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Roy Kishony - Publications

Systems Biology Harvard Medical School, Boston, MA, United States 
system-level architecture of genetic networks

71 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Milman O, Yelin I, Aharony N, Katz R, Herzel E, Ben-Tov A, Kuint J, Gazit S, Chodick G, Patalon T, Kishony R. Community-level evidence for SARS-CoV-2 vaccine protection of unvaccinated individuals. Nature Medicine. PMID 34113015 DOI: 10.1038/s41591-021-01407-5  0.32
2021 Levine-Tiefenbrun M, Yelin I, Katz R, Herzel E, Golan Z, Schreiber L, Wolf T, Nadler V, Ben-Tov A, Kuint J, Gazit S, Patalon T, Chodick G, Kishony R. Initial report of decreased SARS-CoV-2 viral load after inoculation with the BNT162b2 vaccine. Nature Medicine. PMID 33782619 DOI: 10.1038/s41591-021-01316-7  0.32
2020 Snitser O, Russ D, Stone LK, Wang KK, Sharir H, Kozer N, Cohen G, Barr HM, Kishony R. Ubiquitous selection for mecA in community-associated MRSA across diverse chemical environments. Nature Communications. 11: 6038. PMID 33247131 DOI: 10.1038/s41467-020-19825-3  0.6
2020 Yelin I, Aharony N, Shaer Tamar E, Argoetti A, Messer E, Berenbaum D, Shafran E, Kuzli A, Gandali N, Shkedi O, Hashimshony T, Mandel-Gutfreund Y, Halberthal M, Geffen Y, Szwarcwort-Cohen M, ... Kishony R, et al. Evaluation of COVID-19 RT-qPCR test in multi-sample pools. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. PMID 32358960 DOI: 10.1093/Cid/Ciaa531  0.32
2020 Russ D, Glaser F, Shaer Tamar E, Yelin I, Baym M, Kelsic ED, Zampaloni C, Haldimann A, Kishony R. Escape mutations circumvent a tradeoff between resistance to a beta-lactam and resistance to a beta-lactamase inhibitor. Nature Communications. 11: 2029. PMID 32332717 DOI: 10.1038/S41467-020-15666-2  0.6
2020 Andersson DI, Balaban NQ, Baquero F, Courvalin P, Glaser P, Gophna U, Kishony R, Molin S, Tønjum T. Antibiotic resistance: turning evolutionary principles into clinical reality. Fems Microbiology Reviews. PMID 31981358 DOI: 10.1093/Femsre/Fuaa001  0.36
2019 Yelin I, Flett KB, Merakou C, Mehrotra P, Stam J, Snesrud E, Hinkle M, Lesho E, McGann P, McAdam AJ, Sandora TJ, Kishony R, Priebe GP. Genomic and epidemiological evidence of bacterial transmission from probiotic capsule to blood in ICU patients. Nature Medicine. PMID 31700189 DOI: 10.1038/S41591-019-0626-9  0.32
2019 Yelin I, Snitser O, Novich G, Katz R, Tal O, Parizade M, Chodick G, Koren G, Shalev V, Kishony R. Personal clinical history predicts antibiotic resistance of urinary tract infections. Nature Medicine. PMID 31273328 DOI: 10.1038/S41591-019-0503-6  0.32
2019 Kaminski Strauss S, Schirman D, Jona G, Brooks AN, Kunjapur AM, Nguyen Ba AN, Flint A, Solt A, Mershin A, Dixit A, Yona AH, Csörgő B, Busby BP, Hennig BP, Pál C, ... ... Kishony R, et al. Evolthon: A community endeavor to evolve lab evolution. Plos Biology. 17: e3000182. PMID 30925180 DOI: 10.1371/Journal.Pbio.3000182  0.32
2018 Palmer AC, Chait R, Kishony R. Non-optimal gene expression creates latent potential for antibiotic resistance. Molecular Biology and Evolution. PMID 30169679 DOI: 10.1093/Molbev/Msy163  0.48
2018 Yelin I, Kishony R. Antibiotic Resistance. Cell. 172: 1136-1136.e1. PMID 29474914 DOI: 10.1016/j.cell.2018.02.018  0.32
