Michael Baym, PhD

Michael Baym, PhD

Associate Professor of Biomedical Informatics

10 Shattuck Street #303, Boston, MA 02115

Baym Lab

Michael Baym received his PhD in Mathematics from MIT and was a postdoctoral fellow at Harvard Medical School in Systems Biology. Baym's research is centered around the problem of antibiotic resistance, at the intersection of experimental, theoretical and computational techniques. His work ranges from understanding the basic mechanisms of evolution to the development of algorithms for computation on massive biological datasets.


DBMI Research Areas
Sustainable solutions to the continuous threat of antimicrobial resistance.
Authors: Spellberg B, Gilbert DN, Baym M, Bearman G, Boyles T, Casadevall A, Forrest GN, Freling S, Ghanem B, Hamilton F, Luna B, Moore J, Musher DM, Nielsen TB, Nori P, Phillips MC, Pirofski LA, Shorr AF, Tong SYC, Lee TC, McDonald EG.
Health Aff Sch
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Genomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics.
Authors: Kaul A, Souque C, Holland M, Baym M.
bioRxiv
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From Petri Dishes to Patients to Populations: Scales and Evolutionary Mechanisms Driving Antibiotic Resistance.
Authors: Souque C, González Ojeda I, Baym M.
Annu Rev Microbiol
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Tracking SARS-CoV-2 variants of concern in wastewater: an assessment of nine computational tools using simulated genomic data.
Authors: Sutcliffe SG, Kraemer SA, Ellmen I, Knapp JJ, Overton AK, Nash D, Nissimov JI, Charles TC, Dreifuss D, Topolsky I, Baykal PI, Fuhrmann L, Jablonski KP, Beerenwinkel N, Levy JI, Olabode AS, Becker DG, Gugan G, Brintnell E, Poon AFY, Valieris R, Drummond RD, Defelicibus A, Dias-Neto E, Rosales RA, Tojal da Silva I, Orfanou A, Psomopoulos F, Pechlivanis N, Pipes L, Chen Z, Baaijens JA, Baym M, Shapiro BJ.
Microb Genom
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Diverse and abundant phages exploit conjugative plasmids.
Authors: Quinones-Olvera N, Owen SV, McCully LM, Marin MG, Rand EA, Fan AC, Martins Dosumu OJ, Paul K, Sanchez Castaño CE, Petherbridge R, Paull JS, Baym M.
Nat Commun
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Changing fitness effects of mutations through long-term bacterial evolution.
Authors: Couce A, Limdi A, Magnan M, Owen SV, Herren CM, Lenski RE, Tenaillon O, Baym M.
Science
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Resolving Deleterious and Near-Neutral Effects Requires Different Pooled Fitness Assay Designs.
Authors: Limdi A, Baym M.
J Mol Evol
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Diverse and Abundant Viruses Exploit Conjugative Plasmids.
Authors: Quinones-Olvera N, Owen SV, McCully LM, Marin MG, Rand EA, Fan AC, Dosumu OJM, Paul K, Castaño CES, Petherbridge R, Paull JS, Baym M.
bioRxiv
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Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression.
Authors: Bå Inda K, Lima L, Pignotti S, Quinones-Olvera N, Salikhov K, Chikhi R, Kucherov G, Iqbal Z, Baym M.
bioRxiv
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A swapped genetic code prevents viral infections and gene transfer.
Authors: Nyerges A, Vinke S, Flynn R, Owen SV, Rand EA, Budnik B, Keen E, Narasimhan K, Marchand JA, Baas-Thomas M, Liu M, Chen K, Chiappino-Pepe A, Hu F, Baym M, Church GM.
Nature
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