Transactions on Computational Systems Biology IX

1. Front Matter

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2. A Quantitative bgl Operon Model for E. coli Requires BglF Conformational Change for Sugar Transport

   • Paras Chopra, Andreas Bender

   Pages 1-22

3. Punctuated Equilibrium in Statistical Models of Generalized Coevolutionary Resilience: How Sudden Ecosystem Transitions Can Entrain Both Phenotype Expression and Darwinian Selection

   • Rodrick Wallace, Deborah Wallace

   Pages 23-85

4. Stochastic Calculus of Looping Sequences for the Modelling and Simulation of Cellular Pathways

   • Roberto Barbuti, Andrea Maggiolo-Schettini, Paolo Milazzo, Paolo Tiberi, Angelo Troina

   Pages 86-113

5. The BlenX Language with Biological Transactions

   • Federica Ciocchetta

   Pages 114-152

6. Back Matter

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The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena. This issue contains four highly detailed papers. The first paper focuses on quantitative aspects of the bgl operon for E.coli. The second contribution deals with ecosystem transitions affecting phenotype expressions and selection mechanisms. The third paper presents the Stochastic Calculus of Looping Sequences (SCLS) suitable for the description of microbiological systems, such as cellular pathways, and their evolution. The final contribution describes the use of biological transactions to make atomic sequences of interactions in the BlenX language.

• Simulation
• blenx
• cellular pathways
• e.coli
• ecosystems
• evolution
• microbiological systems
• modeling
• phenotype
• statistical models
• stochastic calculus
• sugar transport
• Systems Biology
• algorithm analysis and problem complexity

• The Microsoft Research, University of Trento, Centre for Computational and Systems Biology, Povo (TN), Italy

  Corrado Priami

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