Frequent transmission of the Mycobacterium tuberculosis Beijing lineage and positive selection for the EsxW Beijing variant in Vietnam

Combating mutations in genetic disease and drug resistance: understanding molecular mechanisms to guide drug design

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(2017) Arun Prasad Pandurangan et al.   NUCLEIC ACIDS RESEARCH

Mutations at protein-protein interfaces: Small changes over big surfaces have large impacts on human health

(2017) Harry C. Jubb et al.   PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY

Familial STAG2 germline mutation defines a new human cohesinopathy

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SDHA related tumorigenesis: a new case series and literature review for variant interpretation and pathogenicity

(2017) Ruth T. Casey et al.   Molecular Genetics & Genomic Medicine

Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

(2016) Jody Phelan et al.   BMC Medicine

Mycobacterium tuberculosis lineages and anti-tuberculosis drug resistance in reference hospitals across Viet Nam

(2016) Van Anh Thi Nguyen et al.   BMC MICROBIOLOGY

Conjugation of 10 kDa Linear PEG onto Trastuzumab Fab′ Is Sufficient to Significantly Enhance Lymphatic Exposure while Preserving in Vitro Biological Activity

(2016) Linda J. Chan et al.   MOLECULAR PHARMACEUTICS

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

(2016) David Stucki et al.   NATURE GENETICS

ESX secretion systems: mycobacterial evolution to counter host immunity

(2016) Matthias I. Gröschel et al.   NATURE REVIEWS MICROBIOLOGY

Variation in Human Cytochrome P-450 Drug-Metabolism Genes: A Gateway to the Understanding of Plasmodium vivax Relapses

(2016) Ana Carolina Rios Silvino et al.   PLoS One

Sex Differences in Tuberculosis Burden and Notifications in Low- and Middle-Income Countries: A Systematic Review and Meta-analysis

(2016) Katherine C. Horton et al.   PLOS MEDICINE

New Genome-Wide Algorithm Identifies Novel In-Vivo Expressed Mycobacterium Tuberculosis Antigens Inducing Human T-Cell Responses with Classical and Unconventional Cytokine Profiles

(2016) Mariateresa Coppola et al.   Scientific Reports

Protection and Long-Lived Immunity Induced by the ID93/GLA-SE Vaccine Candidate against a Clinical Mycobacterium tuberculosis Isolate

(2015) Susan L. Baldwin et al.   Clinical and Vaccine Immunology

A Microbiological Revolution Meets an Ancient Disease: Improving the Management of Tuberculosis with Genomics

(2015) Marta Wlodarska et al.   CLINICAL MICROBIOLOGY REVIEWS

Population Genomics of Mycobacterium tuberculosis in Ethiopia Contradicts the Virgin Soil Hypothesis for Human Tuberculosis in Sub-Saharan Africa

(2015) Iñaki Comas et al.   CURRENT BIOLOGY

Twelve novel HGD gene variants identified in 99 alkaptonuria patients: focus on ‘black bone disease’ in Italy

(2015) Martina Nemethova et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

A Duplicated ESAT-6 Region of ESX-5 Is Involved in Protein Export and Virulence of Mycobacteria

(2015) Swati Shah et al.   INFECTION AND IMMUNITY

Phylogeny to function: PE/PPE protein evolution and impact onMycobacterium tuberculosispathogenicity

(2015) S. Fishbein et al.   MOLECULAR MICROBIOLOGY

PEGylation Does Not Significantly Change the Initial Intravenous or Subcutaneous Pharmacokinetics or Lymphatic Exposure of Trastuzumab in Rats but Increases Plasma Clearance after Subcutaneous Administration

(2015) Linda J. Chan et al.   MOLECULAR PHARMACEUTICS

Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage

(2015) Matthias Merker et al.   NATURE GENETICS

Four decades of transmission of a multidrug-resistant Mycobacterium tuberculosis outbreak strain

(2015) Vegard Eldholm et al.   Nature Communications

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

(2015) Phelim Bradley et al.   Nature Communications

Germline Mutations in the CDKN2B Tumor Suppressor Gene Predispose to Renal Cell Carcinoma

(2015) M. Jafri et al.   Cancer Discovery

Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area

(2015) JA Guerra-Assunção et al.   eLife

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Identification of Human T Cell Antigens for the Development of Vaccines against Mycobacterium tuberculosis

(2014) S. Bertholet et al.   JOURNAL OF IMMUNOLOGY

Recurrence due to Relapse or Reinfection WithMycobacterium tuberculosis: A Whole-Genome Sequencing Approach in a Large, Population-Based Cohort With a High HIV Infection Prevalence and Active Follow-up

(2014) José Afonso Guerra-Assunção et al.   JOURNAL OF INFECTIOUS DISEASES

Evolution and transmission of drug-resistant tuberculosis in a Russian population

(2014) Nicola Casali et al.   NATURE GENETICS

DUET: a server for predicting effects of mutations on protein stability using an integrated computational approach

(2014) D. E. V. Pires et al.   NUCLEIC ACIDS RESEARCH

Tuberculosis vaccine with high predicted population coverage and compatibility with modern diagnostics