2017 Schultz D, Palmer AC, Kishony R. Regulatory Dynamics Determine Cell Fate following Abrupt Antibiotic Exposure. Cell Systems. PMID 29102611 DOI: 10.1016/J.Cels.2017.10.002  0.32
2017 Chung H, Lieberman TD, Vargas SO, Flett KB, McAdam AJ, Priebe GP, Kishony R. Global and local selection acting on the pathogen Stenotrophomonas maltophilia in the human lung. Nature Communications. 8: 14078. PMID 28102223 DOI: 10.1038/Ncomms14078  0.48
2016 Kelsic ED, Chung H, Cohen N, Park J, Wang HH, Kishony R. RNA Structural Determinants of Optimal Codons Revealed by MAGE-Seq. Cell Systems. 3: 563-571.e6. PMID 28009265 DOI: 10.1016/J.Cels.2016.11.004  0.32
2016 Lieberman TD, Wilson D, Misra R, Xiong LL, Moodley P, Cohen T, Kishony R. Genomic diversity in autopsy samples reveals within-host dissemination of HIV-associated Mycobacterium tuberculosis. Nature Medicine. PMID 27798613 DOI: 10.1038/Nm.4205  0.48
2016 Stone LK, Baym M, Lieberman TD, Chait R, Clardy J, Kishony R. Compounds that select against the tetracycline-resistance efflux pump. Nature Chemical Biology. PMID 27642863 DOI: 10.1038/Nchembio.2176  0.6
2016 Baym M, Lieberman TD, Kelsic ED, Chait R, Gross R, Yelin I, Kishony R. Spatiotemporal microbial evolution on antibiotic landscapes. Science (New York, N.Y.). 353: 1147-51. PMID 27609891 DOI: 10.1126/Science.Aag0822  0.6
2016 Bairey E, Kelsic ED, Kishony R. High-order species interactions shape ecosystem diversity. Nature Communications. 7: 12285. PMID 27481625 DOI: 10.1038/Ncomms12285  0.32
2016 Chait R, Palmer AC, Yelin I, Kishony R. Pervasive selection for and against antibiotic resistance in inhomogeneous multistress environments. Nature Communications. 7: 10333. PMID 26787239 DOI: 10.1038/Ncomms10333  1
2016 Baym M, Stone LK, Kishony R. Multidrug evolutionary strategies to reverse antibiotic resistance. Science (New York, N.Y.). 351: aad3292. PMID 26722002 DOI: 10.1126/Science.Aad3292  1
2015 Wang KK, Stone LK, Lieberman TD, Shavit M, Baasov T, Kishony R. A hybrid drug limits resistance by evading the action of the multiple antibiotic resistance pathway. Molecular Biology and Evolution. PMID 26538141 DOI: 10.1093/Molbev/Msv243  1
2015 Palmer AC, Toprak E, Baym M, Kim S, Veres A, Bershtein S, Kishony R. Delayed commitment to evolutionary fate in antibiotic resistance fitness landscapes. Nature Communications. 6: 7385. PMID 26060115 DOI: 10.1038/Ncomms8385  1
2015 Baym M, Kryazhimskiy S, Lieberman TD, Chung H, Desai MM, Kishony R. Inexpensive multiplexed library preparation for megabase-sized genomes. Plos One. 10: e0128036. PMID 26000737 DOI: 10.1371/Journal.Pone.0128036  1
2015 Kelsic ED, Zhao J, Vetsigian K, Kishony R. Counteraction of antibiotic production and degradation stabilizes microbial communities. Nature. 521: 516-9. PMID 25992546 DOI: 10.1038/Nature14485  1
2015 Selmecki AM, Maruvka YE, Richmond PA, Guillet M, Shoresh N, Sorenson AL, De S, Kishony R, Michor F, Dowell R, Pellman D. Polyploidy can drive rapid adaptation in yeast. Nature. 519: 349-52. PMID 25731168 DOI: 10.1038/Nature14187  1
2015 Baym M, Kryazhimskiy S, Lieberman TD, Chung H, Desai MM, Kishony R. Correction: Inexpensive multiplexed library preparation for megabase-sized genomes Plos One. 10. DOI: 10.1371/journal.pone.0131262  1
