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List of works by Stefan Niemann

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Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis

scientific article
Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology

scientific article (publication date: 6 March 2006)
Variable host-pathogen compatibility in Mycobacterium tuberculosis

scientific article (publication date: 21 February 2006)
Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans

scientific article (publication date: October 2013)
Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved

scientific article
High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography

scientific article
Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes.

scientific article published on 18 December 2011
Genotyping of genetically monomorphic bacteria: DNA sequencing in Mycobacterium tuberculosis highlights the limitations of current methodologies.

scientific article
Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study

scientific article (publication date: 2013)
Whole-genome sequencing for prediction of Mycobacterium tuberculosis drug susceptibility and resistance: a retrospective cohort study

scientific article published on 23 June 2015
Origin, spread and demography of the Mycobacterium tuberculosis complex

scientific article published in 2008
Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates

scientific article
Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis

scientific article
Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage

scientific article published on 19 January 2015
MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria

scientific article published on 10 May 2010
Predictive value of a whole blood IFN-gamma assay for the development of active tuberculosis disease after recent infection with Mycobacterium tuberculosis

scientific article
Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis

scientific article (publication date: 23 October 2014)
Functional genetic diversity among Mycobacterium tuberculosis complex clinical isolates: delineation of conserved core and lineage-specific transcriptomes during intracellular survival

scientific article
Autophagy gene variant IRGM -261T contributes to protection from tuberculosis caused by Mycobacterium tuberculosis but not by M. africanum strains

scientific article
Negative and Positive Predictive Value of a Whole-Blood Interferon-γ Release Assay for Developing Active Tuberculosis

scientific article published on August 27, 2010
Assessment of an optimized mycobacterial interspersed repetitive- unit-variable-number tandem-repeat typing system combined with spoligotyping for population-based molecular epidemiology studies of tuberculosis

scientific article published on 27 December 2006
The epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant, extensively drug-resistant, and incurable tuberculosis

scientific article
Definition of the Beijing/W lineage of Mycobacterium tuberculosis on the basis of genetic markers

scientific article published on September 2004
PhyResSE: a Web Tool Delineating Mycobacterium tuberculosis Antibiotic Resistance and Lineage from Whole-Genome Sequencing Data

scientific article
Whole-genome-based Mycobacterium tuberculosis surveillance: a standardized, portable, and expandable approach.

scientific article
Use of the genotype MTBDR assay for rapid detection of rifampin and isoniazid resistance in Mycobacterium tuberculosis complex isolates

scientific article
Genomic diversity among drug sensitive and multidrug resistant isolates of Mycobacterium tuberculosis with identical DNA fingerprints

scientific article
Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study

scientific article
Mycobacterium tuberculosis wears what it eats

scientific article
Mycobacterium tuberculosis pyrazinamide resistance determinants: a multicenter study

scientific article
RIDOM: comprehensive and public sequence database for identification of Mycobacterium species

scientific article
Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing

scientific article published on 26 September 2018
Whole genome sequencing reveals complex evolution patterns of multidrug-resistant Mycobacterium tuberculosis Beijing strains in patients

scientific article (publication date: 2013)
Mycobacterium bovis subsp. caprae Caused One-Third of Human M. bovis-Associated Tuberculosis Cases Reported in Germany between 1999 and 2001

scientific article (publication date: July 2003)
High Resolution Discrimination of Clinical Mycobacterium tuberculosis Complex Strains Based on Single Nucleotide Polymorphisms

scientific article published on July 2, 2012
Clade-specific virulence patterns of Mycobacterium tuberculosis complex strains in human primary macrophages and aerogenically infected mice

scientific article published on 30 July 2013
The Beijing genotype and drug resistant tuberculosis in the Aral Sea region of Central Asia

scientific article
Epidemiology of tuberculosis in Hamburg, Germany: long-term population-based analysis applying classical and molecular epidemiological techniques

scientific article
ALOX5 variants associated with susceptibility to human pulmonary tuberculosis

scientific article published on 3 January 2008
Population-based resistance of Mycobacterium tuberculosis isolates to pyrazinamide and fluoroquinolones: results from a multicountry surveillance project

scientific article published on 07 July 2016
Detection of Drug-Resistant Tuberculosis by Xpert MTB/RIF in Swaziland

scientific article published on March 19, 2015
Sequence analyses of just four genes to detect extensively drug-resistant Mycobacterium tuberculosis strains in multidrug-resistant tuberculosis patients undergoing treatment.

scientific article published on 26 May 2009
Evaluation of genotype MTBC assay for differentiation of clinical Mycobacterium tuberculosis complex isolates

scientific article
Phylogenetic polymorphisms in antibiotic resistance genes of the Mycobacterium tuberculosis complex

scientific article published on 23 January 2014
Proposal of a consensus set of hypervariable mycobacterial interspersed repetitive-unit-variable-number tandem-repeat loci for subtyping of Mycobacterium tuberculosis Beijing isolates

scientific article published on 30 October 2013
Genomic analysis distinguishes Mycobacterium africanum

scientific article published on August 2004
Mycobacterium tuberculosis Beijing lineage favors the spread of multidrug-resistant tuberculosis in the Republic of Georgia

scientific article
IS6110 fingerprinting of drug-resistant Mycobacterium tuberculosis strains isolated in Germany during 1995

scientific article published on December 1, 1997
Tuberculosis recurrence and mortality after successful treatment: impact of drug resistance

scientific article
Molecular characterization of rifampin- and isoniazid-resistant Mycobacterium tuberculosis strains isolated in Poland

scientific article

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