Changes between Version 6 and Version 7 of public


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Timestamp:
Apr 28, 2009, 10:35:49 AM (16 years ago)
Author:
henkel
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    v6 v7  
    66=== About SUMO ===
    77==== General Information ====
    8 The bacterium Escherichia coli is a common inhabitant of the human gut but is also of special interest as a laboratory experimental tool; many decades of study have produced an impressive description of processes essential for life.
     8The bacterium ''Escherichia coli'' is a common inhabitant of the human gut but is also of special interest as a laboratory experimental tool; many decades of study have produced an impressive description of processes essential for life.
    99
    10 However we must now consider how the individual components that make up a biological system work together to produce coherent patterns of behaviour. We have chosen to investigate the responses of E. coli to oxygen availability, because:
     10However we must now consider how the individual components that make up a biological system work together to produce coherent patterns of behaviour. We have chosen to investigate the responses of ''E. coli'' to oxygen availability, because:
    1111
    1212   1. The system is composed of relatively simple modules that participate in complex interactions;
    … …  
    1818This systems approach will reveal new insight into the adaptations that occur in response to changes in oxygen availability and offer opportunities for efficient re-engineering for industrial purposes and target-identification for medical applications. We will collectively obtain and analyse, using commonly agreed protocols, highly reproducible transcriptomic, proteomic, metabolomic and biochemical data sets that describe the dynamics of the response to oxygen. Data sets will be integrated to elaborate predictive mathematical and computer science models in an iterative process of model-based hypothesis generation and experimental design.
    1919
    20 Specifically, we will investigate how this bacterium senses oxygen, or the associated changes in oxidation/reduction balance, via the Fnr and ArcA proteins, how these systems interact with other regulatory systems, and how the redox response of an E. coli population is generated from the responses of single cells. There are five sub-projects to determine system properties and behaviour and three sub-projects to employ different and complementary modelling approaches using published data sets and data emerging from our own work. We will construct increasingly elaborate models of the system at different levels of detail, which will be used to generate new hypotheses and influence further experimental design.
     20Specifically, we will investigate how this bacterium senses oxygen, or the associated changes in oxidation/reduction balance, via the Fnr and ArcA proteins, how these systems interact with other regulatory systems, and how the redox response of an ''E. coli'' population is generated from the responses of single cells. There are five sub-projects to determine system properties and behaviour and three sub-projects to employ different and complementary modelling approaches using published data sets and data emerging from our own work. We will construct increasingly elaborate models of the system at different levels of detail, which will be used to generate new hypotheses and influence further experimental design.
    2121==== Workpackages ====
    2222|| WP1.1 Molecular Interations & Regulatory Modules (Poole & Green) || WP1.2 Carbon & Electron Fluxes (Teixeira de Mattos) || WP13 WP1.3 Isogenic Mutants (Bettenbrock) || WP14 WP1.4 Single Cells (Bettenbrock & Gilles)||
    23 || WP21 WP2.1.1 Agent-based Modelling (Holcombe & Maleki-Dizaji) || WP2.1.2 From Escherichia coli Workflow using Taverna and Web Services (Holcombe & Maleki-Dizaji & Rolfe) ||WP2.2 Reduced-order modelling (Gilles) ||  WP2.3 Detailed Kinetic Modelling (Sauter & Sawodny) ||
     23|| WP21 WP2.1.1 Agent-based Modelling (Holcombe & Maleki-Dizaji) || WP2.1.2 From ''Escherichia coli'' Workflow using Taverna and Web Services (Holcombe & Maleki-Dizaji & Rolfe) ||WP2.2 Reduced-order modelling (Gilles) ||  WP2.3 Detailed Kinetic Modelling (Sauter & Sawodny) ||
    2424==== Personal Pages ====
    2525|| [http://www.shef.ac.uk/mbb Sheffield MBB]          || Robert Poole || Jeff Green || Alison Graham || Matthew Rolfe || ||