2014 Kishony R, Collins JJ. Editorial overview: Antimicrobials: grappling with the complexities of antibiotics and resistance. Current Opinion in Microbiology. 21: v-vi. PMID 25444122 DOI: 10.1016/J.Mib.2014.10.004  1
2014 Kim S, Lieberman TD, Kishony R. Alternating antibiotic treatments constrain evolutionary paths to multidrug resistance. Proceedings of the National Academy of Sciences of the United States of America. 111: 14494-9. PMID 25246554 DOI: 10.1073/Pnas.1409800111  1
2014 Palmer AC, Kishony R. Opposing effects of target overexpression reveal drug mechanisms. Nature Communications. 5: 4296. PMID 24980690 DOI: 10.1038/Ncomms5296  1
2014 Lieberman TD, Flett KB, Yelin I, Martin TR, McAdam AJ, Priebe GP, Kishony R. Genetic variation of a bacterial pathogen within individuals with cystic fibrosis provides a record of selective pressures. Nature Genetics. 46: 82-7. PMID 24316980 DOI: 10.1038/Ng.2848  1
2013 Schultz D, Kishony R. Optimization and control in bacterial lag phase. Bmc Biology. 11: 120. PMID 24377387 DOI: 10.1186/1741-7007-11-120  1
2013 Toprak E, Veres A, Yildiz S, Pedraza JM, Chait R, Paulsson J, Kishony R. Building a morbidostat: an automated continuous-culture device for studying bacterial drug resistance under dynamically sustained drug inhibition. Nature Protocols. 8: 555-67. PMID 23429717 DOI: 10.1038/Nprot.Nprot.2013.021  1
2013 Palmer AC, Kishony R. Understanding, predicting and manipulating the genotypic evolution of antibiotic resistance. Nature Reviews. Genetics. 14: 243-8. PMID 23419278 DOI: 10.1038/Nrg3351  1
2012 Yao Z, Kahne D, Kishony R. Distinct single-cell morphological dynamics under beta-lactam antibiotics. Molecular Cell. 48: 705-12. PMID 23103254 DOI: 10.1016/J.Molcel.2012.09.016  1
2012 Yao Z, Davis RM, Kishony R, Kahne D, Ruiz N. Regulation of cell size in response to nutrient availability by fatty acid biosynthesis in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 109: E2561-8. PMID 22908292 DOI: 10.1073/Pnas.1209742109  1
2012 Skurnik D, Davis MR, Benedetti D, Moravec KL, Cywes-Bentley C, Roux D, Traficante DC, Walsh RL, Maira-Litràn T, Cassidy SK, Hermos CR, Martin TR, Thakkallapalli EL, Vargas SO, McAdam AJ, ... ... Kishony R, et al. Targeting pan-resistant bacteria with antibodies to a broadly conserved surface polysaccharide expressed during infection. The Journal of Infectious Diseases. 205: 1709-18. PMID 22448004 DOI: 10.1093/Infdis/Jis254  1
2012 Ernebjerg M, Kishony R. Distinct growth strategies of soil bacteria as revealed by large-scale colony tracking. Applied and Environmental Microbiology. 78: 1345-52. PMID 22194284 DOI: 10.1128/Aem.06585-11  1
2012 Toprak E, Veres A, Michel JB, Chait R, Hartl DL, Kishony R. Evolutionary paths to antibiotic resistance under dynamically sustained drug selection. Nature Genetics. 44: 101-5. PMID 22179135 DOI: 10.1038/Ng.1034  1
2012 Chait R, Vetsigian K, Kishony R. What counters antibiotic resistance in nature? Nature Chemical Biology. 8: 2-5. PMID 22173342 DOI: 10.1038/Nchembio.745  1
