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» Modelling Gene Regulatory Networks
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BMCBI
2004
146views more  BMCBI 2004»
14 years 9 months ago
Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data
Background: Functional genomics studies are yielding information about regulatory processes in the cell at an unprecedented scale. In the yeast S. cerevisiae, DNA microarrays have...
Feng Gao, Barrett C. Foat, Harmen J. Bussemaker
CCE
2005
14 years 9 months ago
Large-scale inference of the transcriptional regulation of Bacillus subtilis
This paper addresses the inference of the transcriptional regulatory network of Bacillus subtilis. Two inference approaches, a linear, additive model and a non-linear power-law mo...
Anshuman Gupta, Jeffrey D. Varner, Costas D. Maran...
BMCBI
2006
101views more  BMCBI 2006»
14 years 10 months ago
SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms
Background: The development of algorithms to infer the structure of gene regulatory networks based on expression data is an important subject in bioinformatics research. Validatio...
Tim Van den Bulcke, Koen Van Leemput, Bart Naudts,...
CMSB
2006
Springer
15 years 1 months ago
Randomization and Feedback Properties of Directed Graphs Inspired by Gene Networks
Having in mind the large-scale analysis of gene regulatory networks, we review a graph decimation algorithm, called "leaf-removal", which can be used to evaluate the feed...
M. Cosentino Lagomarsino, P. Jona, B. Bassetti
RECOMB
2005
Springer
15 years 3 months ago
An Interactive Map of Regulatory Networks of Pseudomonas aeruginosa Genome
For studying gene regulatory and protein signaling networks, we have developed an interactive map for the Pseudomonas aeruginosa genome. We first represent genes, proteins and the...
Weihui Wu, Yongling Song, Shouguang Jin, Su-Shing ...