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
The bacterial toxin colibactin triggers prophage induction.
Authors: Silpe JE, Wong JWH, Owen SV, Baym M, Balskus EP.
Nature
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Prophages encode phage-defense systems with cognate self-immunity.
Authors: Owen SV, Wenner N, Dulberger CL, Rodwell EV, Bowers-Barnard A, Quinones-Olvera N, Rigden DJ, Rubin EJ, Garner EC, Baym M, Hinton JCD.
Cell Host Microbe
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Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification.
Authors: Baaijens JA, Zulli A, Ott IM, Petrone ME, Alpert T, Fauver JR, Kalinich CC, Vogels CBF, Breban MI, Duvallet C, McElroy K, Ghaeli N, Imakaev M, Mckenzie-Bennett M, Robison K, Plocik A, Schilling R, Pierson M, Littlefield R, Spencer M, Simen BB, Hanage WP, Grubaugh ND, Peccia J, Baym M.
medRxiv
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Identification of a pathway for electron uptake in Shewanella oneidensis.
Authors: Rowe AR, Salimijazi F, Trutschel L, Sackett J, Adesina O, Anzai I, Kugelmass LH, Baym MH, Barstow B.
Commun Biol
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Perfect as the enemy of good: tracing transmissions with low-sensitivity tests to mitigate SARS-CoV-2 outbreaks.
Authors: Kennedy-Shaffer L, Baym M, Hanage WP.
Lancet Microbe
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Simplitigs as an efficient and scalable representation of de Bruijn graphs.
Authors: Brinda K, Baym M, Kucherov G.
Genome Biol
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Metastable hybridization-based DNA information storage to allow rapid and permanent erasure.
Authors: Kim J, Bae JH, Baym M, Zhang DY.
Nat Commun
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Barcoded microbial system for high-resolution object provenance.
Authors: Qian J, Lu ZX, Mancuso CP, Jhuang HY, Del Carmen Barajas-Ornelas R, Boswell SA, Ramírez-Guadiana FH, Jones V, Sonti A, Sedlack K, Artzi L, Jung G, Arammash M, Pettit ME, Melfi M, Lyon L, Owen SV, Baym M, Khalil AS, Silver PA, Rudner DZ, Springer M.
Science
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Escape mutations circumvent a tradeoff between resistance to a beta-lactam and resistance to a beta-lactamase inhibitor.
Authors: Russ D, Glaser F, Shaer Tamar E, Yelin I, Baym M, Kelsic ED, Zampaloni C, Haldimann A, Kishony R.
Nat Commun
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Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing.
Authors: Brinda K, Callendrello A, Ma KC, MacFadden DR, Charalampous T, Lee RS, Cowley L, Wadsworth CB, Grad YH, Kucherov G, O'Grady J, Baym M, Hanage WP.
Nat Microbiol
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