(2014) N. P. H. Knudsen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Consequences of genomic diversity in Mycobacterium tuberculosis

(2014) Mireia Coscolla et al.   SEMINARS IN IMMUNOLOGY

Mycobacterium tuberculosis strains spreading in Hanoi, Vietnam: Beijing sublineages, genotypes, drug susceptibility patterns, and host factors

(2014) Shinji Maeda et al.   TUBERCULOSIS

A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

(2014) Francesc Coll et al.   Nature Communications

mCSM: predicting the effects of mutations in proteins using graph-based signatures

(2013) Douglas E. V. Pires et al.   BIOINFORMATICS

Low Induction of Proinflammatory Cytokines Parallels Evolutionary Success of Modern Strains within the Mycobacterium tuberculosis Beijing Genotype

(2013) Arjan van Laarhoven et al.   INFECTION AND IMMUNITY

Systematic screening for active tuberculosis: rationale, definitions and key considerations [State of the art series. Active case finding/screening. Number 1 in the series]

(2013) K. Lönnroth et al.   INTERNATIONAL JOURNAL OF TUBERCULOSIS AND LUNG DISEASE

Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans

(2013) Iñaki Comas et al.   NATURE GENETICS

Genomic analysis identifies targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis

(2013) Maha R Farhat et al.   NATURE GENETICS

Genome sequencing of 161 Mycobacterium tuberculosis isolates from China identifies genes and intergenic regions associated with drug resistance

(2013) Hongtai Zhang et al.   NATURE GENETICS

Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis

(2013) Christopher B Ford et al.   NATURE GENETICS

Human Mycobacterium tuberculosis CD8 T Cell Antigens/Epitopes Identified by a Proteomic Peptide Library

(2013) David M. Lewinsohn et al.   PLoS One

Correction: The Role of Selection in Shaping Diversity of Natural M. tuberculosis Populations

(2013) Caitlin S. Pepperell et al.   PLoS Pathogens

BamView: visualizing and interpretation of next-generation sequencing read alignments

(2012) T. Carver et al.   BRIEFINGS IN BIOINFORMATICS

Contact investigation for tuberculosis: a systematic review and meta-analysis

(2012) G. J. Fox et al.   EUROPEAN RESPIRATORY JOURNAL

Eliminating Tuberculosis and Tuberculosis-HIV Co-Disease in the 21st Century: Key Perspectives, Controversies, Unresolved Issues, and Needs

(2012) A. Zumla et al.   JOURNAL OF INFECTIOUS DISEASES

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

FastML: a web server for probabilistic reconstruction of ancestral sequences

(2012) H. Ashkenazy et al.   NUCLEIC ACIDS RESEARCH

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(2012) Y. Kim et al.   NUCLEIC ACIDS RESEARCH

First Insights into the Phylogenetic Diversity of Mycobacterium tuberculosis in Nepal

(2012) Bijaya Malla et al.   PLoS One

Mycobacterium tuberculosis RNA Expression Patterns in Sputum Bacteria Indicate Secreted Esx Factors Contributing to Growth are Highly Expressed in Active Disease

(2012) Archana Bukka et al.   Frontiers in Microbiology

Comparative Genomics ofesxGenes from Clinical Isolates of Mycobacterium tuberculosis Provides Evidence for Gene Conversion and Epitope Variation

(2011) Swapna Uplekar et al.   INFECTION AND IMMUNITY

Mycobacterial Secretion Systems ESX-1 and ESX-5 Play Distinct Roles in Host Cell Death and Inflammasome Activation

(2011) A. M. Abdallah et al.   JOURNAL OF IMMUNOLOGY

Mycobacterium tuberculosis Beijing genotype: A template for success

(2011) M. Hanekom et al.   TUBERCULOSIS

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Molecular characterization of secretory proteins Rv3619c and Rv3620c from Mycobacterium tuberculosis H37Rv

(2010) Anjum Mahmood et al.   FEBS Journal

Possible underlying mechanisms for successful emergence of the Mycobacterium tuberculosis Beijing genotype strains

(2010) Ida Parwati et al.   LANCET INFECTIOUS DISEASES

A Defined Tuberculosis Vaccine Candidate Boosts BCG and Protects Against Multidrug-Resistant Mycobacterium tuberculosis

(2010) S. Bertholet et al.   Science Translational Medicine

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

PPE and PE_PGRS proteins ofMycobacterium marinumare transported via the type VII secretion system ESX-5

(2009) Abdallah M. Abdallah et al.   MOLECULAR MICROBIOLOGY

Intradermal immunization improves protective efficacy of a novel TB vaccine candidate

(2009) Susan L. Baldwin et al.   VACCINE

Convergent Evolutionary Analysis Identifies Significant Mutations in Drug Resistance Targets of Mycobacterium tuberculosis

(2008) M. H. Hazbon et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The Influence of Host and Bacterial Genotype on the Development of Disseminated Disease with Mycobacterium tuberculosis

(2008) Maxine Caws et al.   PLoS Pathogens