Please go to the Members page and view our individual websites for a more comprehensive list of our publications. 

Selected Publications


  • Modeling the DynamicRelationship Between HIV and the Risk of Drug-Resistant Tuberculosis., Sergeev R, Colijn C, Murray M, et al, Sci Transl Med, 2012, Vol:4
  • Mitochondrial Variability as a Source of Extrinsic Cellular Noise Iain G. Johnston, Bernadett Gaal, Ricardo Pires das Neves, Tariq Enver, Francisco J. Iborra, Nick S. Jones PLoS Computational Biology 2012 8(3): e1002416. doi:10.1371/journal.pcbi.1002416 
  • Experiments and theory of undulatory locomotion in a simple structured medium., Majmudar T, Keaveny EE, Zhang J, Shelley MJ,  J R Soc Interface, 2012, Vol:9, Pages:1809-1823


  • Ultrasensitivity in multisite phosphorylation of membrane-anchored proteins., Biophys J, Vol:100, Pages:1189-1197
    Dushek O, van der Merwe PA, Shahrezaei V
  • Spontaneous Emergence of MultipleDrug Resistance in Tuberculosis before and during Therapy, Colijn C, Cohen T, Ganesh A, et al,  PLOS ONE, 2011, Vol:6,
  • Applying a second-kind boundary integral equation for surface tractions in Stokes flow, Keaveny EE, Shelley MJ,  Journal of Computational Physics, 2011, Vol:230, Pages:2141-2159
  • Predicting Knot and Catenane Type of Products of Site-Specific Recombination on Twist Knot Substrates Valencia K, Buck B,  Journal of Molecular Biology Volume 411, Issue 2, 12 August 2011, Pages 350–367 


  • Dynamical framework for multiscale community detection in networks: Stability of graph communities across time scales. Delvenne JC, Yaliraki SN, Barahona M, Proc Natl Acad Sci U S A, 2010, Vol:107, Pages:12755-12760
  • Growth-induced mass flows in fungal networksProceedings of the Royal Society B 2010 277, 3265 Luke Heaton, Eduardo Lopez, Philip K. Maini, Mark D. Fricker, Nick S. Jones
  • Taxonomy of DNA Conformations within complex nucleoprotein assemblies
    K. Baker, D. Buck, To appear in Progress in Theoretical Physics (2010)
  • The scaffold protein Ste5 directly controls a switch-like mating decision in yeast.
    M.K. Malleshaiah*, V. Shahrezaei*, P.S. Swain, S.W. Michnick (* co-first author), Nature 465:101-5.
  •  Connect sum lens space surgeries: applications to Hin recombination
      Dorothy Buck, M. Mauricio
  • Revisiting Date and Party Hubs: Novel Approaches to Role Assignment in Protein Interaction Networks  PLoS Computational Biology 2010 6(6):e1000817 Sumeet Agarwal, Charlotte M. Deane, Mason A. Porter, Nick S. Jones
  • Colijn C, Cohen T, Fraser C, et al, What is the mechanism forpersistent coexistence of drug-susceptible and drug-resistant strainsof Streptococcus pneumoniae?, J R Soc Interface, 2010, Vol:7,Pages:905-919
  • Modelling of controllable gene regulatory networks for synthetic biology:
    Strelkowa N, Barahona M, Switchable genetic oscillator operating in quasi-stable mode., J R Soc Interface, 2010, Vol:7, Pages:1071-1082


  • Analytical distributions for stochastic gene expression.
    V. Shahrezaei and P.S. Swain, PNAS, 105:17256-61 (2008)
  • Keaveny EE, Maxey MR, Spiral swimming of an artificial micro-swimmer, Journal of Fluid Mechanics, 2008, Vol:598, Pages:293-319
  • Stochastic effects in gene expression related to cell fate: Transcriptome-wide noise controls lineage choice in mammalian progenitor cells
    Chang HH, Hemberg M, Barahona M, et al, NATURE, 2008, Vol:453, Pages:544-U10, ISSN:0028-0836