Joshua L. Payne

Most-cited papers

The causes of evolvability and their evolution
Joshua L. Payne, A. Wagner
2018Nature reviews genetics308 citations Open access
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The Robustness and Evolvability of Transcription Factor Binding Sites
Joshua L. Payne, A. Wagner
2014Science159 citations Open access
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Cryptic genetic variation accelerates evolution by opening access to diverse adaptive peaks
Jia Zheng, Joshua L. Payne, A. Wagner
2019Science117 citations Open access
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A thousand empirical adaptive landscapes and their navigability
José Aguilar-Rodríguez, Joshua L. Payne, A. Wagner
2017Nature Ecology &Evolution99 citations Open access
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Mechanisms of mutational robustness in transcriptional regulation
Joshua L. Payne, A. Wagner
2015Frontiers in Genetics93 citations Open access
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From genotypes to organisms: State-of-the-art and perspectives of a cornerstone in evolutionary dynamics.
S. Manrubia, J. Cuesta, Jacobo Aguirre, S. Ahnert +14 more
2020Physics of Life Reviews88 citations Open access
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Transition bias influences the evolution of antibiotic resistance in Mycobacterium tuberculosis
Joshua L. Payne, F. Menardo, Andrej Trauner, S. Borrell +4 more
2018bioRxiv58 citations Open access
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Robustness, Evolvability, and the Logic of Genetic Regulation
Joshua L. Payne, Jason H. Moore, A. Wagner
2013Artificial Life57 citations Open access
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Mutation bias shapes the spectrum of adaptive substitutions
A. V. Cano, Hana Rozhoňová, A. Stoltzfus, David M. McCandlish +1 more
2021Proceedings of the National Academy of Sciences of the United States of America56 citations Open access
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Information cascades on degree-correlated random networks.
Joshua L. Payne, P. Dodds, M. Eppstein
2009Physical review. E, Statistical, nonlinear, and soft matter physics53 citations
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Analysis of a threshold model of social contagion on degree-correlated networks.
P. Dodds, Joshua L. Payne
2009Physical review. E, Statistical, nonlinear, and soft matter physics46 citations Open access
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Enhancers Facilitate the Birth of De Novo Genes and Gene Integration into Regulatory Networks
Paco Majic, Joshua L. Payne
2019Molecular biology and evolution44 citations Open access
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Function does not follow form in gene regulatory circuits
Joshua L. Payne, A. Wagner
2015Scientific Reports43 citations Open access
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Evolutionary Dynamics on Scale-Free Interaction Networks
Joshua L. Payne, M. Eppstein
2009IEEE Transactions on Evolutionary Computation43 citations
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Constraint and Contingency in Multifunctional Gene Regulatory Circuits
Joshua L. Payne, A. Wagner
2013PLoS Comput. Biol.37 citations Open access
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The architecture of an empirical genotype‐phenotype map
José Aguilar-Rodríguez, Leto Peel, Massimo Stella, A. Wagner +1 more
2018Evolution; international journal of organic evolution34 citations Open access
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RNA-mediated gene regulation is less evolvable than transcriptional regulation
Joshua L. Payne, F. Khalid, A. Wagner
2018Proceedings of the National Academy of Sciences of the United States of America33 citations Open access
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Mutation bias and the predictability of evolution
A. V. Cano, B. L. Gitschlag, Hana Rozhoňová, A. Stoltzfus +2 more
2023Philosophical Transactions of the Royal Society of London. Biological Sciences31 citations Open access
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Evolutionary dynamics on multiple scales: a quantitative analysis of the interplay between genotype, phenotype, and fitness in linear genetic programming
T. Hu, Joshua L. Payne, W. Banzhaf, Jason H. Moore
2012Genetic Programming and Evolvable Machines30 citations
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Robustness, Evolvability, and Accessibility in Linear Genetic Programming
T. Hu, Joshua L. Payne, W. Banzhaf, Jason H. Moore
2011European Conference on Genetic Programming30 citations Open access
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Genomic mining for complex disease traits with “random chemistry”
M. Eppstein, Joshua L. Payne, Bill C. White, Jason H. Moore
2007Genetic Programming and Evolvable Machines29 citations
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Mutation bias interacts with composition bias to influence adaptive evolution
A. V. Cano, Joshua L. Payne
2020bioRxiv28 citations Open access
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The evolution of conditional dispersal and reproductive isolation along environmental gradients
Joshua L. Payne, R. Mazzucco, U. Dieckmann
2010Journal of Theoretical Biology28 citations Open access
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Exploiting Graphics Processing Units for Computational Biology and Bioinformatics
Joshua L. Payne, Nicholas A. Sinnott-Armstrong, Jason H. Moore
2010Interdisciplinary Sciences Computational Life Sciences26 citations Open access
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Emergent mating topologies in spatially structured genetic algorithms
Joshua L. Payne, M. Eppstein
2006Annual Conference on Genetic and Evolutionary Computation25 citations
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A hybrid genetic algorithm with pattern search for finding heavy atoms in protein crystals
