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» Parallel Extreme Pathway Computation for Metabolic Networks
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BMCBI
2005
156views more  BMCBI 2005»
14 years 9 months ago
A new dynamical layout algorithm for complex biochemical reaction networks
Background: To study complex biochemical reaction networks in living cells researchers more and more rely on databases and computational methods. In order to facilitate computatio...
Katja Wegner, Ursula Kummer
NAR
2011
191views Computer Vision» more  NAR 2011»
14 years 7 days ago
ConsensusPathDB: toward a more complete picture of cell biology
ConsensusPathDB is a meta-database that integrates different types of functional interactions from heterogeneous interaction data resources. Physical protein interactions, metabol...
Atanas Kamburov, Konstantin Pentchev, Hanna Galick...
BMCBI
2010
82views more  BMCBI 2010»
14 years 9 months ago
Predicting the network of substrate-enzyme-product triads by combining compound similarity and functional domain composition
Background: Metabolic pathway is a highly regulated network consisting of many metabolic reactions involving substrates, enzymes, and products, where substrates can be transformed...
Lei Chen, Kai-Yan Feng, Yu-Dong Cai, Kuo-Chen Chou...
RECOMB
2004
Springer
15 years 9 months ago
Modeling and Analysis of Heterogeneous Regulation in Biological Networks
Abstract. In this study we propose a novel model for the representation of biological networks and provide algorithms for learning model parameters from experimental data. Our appr...
Irit Gat-Viks, Amos Tanay, Ron Shamir
GD
2005
Springer
15 years 2 months ago
Drawing Clustered Graphs in Three Dimensions
Clustered graph is a very useful model for drawing large and complex networks. This paper presents a new method for drawing clustered graphs in three dimensions. The method uses a ...
Joshua Wing Kei Ho, Seok-Hee Hong