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» Kauffman networks: analysis and applications
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BMCBI
2008
129views more  BMCBI 2008»
13 years 10 months ago
An analytic and systematic framework for estimating metabolic flux ratios from 13C tracer experiments
Background: Metabolic fluxes provide invaluable insight on the integrated response of a cell to environmental stimuli or genetic modifications. Current computational methods for e...
Ari Rantanen, Juho Rousu, Paula Jouhten, Nicola Za...
BMCBI
2006
143views more  BMCBI 2006»
13 years 10 months ago
IsoSVM - Distinguishing isoforms and paralogs on the protein level
Background: Recent progress in cDNA and EST sequencing is yielding a deluge of sequence data. Like database search results and proteome databases, this data gives rise to inferred...
Michael Spitzer, Stefan Lorkowski, Paul Cullen, Al...
BMCBI
2010
183views more  BMCBI 2010»
13 years 7 months ago
The complexity of gene expression dynamics revealed by permutation entropy
Background: High complexity is considered a hallmark of living systems. Here we investigate the complexity of temporal gene expression patterns using the concept of Permutation En...
Xiaoliang Sun, Yong Zou, Victoria J. Nikiforova, J...
NAR
2010
194views more  NAR 2010»
13 years 5 months ago
AltAnalyze and DomainGraph: analyzing and visualizing exon expression data
Alternative splicing is an important mechanism for increasing protein diversity. However, its functional effects are largely unknown. Here, we present our new software workflow co...
Dorothea Emig, Nathan Salomonis, Jan Baumbach, Tho...
TSE
2010
197views more  TSE 2010»
13 years 5 months ago
A Genetic Algorithm-Based Stress Test Requirements Generator Tool and Its Empirical Evaluation
Genetic algorithms (GAs) have been applied previously to UML-driven, stress test requirements generation with the aim of increasing chances of discovering faults relating to networ...
Vahid Garousi