J. Kondev

Most-cited papers

Regulation of noise in gene expression.
Alvaro Sanchez, S. Choubey, J. Kondev
2013Annual Review of Biophysics198 citations
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Strong intranucleoid interactions organize the Escherichia coli chromosome into a nucleoid filament
Paul A. Wiggins, Keith C. Cheveralls, Joshua S. Martin, Robert E. Lintner +1 more
2010Proceedings of the National Academy of Sciences of the United States of America168 citations Open access
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Effect of Promoter Architecture on the Cell-to-Cell Variability in Gene Expression
Alvaro Sanchez, Hernan G. Garcia, Daniel L. Jones, R. Phillips +1 more
2010PLoS Comput. Biol.161 citations Open access
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Complex signal processing in synthetic gene circuits using cooperative regulatory assemblies
C. J. Bashor, Nikit Patel, S. Choubey, A. Beyzavi +3 more
2019Science123 citations Open access
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Fundamental limits on the rate of bacterial growth and their influence on proteomic composition
Nathan M. Belliveau, Griffin Chure, Christina L. Hueschen, Hernan G. Garcia +4 more
2021Cell Systems102 citations Open access
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Synergy between Cyclase-associated protein and Cofilin accelerates actin filament depolymerization by two orders of magnitude
S. Shekhar, Johnson Chung, J. Kondev, J. Gelles +1 more
2019Nature Communications94 citations Open access
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Operator Sequence Alters Gene Expression Independently of Transcription Factor Occupancy in Bacteria
Hernan G. Garcia, Alvaro Sanchez, J. Boedicker, Melisa L. Osborne +3 more
2012Cell Reports79 citations Open access
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Deciphering Transcriptional Dynamics In Vivo by Counting Nascent RNA Molecules
S. Choubey, J. Kondev, Alvaro Sanchez
2013PLoS Comput. Biol.69 citations Open access
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Reduced amino acid alphabets exhibit an improved sensitivity and selectivity in fold assignment
Eric L. Peterson, J. Kondev, J. Theriot, R. Phillips
2009Bioinform.69 citations Open access
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Design Principles of Length Control of Cytoskeletal Structures
Lishibanya Mohapatra, B. Goode, P. Jelenkovic, R. Phillips +1 more
2016Annual Review of Biophysics68 citations Open access
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Bacterial RNA polymerase can retain σ70 throughout transcription
Timothy T. Harden, C. Wells, L. Friedman, R. Landick +3 more
2016Proceedings of the National Academy of Sciences of the United States of America67 citations Open access
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Thermodynamics of Biological Processes
Hernan G. Garcia, J. Kondev, Nigel Orme, J. Theriot +1 more
2011Methods in Enzymology67 citations Open access
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Stochastic models of transcription: from single molecules to single cells.
Alvaro Sanchez, S. Choubey, J. Kondev
2013Methods59 citations
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A general mechanism for competitor-induced dissociation of molecular complexes
Thayaparan Paramanathan, D. Reeves, L. Friedman, J. Kondev +1 more
2014Nature Communications49 citations Open access
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The Limiting Pool Mechanism Fails to Control the Size of Multiple Organelles
Lishibanya Mohapatra, Thibaut J. Lagny, David Harbage, P. Jelenkovic +1 more
2017Cell Systems44 citations Open access
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Transcription by the Numbers Redux: Experiments and Calculations that Surprise
Hernan G. Garcia, Alvaro Sanchez, T. Kuhlman, J. Kondev +1 more
2010Trends in Cell Biology43 citations Open access
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Yeast ATM and ATR kinases use different mechanisms to spread histone H2A phosphorylation around a DNA double-strand break
Kevin Li, Gabriel Bronk, J. Kondev, J. Haber
2020Proceedings of the National Academy of Sciences of the United States of America40 citations Open access
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Mechanism of transcriptional repression at a bacterial promoter by analysis of single molecules
Alvaro Sanchez, Melisa L. Osborne, L. Friedman, J. Kondev +1 more
2011EMBO Journal40 citations Open access
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Length-dependent disassembly maintains four different flagellar lengths in Giardia
S. McInally, J. Kondev, S. Dawson
2019bioRxiv39 citations Open access
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Alternative transcription cycle for bacterial RNA polymerase
Timothy T. Harden, Karina S. Herlambang, Mathew Chamberlain, Jean-Benoît Lalanne +6 more
2019Nature Communications38 citations Open access
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Non-genetic variability in microbial populations: survival strategy or nuisance?
Ethan Levien, Jiseon Min, J. Kondev, A. Amir
2020Reports on progress in physics. Physical Society35 citations Open access
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Antenna Mechanism of Length Control of Actin Cables
Lishibanya Mohapatra, B. Goode, J. Kondev
2014PLoS Comput. Biol.32 citations Open access
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Dynamics of Homology Searching During Gene Conversion in Saccharomyces cerevisiae Revealed by Donor Competition
É. Coïc, Joshua S. Martin, Taehyun Ryu, Sue Yen Tay +2 more
2011Genetics31 citations Open access
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Effect of Chromosome Tethering on Nuclear Organization in Yeast
Barış Avşaroğlu, Gabriel Bronk, Susannah Gordon-Messer, Jungoh Ham +3 more
2014PLoS ONE30 citations Open access
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Length regulation of multiple flagella that self-assemble from a shared pool of components
Thomas G. Fai, Lishibanya Mohapatra, Prathitha Kar, J. Kondev +1 more
2018bioRxiv29 citations Open access
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Lattice model of diffusion-limited bimolecular chemical reactions in confined environments.
