Now showing items 1-7 of 7

  • Bistability in feedback circuits as a byproduct of evolution of evolvability 

    Kuwahara, Hiroyuki; Soyer, Orkun S. (2012)
    Noisy bistable dynamics in gene regulation can underlie stochastic switching and is demonstrated to be beneficial under fluctuating environments. It is not known, however, if fluctuating selection alone can result in ...
  • Emergence and maintenance of functional modules in signaling pathways 

    Soyer, Orkun S. (BioMed Central, 2007)
    Background: While detection and analysis of functional modules in biological systems have received great attention in recent years, we still lack a complete understanding of how such modules emerge. One theory is that ...
  • The evolution of connectivity in metabolic networks. 

    Pfeiffer, Thomas; Soyer, Orkun S.; Bonhoeffer, Sebastian (Public Library of Science, 2005)
    Processes in living cells are the result of interactions between biochemical compounds in highly complex biochemical networks. It is a major challenge in biology to understand causes and consequences of the specific design ...
  • Evolution of response dynamics underlying bacterial chemotaxis 

    Soyer, Orkun S.; Goldstein, Richard A. (BioMed Central, 2011)
    Background: The ability to predict the function and structure of complex molecular mechanisms underlying cellular behaviour is one of the main aims of systems biology. To achieve it, we need to understand the evolutionary ...
  • Evolution of taxis responses in virtual bacteria: non-adaptive dynamics. 

    Goldstein, Richard A.; Soyer, Orkun S. (Public Library of Science, 2008)
    Bacteria are able to sense and respond to a variety of external stimuli, with responses that vary from stimuli to stimuli and from species to species. The best-understood is chemotaxis in the model organism Escherichia ...
  • Evolution under Fluctuating Environments Explains Observed Robustness in Metabolic Networks 

    Soyer, Orkun S.; Pfeiffer, Thomas (Public Library of Science, 2010)
    A high level of robustness against gene deletion is observed in many organisms. However, it is still not clear which biochemical features underline this robustness and how these are acquired during evolution. One hypothesis, ...
  • Response dynamics of phosphorelays suggest their potential utility in cell signalling 

    Csikász-Nagy, Attila; Cardelli, Luca; Soyer, Orkun S. (The Royal Society, 2011)
    Phosphorelays are extended two-component signalling systems found in diverse bacteria, lower eukaryotes and plants. Only few of these systems are characterized, and we still lack a full understanding of their signalling ...