Quantifying the Determinants of Evolutionary Dynamics Leading to Drug Resistance

Systematic discovery of drug interaction mechanisms

(2015) G. Chevereau et al.   Molecular Systems Biology

A new antibiotic kills pathogens without detectable resistance

(2015) Losee L. Ling et al.   NATURE

Identifying structural variation in haploid microbial genomes from short-read resequencing data using breseq

(2014) Jeffrey E Barrick et al.   BMC GENOMICS

Strength of Selection Pressure Is an Important Parameter Contributing to the Complexity of Antibiotic Resistance Evolution

(2014) Tugce Oz et al.   MOLECULAR BIOLOGY AND EVOLUTION

Microbiological effects of sublethal levels of antibiotics

(2014) Dan I. Andersson et al.   NATURE REVIEWS MICROBIOLOGY

Alternating antibiotic treatments constrain evolutionary paths to multidrug resistance

(2014) Seungsoo Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of resistance development against drug combinations by collateral responses to component drugs

(2014) C. Munck et al.   Science Translational Medicine

Genome-wide analysis captures the determinants of the antibiotic cross-resistance interaction network

(2014) Viktória Lázár et al.   Nature Communications

Uncovering Scaling Laws to Infer Multidrug Response of Resistant Microbes and Cancer Cells

(2014) Kevin B. Wood et al.   Cell Reports

When the Most Potent Combination of Antibiotics Selects for the Greatest Bacterial Load: The Smile-Frown Transition

(2014) Rafael Pena-Miller et al.   PLOS BIOLOGY

Fluidic and microfluidic tools for quantitative systems biology

(2013) Burak Okumus et al.   CURRENT OPINION IN BIOTECHNOLOGY

Bacterial evolution of antibiotic hypersensitivity

(2013) V. Lazar et al.   Molecular Systems Biology

Understanding, predicting and manipulating the genotypic evolution of antibiotic resistance

(2013) Adam C. Palmer et al.   NATURE REVIEWS GENETICS

The Innate Growth Bistability and Fitness Landscapes of Antibiotic-Resistant Bacteria

(2013) J. B. Deris et al.   SCIENCE

Use of Collateral Sensitivity Networks to Design Drug Cycling Protocols That Avoid Resistance Development

(2013) L. Imamovic et al.   Science Translational Medicine

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

ANTIBIOTIC RESISTANCE AND STRESS IN THE LIGHT OF FISHER'S MODEL

(2012) Sandra Trindade et al.   EVOLUTION

Mutational Pathway Determines Whether Drug Gradients Accelerate Evolution of Drug-Resistant Cells

(2012) Philip Greulich et al.   PHYSICAL REVIEW LETTERS

On the rapidity of antibiotic resistance evolution facilitated by a concentration gradient

(2012) R. Hermsen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cost of Antibiotic Resistance and the Geometry of Adaptation

(2011) Ana Sousa et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary paths to antibiotic resistance under dynamically sustained drug selection

(2011) Erdal Toprak et al.   NATURE GENETICS

Tackling antibiotic resistance

(2011) Karen Bush et al.   NATURE REVIEWS MICROBIOLOGY

Acceleration of Emergence of Bacterial Antibiotic Resistance in Connected Microenvironments

(2011) Q. Zhang et al.   SCIENCE

Antibiotic Sensitivity Profiles Determined with an Escherichia coli Gene Knockout Collection: Generating an Antibiotic Bar Code

(2010) A. Liu et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The distribution of fitness effects of new beneficial mutations in Pseudomonas fluorescens

(2010) M. J. McDonald et al.   Biology Letters

Phenotypic Landscape of a Bacterial Cell

(2010) Robert J. Nichols et al.   CELL

Sublethal Antibiotic Treatment Leads to Multidrug Resistance via Radical-Induced Mutagenesis

(2010) Michael A. Kohanski et al.   MOLECULAR CELL

Mutational Robustness of Ribosomal Protein Genes

(2010) P. A. Lind et al.   SCIENCE

Exploiting gene deletion fitness effects in yeast to understand the modular architecture of protein complexes under different growth conditions

(2009) Roland A Pache et al.   BMC Systems Biology

Nonoptimal Microbial Response to Antibiotics Underlies Suppressive Drug Interactions

(2009) Tobias Bollenbach et al.   CELL

Stress-Induced  -Lactam Antibiotic Resistance Mutation and Sequences of Stationary-Phase Mutations in the Escherichia coli Chromosome

(2009) J. F. Petrosino et al.   JOURNAL OF BACTERIOLOGY

Genetic Architecture of Intrinsic Antibiotic Susceptibility

(2009) Hany S. Girgis et al.   PLoS One

The Properties of Adaptive Walks in Evolving Populations of Fungus

(2009) Sijmen E. Schoustra et al.   PLOS BIOLOGY

The Distribution of Fitness Effects of Beneficial Mutations in Pseudomonas aeruginosa

(2009) R. Craig MacLean et al.   PLoS Genetics

Clonal Interference, Multiple Mutations and Adaptation in Large Asexual Populations

(2008) C. A. Fogle et al.   GENETICS

Antimicrobial resistance in community and nosocomial Escherichia coli urinary tract isolates, London 2005 – 2006

(2008) David C Bean et al.   Annals of Clinical Microbiology and Antimicrobials