J. Schmit, Ercan Kamber, J. Kondev
2009Physical Review Letters25 citations Open access
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Analysis of biological noise in the flagellar length control system
David Bauer, Hiroaki Ishikawa, Kimberly A. Wemmer, Nathan L. Hendel +2 more
2021iScience24 citations Open access
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Cooperators trade off ecological resilience and evolutionary stability in public goods games
Joseph Rauch, J. Kondev, Alvaro Sanchez
2017Journal of the Royal Society Interface24 citations Open access
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The interplay of phenotypic variability and fitness in finite microbial populations
Ethan Levien, J. Kondev, A. Amir
2020Journal of the Royal Society Interface21 citations Open access
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Scaling of subcellular actin structures with cell length through decelerated growth
S. McInally, J. Kondev, B. Goode
2021eLife20 citations Open access
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Regulation of biochemical reaction rates by flexible tethers.
D. Reeves, Keith C. Cheveralls, J. Kondev
2011Physical review. E, Statistical, nonlinear, and soft matter physics18 citations Open access
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Chromosome-refolding model of mating-type switching in yeast
Barış Avşaroğlu, Gabriel Bronk, Kevin Li, J. Haber +1 more
2016Proceedings of the National Academy of Sciences of the United States of America15 citations Open access
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Bacterial decision making
J. Kondev
201415 citations Open access
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Distribution of Initiation Times Reveals Mechanisms of Transcriptional Regulation in Single Cells.
S. Choubey, J. Kondev, Alvaro Sanchez
2018Biophysical Journal14 citations Open access
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Recycling of bacterial RNA polymerase by the Swi2/Snf2 ATPase RapA
Koe Inlow, Debora Tenenbaum, L. Friedman, J. Kondev +1 more
2023Proceedings of the National Academy of Sciences of the United States of America13 citations Open access
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Quantitative Analysis of Actin Cable Length in Yeast.
S. McInally, J. Kondev, Bruce L. Goode
2022Bio-protocol9 citations Open access
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Universal length fluctuations of actin structures found in cells
Aldric Rosario, S. McInally, P. Jelenkovic, B. Goode +1 more
2025bioRxiv8 citations Open access
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RNA polymerase sliding on DNA can couple the transcription of nearby bacterial operons
Debora Tenenbaum, Koe Inlow, L. Friedman, Anthony Cai +2 more
2023Proceedings of the National Academy of Sciences of the United States of America7 citations Open access
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Recycling of Bacterial RNA Polymerase by the Swi2/Snf2 ATPase RapA
Koe Inlow, Debora Tenenbaum, L. Friedman, J. Kondev +1 more
2023bioRxiv7 citations Open access
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RNA polymerase sliding on DNA can couple the transcription of nearby bacterial operons
Debora Tenenbaum, Koe Inlow, L. Friedman, Anthony Cai +2 more
2023bioRxiv7 citations Open access
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Fundamental limits on the rate of bacterial growth
Nathan M. Belliveau, Grifin Chure, Christina L. Hueschen, Hernan G. Garcia +4 more
2020bioRxiv6 citations Open access
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Biological Processes as Exploratory Dynamics
J. Kondev, Marc W. Kirschner, Hernan G. Garcia, Gabriel L. Salmon +1 more
2025bioRxiv5 citations Open access
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Control of filament length by a depolymerizing gradient
Arnab Datta, David Harbage, J. Kondev
2020bioRxiv5 citations Open access
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The Science of Living Matter for Tomorrow.
G. Bauer, N. Fakhri, A. Kicheva, J. Kondev +6 more
2018Cell Systems5 citations Open access
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Analysis of Biological Noise in an Organelle Size Control System
David Bauer, Hiroaki Ishikawa, Kimberly A. Wemmer, J. Kondev +1 more
2020bioRxiv4 citations Open access
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How to assemble a scale-invariant gradient
Arnab Datta, Sagnik Ghosh, J. Kondev
2021bioRxiv3 citations Open access
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Whither Physical Biology
R. Phillips, J. Kondev, J. Theriot, Hernan G. Garcia
20123 citations
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Electrostatics for Salty Solutions
R. Phillips, J. Kondev, J. Theriot, Hernan G. Garcia
20123 citations
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Scaling of subcellular structures with cell length through decelerated growth
S. McInally, J. Kondev, B. Goode
2021bioRxiv2 citations Open access
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A Probabilistic Approach to Growth Networks
P. Jelenkovic, J. Kondev, Lishibanya Mohapatra, P. Momčilović
2020Operational Research2 citations Open access
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