Michael Baym
Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes
M Baym, S Kryazhimskiy, TD Lieberman, H Chung, MM Desai, R Kishony
PLoS ONE 10 (5), e0128036, 2015
Multidrug evolutionary strategies to reverse antibiotic resistance
M Baym, LK Stone, R Kishony
Science 351 (6268), aad3292, 2016
Spatiotemporal microbial evolution on antibiotic landscapes
M Baym, TD Lieberman, ED Kelsic, R Chait, R Gross, I Yelin, R Kishony
Science 353 (6304), 1147-1151, 2016
IsoRankN: spectral methods for global alignment of multiple protein networks
CS Liao, K Lu, M Baym, R Singh, B Berger
Bioinformatics 25 (12), i253-i258, 2009
Engineered bacteria can function in the mammalian gut long-term as live diagnostics of inflammation
DT Riglar, TW Giessen, M Baym, SJ Kerns, MJ Niederhuber, RT Bronson, ...
Nature Biotechnology, 2017
Large-scale identification of genetic design strategies using local search
DS Lun, G Rockwell, NJ Guido, M Baym, JA Kelner, B Berger, JE Galagan, ...
Molecular systems biology 5 (1), 2009
Delayed commitment to evolutionary fate in antibiotic resistance fitness landscapes
AC Palmer, E Toprak, M Baym, S Kim, A Veres, S Bershtein, R Kishony
Nature Communications 6, 7385, 2015
Compressive Genomics
PR Loh, M Baym, B Berger
Nature Biotechnology 30 (7), 627-630, 2012
IsoBase: a database of functionally related proteins across PPI networks
D Park, R Singh, M Baym, CS Liao, B Berger
Nucleic acids research 39 (suppl 1), D295-D300, 2011
Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing
K Břinda, A Callendrello, KC Ma, DR MacFadden, T Charalampous, ...
Nature Microbiology, 1-10, 2020
Prophages encode phage-defense systems with cognate self-immunity
SV Owen, N Wenner, CL Dulberger, EV Rodwell, A Bowers-Barnard, ...
Cell Host & Microbe, 2021
System and Method for Monitoring Potential Spread of an Infectious Agent in an Environment
MH Baym, RA Hyde, MY Ishikawa, CT Tegreene, LL Wood
US Patent App. 13/890,549, 2013
Compressive genomics for protein databases
NM Daniels, A Gallant, J Peng, LJ Cowen, M Baym, B Berger
Bioinformatics 29 (13), i283-i290, 2013
Rapid Construction of a Whole-genome Transposon Insertion Collection for Shewanella oneidensis by Knockout Sudoku
M Baym, L Shaket, IA Anzai, O Adesina, B Barstow
Nature Communications 7, 13270, 2016
The bacterial toxin colibactin triggers prophage induction
JE Silpe, JWH Wong, SV Owen, M Baym, EP Balskus
Nature 603 (7900), 315-320, 2022
Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques
JA Baaijens, A Zulli, IM Ott, I Nika, MJ van der Lugt, ME Petrone, T Alpert, ...
Genome Biology 23 (1), 1-20, 2022
Compounds that select against the tetracycline-resistance efflux pump
LK Stone, M Baym, TD Lieberman, R Chait, J Clardy, R Kishony
Nature Chemical Biology 12 (11), 902-904, 2016
Identification of a pathway for electron uptake in Shewanella oneidensis
AR Rowe, F Salimijazi, L Trutschel, J Sackett, O Adesina, I Anzai, ...
Communications biology 4 (1), 1-10, 2021
Simplitigs as an efficient and scalable representation of de Bruijn graphs
K Břinda, M Baym, G Kucherov
Genome biology 22, 1-24, 2021
Escape mutations circumvent a tradeoff between resistance to a beta-lactam and resistance to a beta-lactamase inhibitor
D Russ, F Glaser, ES Tamar, I Yelin, M Baym, ED Kelsic, C Zampaloni, ...
Nature Communications 11 (1), 1-9, 2020
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