Joshua L. Payne

Research Interests

We use computational models and data-driven approaches to understand the design constraints, robustness, and evolution of gene regulation, primarily at the level of transcription.

CV

Education and Professional Positions

2015 - present Junior Group Leader, University of Zurich, Switzerland
2012 - 2015 Postdoctoral Research Fellow, University of Zurich, Switzerland
2012 - 2013 Faculty of the Citizen Science Program, Bard College, NY, USA
2009 - 2011 Postdoctoral Research Fellow, Dartmouth, NH, USA
2009 - 2010 Visiting Scientist, IIASA, Austria
2009 Ph.D., Interaction Topologies and Information Flow, Computer Science, The University of Vermont, VT USA, Advisor: Professor Margaret J. Eppstein
2004 - 2009 Graduate Research Fellow, The University of Vermont, VT, USA
2007 - 2008 Graduate Teaching Assistant, The University of Vermont, VT, USA
2004 M.Eng, Operations Research, Rensselaer Polytechnic Institute, NY USA
2003 B.Sc., Mathematics and Computer Science, Regis University, CO USA
2002 - 2003 Intern, The National Center for Atmospheric Research, CO, USA
2000 - 2003 Mathematics Tutor, Regis University, CO, USA

Selected Publications

  • Payne JL., Wagner A. (2015) Mechanisms of mutational robustness in transcriptional regulation. Frontiers in Genetics, 6(322):online. DOI: 10.3389/fgene.2015.00322
  • Payne JL., Wagner A. (2015) Function does not follow form in gene regulatory circuits. Scientific Reports, 5(13015):online. DOI: 10.1038/srep13015
  • Pechenick DA., Payne JL., Moore JH. (2014) Phenotypic Robust- ness and the Assortativity Signature of Human Transcription Factor Networks. PLoS Computational Biology, 10(8):e1003780. DOI: 10.1371/journal.pcbi.1003780
  • Payne JL., Wagner A. (2014) Latent phenotypes pervade gene regulatory circuits. BMC Systems Biology, 8(64):8:64. DOI: 10.1186/1752-0509-8-64
  • Payne JL., Wagner A. (2014) The robustness and evolvability of transcription factor binding sites. Science, 343(6173):875-877. DOI: 10.1126/science.1249046
  • Payne JL., Moore JH., Wagner A. (2014) Robustness, evolvability, and the logic of genetic regulation. Artificial Life, 20(1):111-126. DOI: 10.1162/ARTL_a_00099
  • Payne JL., Wagner A. (2013) Constraint and contingency in multifunctional gene regulatory circuits. PLoS Computational Biology, 9(6):e1003071. DOI: 10.1371/journal.pcbi.1003071
  • Pechenick DA., Moore JH., Payne JL. (2013) The Influence of Assortativity on the Robustness and Evolvability of Gene Regulatory Networks upon Gene Birth. Journal of Theoretical Biology, 330:26-36. DOI: 10.1016/j.jtbi.2013.03.019
  • Payne JL., Giacobini M. Moore JH. (2013) Complex and Dynamic Population Structures: Synthesis, Open Questions, and Future Directions. Soft Computing, 17, pp. 1109-1120. DOI: 10.1007/s00500-013-0994-x
  • Hu T., Payne, Payne JL., Banzhaf W., Moore JH. (2012) Evolutionary Dynamics on Multiple Scales: A Quantitative Analysis of the Interplay Between Genotype, Phenotype, and Fitness in Linear Genetic Programming. Genetic Program- ming and Evolvable Machines, 13, pp. 305-337. DOI: 10.1007/s10710-012-9159-4
  • Pechenick DA., Payne JL., Moore JH. (2012) The Influence of Assortativity on the Robustness of Signal-Integration Logic in Gene Regulatory Networks. Journal of Theoretical Biology, 296, pp. 21-32. DOI: 10.1016/j.jtbi.2011.11.029