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» Semantics of Biological Regulatory Networks
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ISBRA
2010
Springer
13 years 6 months ago
Analysis of Gene Interactions Using Restricted Boolean Networks and Time-Series Data
A popular model for gene regulatory networks is the Boolean network model. In this paper, we propose an algorithm to perform an analysis of gene regulatory interactions using the B...
Carlos H. A. Higa, Vitor H. P. Louzada, Ronaldo Fu...
BIB
2010
129views more  BIB 2010»
13 years 7 months ago
Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology
PathwayTools is a production-quality software environment for creating a type of model-organism database called a Pathway/Genome Database (PGDB). A PGDB such as EcoCyc integrates ...
Peter D. Karp, Suzanne M. Paley, Markus Krummenack...
BMCBI
2006
129views more  BMCBI 2006»
13 years 7 months ago
Functional clustering of yeast proteins from the protein-protein interaction network
Background: The abundant data available for protein interaction networks have not yet been fully understood. New types of analyses are needed to reveal organizational principles o...
Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jerni...
RECOMB
2007
Springer
14 years 8 months ago
Network Motif Discovery Using Subgraph Enumeration and Symmetry-Breaking
The study of biological networks and network motifs can yield significant new insights into systems biology. Previous methods of discovering network motifs ? network-centric subgra...
Joshua A. Grochow, Manolis Kellis
BMCBI
2011
13 years 2 months ago
Motif-guided sparse decomposition of gene expression data for regulatory module identification
Background: Genes work coordinately as gene modules or gene networks. Various computational approaches have been proposed to find gene modules based on gene expression data; for e...
Ting Gong, Jianhua Xuan, Li Chen, Rebecca B. Riggi...