Joshua L. Payne, M. Eppstein
2005Annual Conference on Genetic and Evolutionary Computation23 citations
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Environment-dependent epistasis increases phenotypic diversity in gene regulatory networks
F. Baier, F. Gauye, R. Pérez-Carrasco, Joshua L. Payne +1 more
2022bioRxiv22 citations Open access
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Complex and dynamic population structures: Synthesis, open questions, and future directions
Joshua L. Payne, M. Giacobini, Jason H. Moore
2013Soft Computing - A Fusion of Foundations, Methodologies and Applications21 citations Open access
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Latent phenotypes pervade gene regulatory circuits
Joshua L. Payne, A. Wagner
2014BMC Systems Biology18 citations Open access
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The Influence of Assortativity on the Robustness of Signal-Integration Logic in Gene Regulatory Networks
Dov A. Pechenick, Joshua L. Payne, Jason H. Moore
2011Journal of Theoretical Biology18 citations Open access
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On the incongruence of genotype-phenotype and fitness landscapes
Malvika Srivastava, Joshua L. Payne
2022PLoS Comput. Biol.16 citations Open access
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Robust genetic codes enhance protein evolvability
Hana Rozhoňová, Carlos Martí-Gómez, David M. McCandlish, Joshua L. Payne
2024PLoS Biology15 citations Open access
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Exact solutions for social and biological contagion models on mixed directed and undirected, degree-correlated random networks
Joshua L. Payne, K. Harris, P. Dodds
2011Physical review. E, Statistical, nonlinear, and soft matter physics15 citations Open access
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Takeover times on scale-free topologies
Joshua L. Payne, M. Eppstein
2007Annual Conference on Genetic and Evolutionary Computation15 citations
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Genonets server—a web server for the construction, analysis and visualization of genotype networks
F. Khalid, José Aguilar-Rodríguez, A. Wagner, Joshua L. Payne
2016Nucleic Acids Res.14 citations Open access
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The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth
Dov A. Pechenick, Jason H. Moore, Joshua L. Payne
2013European Conference on Artificial Life14 citations Open access
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The influence of scaling and assortativity on takeover times in scale-free topologies
Joshua L. Payne, M. Eppstein
2008Annual Conference on Genetic and Evolutionary Computation14 citations
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Phenotypic Robustness and the Assortativity Signature of Human Transcription Factor Networks
Dov A. Pechenick, Joshua L. Payne, Jason H. Moore
2014PLoS Comput. Biol.12 citations Open access
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Evolutionary dynamics on multiple scales: a quantitative analysis of the interplay between genotype, phenotype, and fitness in linear genetic programming
T. Hu, Joshua L. Payne, W. Banzhaf, Jason H. Moore
2012Genetic Programming and Evolvable Machines12 citations
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Sensible Initialization of a Computational Evolution System Using Expert Knowledge for Epistasis Analysis in Human Genetics
Joshua L. Payne, C. Greene, D. P. Hill, Jason H. Moore
201012 citations
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Underdominance, multiscale interactions, and self-organizing barriers to gene flow
M. Eppstein, Joshua L. Payne, C. Goodnight
200912 citations Open access
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Direct, physically-motivated derivation of the contagion condition for spreading processes on generalized random networks
P. Dodds, K. Harris, Joshua L. Payne
2011Physical review. E, Statistical, nonlinear, and soft matter physics10 citations Open access
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Sensitivity of Self-Organized Speciation to Long-Disctance Dispersal
Joshua L. Payne, M. Eppstein, Chad Goodnight
2007IEEE Symposium on Artificial Life9 citations
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Developmental Selection and the Perception of Mutation Bias
Paco Majic, Joshua L. Payne
2023Molecular biology and evolution8 citations Open access
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Mutation and selection induce correlations between selection coefficients and mutation rates
B. L. Gitschlag, A. V. Cano, Joshua L. Payne, David M. McCandlish +1 more
2023bioRxiv8 citations Open access
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Exploiting Expert Knowledge of Protein-Protein Interactions in a Computational Evolution System for Detecting Epistasis
K. Pattin, Joshua L. Payne, D. P. Hill, Thomas A. Caldwell +2 more
20117 citations
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Robustness, evolvability, and accessibility in the signal-integration space of gene regulatory circuits
Joshua L. Payne, Jason H. Moore
2011European Conference on Artificial Life7 citations
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Pair Approximations of Takeover Dynamics in Regular Population Structures
Joshua L. Payne, M. Eppstein
2009Evolutionary Computation6 citations
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Using pair approximations to predict takeover dynamics in spatially structured populations
Joshua L. Payne, M. Eppstein
2007Annual Conference on Genetic and Evolutionary Computation6 citations
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Alphabet cardinality and adaptive evolution
Malvika Srivastava, Hana Rozhoňová, Joshua L. Payne
2023Journal of Physics A: Mathematical and Theoretical5 citations Open access
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