuberculosis using RNA-seq data, outperforming existing predictors in accuracy and condition-specific operon detection.

This paper introduces XBS, a bioinformatics pipeline that improves variant detection in contaminated and low coverage Mycobacterium tuberculosis sequencing data, outperforming existing methods in complex genomic regions and low-depth samples.

This study performs a genome-wide association analysis of host genetic variants and MTBC strain infection in two cohorts, identifying 32 SNPs significantly associated with infection risk in the Ghanaian cohort.

The paper reports the first six human whole genome sequences generated and analyzed locally in South Africa, demonstrating high-quality data comparable to international standards.

The paper evaluates how merging multiple bacterial strains into protein sequence databases affects proteogenomics by analyzing pangenome complexity and annotation discrepancies.