2011 Lieberman TD, Michel JB, Aingaran M, Potter-Bynoe G, Roux D, Davis MR, Skurnik D, Leiby N, LiPuma JJ, Goldberg JB, McAdam AJ, Priebe GP, Kishony R. Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes. Nature Genetics. 43: 1275-80. PMID 22081229 DOI: 10.1038/Ng.997  1
2011 Vetsigian K, Jajoo R, Kishony R. Structure and evolution of Streptomyces interaction networks in soil and in silico. Plos Biology. 9: e1001184. PMID 22039352 DOI: 10.1371/Journal.Pbio.1001184  1
2011 Bollenbach T, Kishony R. Resolution of gene regulatory conflicts caused by combinations of antibiotics. Molecular Cell. 42: 413-25. PMID 21596308 DOI: 10.1016/J.Molcel.2011.04.016  1
2011 Ernebjerg M, Kishony R. Dynamic phenotypic clustering in noisy ecosystems. Plos Computational Biology. 7: e1002017. PMID 21445229 DOI: 10.1371/Journal.Pcbi.1002017  1
2010 Chait R, Shrestha S, Shah AK, Michel JB, Kishony R. A differential drug screen for compounds that select against antibiotic resistance. Plos One. 5: e15179. PMID 21209699 DOI: 10.1371/Journal.Pone.0015179  1
2010 Torella JP, Chait R, Kishony R. Optimal drug synergy in antimicrobial treatments. Plos Computational Biology. 6: e1000796. PMID 20532210 DOI: 10.1371/Journal.Pcbi.1000796  1
2010 DeLuna A, Springer M, Kirschner MW, Kishony R. Need-based up-regulation of protein levels in response to deletion of their duplicate genes. Plos Biology. 8: e1000347. PMID 20361019 DOI: 10.1371/Journal.Pbio.1000347  1
2010 Palmer AC, Angelino E, Kishony R. Chemical decay of an antibiotic inverts selection for resistance. Nature Chemical Biology. 6: 244. PMID 20154670 DOI: 10.1038/Nchembio0310-244A  0.32
2010 Palmer AC, Angelino E, Kishony R. Chemical decay of an antibiotic inverts selection for resistance. Nature Chemical Biology. 6: 105-7. PMID 20081825 DOI: 10.1038/Nchembio.289  1
2009 Bollenbach T, Kishony R. Hydroxyurea triggers cellular responses that actively cause bacterial cell death. Molecular Cell. 36: 728-9. PMID 20005834 DOI: 10.1016/J.Molcel.2009.11.027  1
2009 Chung HS, Yao Z, Goehring NW, Kishony R, Beckwith J, Kahne D. Rapid beta-lactam-induced lysis requires successful assembly of the cell division machinery. Proceedings of the National Academy of Sciences of the United States of America. 106: 21872-7. PMID 19995973 DOI: 10.1073/Pnas.0911674106  1
2009 Bollenbach T, Quan S, Chait R, Kishony R. Nonoptimal microbial response to antibiotics underlies suppressive drug interactions. Cell. 139: 707-18. PMID 19914165 DOI: 10.1016/J.Cell.2009.10.025  1
2009 Bollenbach T, Kishony R. Quiet gene circuit more fragile than its noisy peer. Cell. 139: 460-1. PMID 19879833 DOI: 10.1016/J.Cell.2009.10.005  1
2009 Swoboda JG, Meredith TC, Campbell J, Brown S, Suzuki T, Bollenbach T, Malhowski AJ, Kishony R, Gilmore MS, Walker S. Discovery of a small molecule that blocks wall teichoic acid biosynthesis in Staphylococcus aureus. Acs Chemical Biology. 4: 875-83. PMID 19689117 DOI: 10.1021/Cb900151K  1
2009 Yeh PJ, Hegreness MJ, Aiden AP, Kishony R. Drug interactions and the evolution of antibiotic resistance. Nature Reviews. Microbiology. 7: 460-6. PMID 19444248 DOI: 10.1038/Nrmicro2133  1
2008 Michel JB, Yeh PJ, Chait R, Moellering RC, Kishony R. Drug interactions modulate the potential for evolution of resistance. Proceedings of the National Academy of Sciences of the United States of America. 105: 14918-23. PMID 18815368 DOI: 10.1073/Pnas.0800944105  1
