Submissions tagged with systems biology
(28 documents)
Organising metabolic networks: cycles in flux distributions
Metabolic networks are among the most widely studied biological systems. The topology and interconnections of metabolic reactions have been well described for many species, but are not sufficient t…
Received 02 November 2009 16:01 UTC; Posted 02 November 2009
Posted to: Bioinformatics
Systems Biology Graphical Notation: Activity Flow language Level 1
Standard graphical representations have played a crucial role in science and engineering throughout the last century. Without electrical symbolism, it is very likely that our industrial society wou…
Received 05 September 2009 03:20 UTC; Posted 07 September 2009
Posted to: Bioinformatics
Systems Biology Graphical Notation: Process Description language Level 1
Standard graphical representations have played a crucial role in science and engineering throughout the last century. Without electrical symbolism, it is very likely that our industrial society wou…
Received 04 September 2009 22:59 UTC; Posted 07 September 2009
Posted to: Biotechnology, Bioinformatics
Systems Biology Graphical Notation: Entity Relationship language Level 1
Standard graphical representations have played a crucial role in science and engineering throughout the last century. Without electrical symbolism, it is very likely that our industrial society wou…
Received 04 September 2009 07:09 UTC; Posted 04 September 2009
Posted to: Bioinformatics
Modeling reaction-diffusion of molecules on surface and in volume spaces with the E-Cell System
The-Cell System is an advanced open-source simulation platform to model and analyze biochemical reaction networks. The present algorithm modules of the system assume that the reacting molecules are…
Received 31 July 2009 15:41 UTC; Posted 31 July 2009
Posted to: Developmental Biology, Microbiology, Bioinformatics
A simple clustering of the BioModels database using semanticSBML
The BioModels database contains biochemical network models in SBML format, in which the biochemical meaning of elements is specified by MIRIAM-compliant RDF annotations. We used these annotations t…
Received 20 July 2009 15:09 UTC; Posted 20 July 2009
Posted to: Bioinformatics
Transformation of metabolism with age and lifestyle in Antarctic seals: a case study of systems biology approach to cross-species microarray experiment
Background: The metabolic transformation that changes Weddell seal pups born on land into aquatic animals is not only interesting for the study of general biology, but it also provides a model …
Received 28 June 2009 22:57 UTC; Posted 29 June 2009
Posted to: Developmental Biology, Ecology, Bioinformatics
Reconstruction of an in silico metabolic model of Arabidopsis thaliana through database integration
The number of genome-scale metabolic models has been rising quickly in recent years, and the scope of their utilization encompasses a broad range of applications from metabolic engineering to biolo…
Received 02 June 2009 17:33 UTC; Posted 03 June 2009
Posted to: Bioinformatics
Beyond Structure: KiSAO and TEDDY—Two Ontologies Addressing Pragmatical and Dynamical Aspects of Computational Models in Systems Biology
Computational models are becoming more and more the central scientific paradigm for understanding the complexity of living systems. With the increasing number and size of these models there is a gr…
Received 22 April 2009 13:57 UTC; Posted 22 April 2009
Posted to: Molecular Cell Biology, Bioinformatics
ChlamyCyc – a comprehensive database and web-portal centered on Chlamydomonas reinhardtii
Background – The unicellular green alga Chlamydomonas reinhardtii is an important eukaryotic model organism for the study of photosynthesis and growth, as well as flagella development and other…
Received 20 April 2009 23:01 UTC; Posted 21 April 2009
Posted to: Genetics & Genomics, Bioinformatics, Plant Biology
