Types of Cellular Networks. Gene Regulatory Networks .
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Transcript of Types of Cellular Networks. Gene Regulatory Networks .
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Types of Cellular Networks
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Gene Regulatory Networks
http://scienceblogs.com/pharyngula/2006/06/modules_and_the_promise_of_the.php
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Gene Regulatory Network Basic Operations
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Protein Signaling Networks
http://www.nature.com/msb/journal/v2/n1/full/msb4100088.html
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Protein Signaling Networks Basic Operations
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Metabolic Networks
http://www.iubmb-nicholson.org/chart.html
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Some Characteristics
Network Speed Purpose ‘Technology’
Gene Slow to medium
Remodeling signaling and metabolic networks
DNA binding to control expression
Protein Medium to fast Signal processing Protein covalent modification and sequestration
Metabolic Fast Manufacturing, energy systems
Enzymes, allosteric control
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Software for Network VisualizationDoes not include ball-stick networks, eg cytoscape
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Gene Regulatory Networks
Biotapestry.org
BioTapestry
Cross-platform,Java, Open Source, SBML?, no simulation
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Metabolic and Protein NetworksJDesigner
Windows,Delphi, open sourceSBML, Part of SBW
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Gene Protein and Metabolic NetworksTinkerCell
tinkercell.com
Cross-platform,Open source, C/C++, Qt, Python,SBML?
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Metabolic and Protein NetworksCellDesigner
Cross-platformWorks with SBW,Java, SBML
http://celldesigner.org