Bacterial Genomics Group people

Ashlee M. Earl
Senior Group Leader, Bacterial Genomics
617-714-7927
 
 
Abigail Manson
Group Leader, Bacterial Computational Genomics

 

 

 

Colin Worby

Colin Worby
Computational Biologist
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Alexandra Grote
Postdoctoral Fellow

Alex is a molecular biologist seeking to incorporate computational biology into the study of infectious disease and host-pathogen interactions. She is currently using comparative genomics and transcriptomics to identify bacterial and host factors that govern Salmonella persistence. Before joining the Broad Institute, she received her PhD in biology from New York University where she studied the endosymbiotic relationship that parasitic nematodes have with the bacteria Wolbachia.

Joshua Smith
Joshua Smith
Postdoctoral Associate

Josh is a microbiologist interested in the ecological and evolutionary processes that drive the development and spread of antimicrobial-resistant superbugs. Currently, he is using large genomic datasets to understand the emergence of multidrug-resistant Enterobacteriaceae in vulnerable human populations, with the goal of informing health professionals of mitigation strategies. Before joining the Broad Institute, he received his PhD in Molecular and Evolutionary Systems Biology from the University of New Hampshire where he studied genome evolution and population dynamics of Staphylococcus species.

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Ryan Bronson
Associate Computational biologist

Ryan is an associate computational biologist interested in the evolution of drug resistance and microbial population genetics. She is currently working on comparative genomics projects to examine determinants of drug resistance in bacteria. Before joining the group, Ryan received a B.S. in Applied Mathematics-Biology from Brown University.

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Lucas Van Dijk
Associate Computational biologist

 

 

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Aysun Urhan
Visiting graduate student

Aysun is a visiting PhD student, currently working on the EnteroGenome project. She is doing her PhD thesis at Delft University of Technology in Thomas Abeel's group, exploring antimicrobial resistance in pathogenic bacteria. She is interested in comparative genomics using pan-genome graphs. Before joining the group, Aysun has received a B.Sc. and M.Sc. in chemical engineering at Bogazici University in Istanbul.

 

Sosie Yorki
Sosie Yorki
Associate Computational Biologist

Sosie is an associate computational biologist who joined the Broad Institute as a part of the Broad Biomedical Post-Baccalaureate Scholars Program. She completed her B.S. in Chemical Engineering at Stanford University, and her previous work includes cloning, drug design and testing, and data visualization. Currently, she is working on metagenomic assembly.

Mark Young
Mark Young
Associate Computational Biologist

Mark is an associate computational biologist interested in the relationship between host and microbiome. He is currently using metatranscriptomics to profile the activity of the gut microbiome of women suffering from recurrent UTIs. Before joining the group, Mark received a B.A. in Statistics and Computational Biology from Colby College. At Colby, he studied the gut microbiome communities of wild bumblebees.

Sushmita Sridhar
Sushmita Sridhar
Postdoctoral Scholar

Sushmita Sridhar is a microbiologist studying antimicrobial resistance in enteric bacteria using a combination of computational and laboratory approaches. Her projects focus on the acquisition and carriage of drug-resistant organisms in international travelers and genomic and phenotypic characterization of drug-resistant Klebsiella pneumoniae from Bangladesh. Before her postdoc, she received her PhD from the University of Cambridge/Wellcome Sanger Institute, where she investigated the bacterial resistance to ciprofloxacin.

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Andrew Van Camp
Visiting student

Andrew is a visiting undergraduate student interested in microbial ecology and the evolution of antibiotic resistance. He is currently working on the EnteroGenome project in collaboration with the Gilmore Lab. He studies Applied Math at Harvard.

 

 

Bruce Walker

Bruce Walker
Visiting Scientist
Thomas Abeel
Visiting Scientist

Thomas Abeel is an Associate Professor at the Department of Intelligent Systems of the Faculty of Electrical Engineering, Mathematics and Computer Science at the TU Delft. He is working with the Broad Bacterial Genomics group on several projects, including methods development projects. Read more

Keira Cohen
Visiting Scientist

 

Sr. Research Scientist
 
 

 

Previous Group Members

Wen-Chi Chou
Postdoctoral Associate
Senior Computational Scientist

Gustavo's research in the bacterial genomics group involved the identification of the genetic causes of infectivity, pathogenicity and resistance to drugs and antibiotics in human and livestock pathogens. He used genotype-phenotype association methods based on gene content difference, single nucleotide polymorphisms and genome structural variants to accomplish that. Gustavo has a Ph.D. in Bioinformatics from the Universidade Federal de Minas Gerais (Brazil) and held positions at The Institute for Genomic Research (TIGR, currently JCVI) and the Institute for Genome Sciences (IGS, University of Maryland School of Medicine), before working at the Broad institute from 2011-2017.  

Senior Computational Biologist

Chris is interested in the genetic basis of pathogenicity and drug resistance in bacteria and fungi, and exploring phylogenetic and other evolutionary methods to uncover these relationships. His recent work focused on the evolution of drug resistance in Mycobacterium tuberculosis and virulence in Cryptococcus neoformans. Chris has a Ph.D. in Entomology from the University of Maryland, College Park and held postdoctoral positions at The Institute for Genomic Research (TIGR, currently JCVI) and the University of Rochester, before working at the Broad institute from 2010-2017.  

Alejandro Pironti
Postdoctoral Associate

Alejandro is interested in precision medicine for infectious disease. He analyses bacterial genomes in order to identify and track the genetic elements that make bacteria resistant or susceptible to antibiotics. Alejandro's current projects focus on the spread of carbapenem resistance in nosocomial Enterobacteriaceae and on the determinants of synergistic effects in antibiotic combinations.  Before joining the Broad Institute, Alejandro performed research in the field of antiretroviral combination therapy. He earned his Ph.D. in Computational Biology at the Max Planck Institute for Informatics (Germany), before working at the Broad Institute from 2016-2021.

Rauf Salamzade
Associate Computational Biologist
Christophe Georgescu
Associate Computational Biologist

Christophe finished his M.Sc. in Bioinformatics at the Université Paris Diderot (France) doing an internship at the Broad Institute in Ashlee Earl’s group, working on a scalable orthogroup clustering algorithm. During his first year of M.Sc., he also did an internship at the TUDelft in Thomas Abeel’s group where he worked on large structural variability in Mycobacterium tuberculosis. His focus is mainly to develop new bioinformatic algorithms 

 

Tim Straub
Associate Computational Biologist