Performance of modularity maximization in practical contexts

Benjamin H. Good, Yves-Alexandre de Montjoye, Aaron Clauset

Physical Review E

Mathematical ProgrammingEngineeringNetwork AnalysisModularity MaximizationComputational Complexity +19

The dynamics of molecular evolution over 60,000 generations

Benjamin H. Good, Michael J. McDonald, Jeffrey E. Barrick, +2

Nature

PhylogeneticsEvolutionNatural SciencesEvolutionary BiologyComputational Biology +4

Quantifying the local adaptive landscape of a nascent bacterial community

Joao A Ascensao, Kelly M. Wetmore, Benjamin H. Good, +2

Nature Communications

Evolutionary dynamics of bacteria in the gut microbiome within and across hosts

Nandita R. Garud, Benjamin H. Good, Oskar Hallatschek, +1

PLoS Biology

DysbiosisGut BacteriaGeneticsGut MicrobiotaMicrobial Evolution +24

The Effect of Strong Purifying Selection on Genetic Diversity

Ivana Cvijović, Benjamin H. Good, Michael M. Desai

Genetics

Distribution of fixed beneficial mutations and the rate of adaptation in asexual populations

Benjamin H. Good, Igor M. Rouzine, Daniel J. Balick, +2

Proceedings of the National Academy of Sciences

Population SizeFitnessGeneticsNatural SelectionSexual Selection +17

Fate of a mutation in a fluctuating environment

Ivana Cvijović, Benjamin H. Good, Elizabeth R. Jerison, +1

Proceedings of the National Academy of Sciences

Genetic Diversity in the Interference Selection Limit

Benjamin H. Good, Aleksandra M. Walczak, Richard A. Neher, +1

PLoS Genetics

GeneticsNatural SelectionSilent Site VariabilityGenetic DiversityMolecular Ecology +15

Longitudinal linked-read sequencing reveals ecological and evolutionary responses of a human gut microbiome during antibiotic treatment

Morteza Roodgar, Benjamin H. Good, Nandita R. Garud, +9

Genome Research

DysbiosisGeneticsGenomicsMicrobial EvolutionEvolutionary Responses +22

The Impact of Macroscopic Epistasis on Long-Term Evolutionary Dynamics

Benjamin H. Good, Michael M. Desai

Genetics

Mutation TrajectoryFitnessGeneticsEscherichia ColiBiological Evolution +17