2008 Hegreness M, Shoresh N, Damian D, Hartl D, Kishony R. Accelerated evolution of resistance in multidrug environments. Proceedings of the National Academy of Sciences of the United States of America. 105: 13977-81. PMID 18779569 DOI: 10.1073/Pnas.0805965105  1
2008 Shoresh N, Hegreness M, Kishony R. Evolution exacerbates the paradox of the plankton. Proceedings of the National Academy of Sciences of the United States of America. 105: 12365-9. PMID 18713864 DOI: 10.1073/Pnas.0803032105  1
2008 Pearl S, Gabay C, Kishony R, Oppenheim A, Balaban NQ. Nongenetic individuality in the host-phage interaction. Plos Biology. 6: e120. PMID 18494559 DOI: 10.1371/Journal.Pbio.0060120  1
2008 DeLuna A, Vetsigian K, Shoresh N, Hegreness M, Colón-González M, Chao S, Kishony R. Exposing the fitness contribution of duplicated genes. Nature Genetics. 40: 676-81. PMID 18408719 DOI: 10.1038/Ng.123  1
2008 Presser A, Elowitz MB, Kellis M, Kishony R. The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication. Proceedings of the National Academy of Sciences of the United States of America. 105: 950-4. PMID 18199840 DOI: 10.1073/Pnas.0707293105  1
2007 Chait R, Craney A, Kishony R. Antibiotic interactions that select against resistance. Nature. 446: 668-71. PMID 17410176 DOI: 10.1038/Nature05685  1
2007 Bollenbach T, Vetsigian K, Kishony R. Evolution and multilevel optimization of the genetic code. Genome Research. 17: 401-4. PMID 17351130 DOI: 10.1101/Gr.6144007  1
2007 Yeh P, Kishony R. Networks from drug-drug surfaces. Molecular Systems Biology. 3: 85. PMID 17332759 DOI: 10.1038/Msb4100133  1
2007 Hegreness M, Kishony R. Analysis of genetic systems using experimental evolution and whole-genome sequencing. Genome Biology. 8: 201. PMID 17274841 DOI: 10.1186/Gb-2007-8-1-201  1
2006 Yeh P, Tschumi AI, Kishony R. Functional classification of drugs by properties of their pairwise interactions. Nature Genetics. 38: 489-94. PMID 16550172 DOI: 10.1038/Ng1755  1
2006 Hegreness M, Shoresh N, Hartl D, Kishony R. An equivalence principle for the incorporation of favorable mutations in asexual populations. Science (New York, N.Y.). 311: 1615-7. PMID 16543462 DOI: 10.1126/Science.1122469  1
2005 Kussell E, Kishony R, Balaban NQ, Leibler S. Bacterial persistence: a model of survival in changing environments. Genetics. 169: 1807-14. PMID 15687275 DOI: 10.1534/Genetics.104.035352  1
2005 Segrè D, Deluna A, Church GM, Kishony R. Modular epistasis in yeast metabolism. Nature Genetics. 37: 77-83. PMID 15592468 DOI: 10.1038/Ng1489  1
2003 Kishony R, Leibler S. Environmental stresses can alleviate the average deleterious effect of mutations. Journal of Biology. 2: 14. PMID 12775217 DOI: 10.1186/1475-4924-2-14  1
2001 Kishony R, Shvarts D. Ignition condition and gain prediction for perturbed inertial confinement fusion targets Physics of Plasmas. 8: 4925-4936. DOI: 10.1063/1.1412009  1
1997 Kishony R, Waxman E, Shvarts D. Inertial confinement fusion ignition criteria, critical profiles, and burn wave propagation using self-similar solutions Physics of Plasmas. 4: 1385-1396. DOI: 10.1063/1.872314  1
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