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BMCBI
2011
8 years 6 months ago
Multivariate analysis of microarray data: differential expression and differential connection
Background: Typical analysis of microarray data ignores the correlation between gene expression values. In this paper we present a model for microarray data which specifically all...
Harri T. Kiiveri
BMCBI
2005
88views more  BMCBI 2005»
8 years 11 months ago
Using large-scale perturbations in gene network reconstruction
Background: Recent analysis of the yeast gene network shows that most genes have few inputs, indicating that enumerative gene reconstruction methods are both useful and computatio...
Thomas MacCarthy, Andrew Pomiankowski, Robert Seym...
JCB
2006
83views more  JCB 2006»
8 years 11 months ago
A Discrete-Event Approach to Transcription Control with Dynamic Event-Controllability
This paper presents a discrete-event approach to synthesis of transcription control for a class of (computational) gene networks. Given a set of genes and protein-gene and/or prote...
Peter C. Y. Chen
ESWA
2006
103views more  ESWA 2006»
8 years 11 months ago
Model gene network by semi-fixed Bayesian network
Gene networks describe functional pathways in a given cell or tissue, representing processes such as metabolism, gene expression regulation, and protein or RNA transport. Thus, le...
Tie-Fei Liu, Wing-Kin Sung, Ankush Mittal
BMCBI
2007
171views more  BMCBI 2007»
8 years 11 months ago
Classification of microarray data using gene networks
Background: Microarrays have become extremely useful for analysing genetic phenomena, but establishing a relation between microarray analysis results (typically a list of genes) a...
Franck Rapaport, Andrei Zinovyev, Marie Dutreix, E...
BMCBI
2007
130views more  BMCBI 2007»
8 years 11 months ago
A robust measure of correlation between two genes on a microarray
Background: The underlying goal of microarray experiments is to identify gene expression patterns across different experimental conditions. Genes that are contained in a particula...
Johanna S. Hardin, Aya Mitani, Leanne Hicks, Brian...
BIOSYSTEMS
2007
111views more  BIOSYSTEMS 2007»
8 years 11 months ago
A Markovian approach to the control of genetic regulatory networks
This paper presents an approach for controlling gene networks based on a Markov chain model, where the state of a gene network is represented as a probability distribution, while ...
Peter C. Y. Chen, Jeremy W. Chen
AUTOMATICA
2008
78views more  AUTOMATICA 2008»
8 years 11 months ago
A mathematical framework for the control of piecewise-affine models of gene networks
This article introduces results on the control of gene networks, in the context of piecewise-affine models. We propose an extension of this well-documented class of models, where ...
Etienne Farcot, Jean-Luc Gouzé
ICASSP
2010
IEEE
8 years 11 months ago
Structuring a gene network using a multiresolution independence test
In order to structure a gene network, a score-based approach is often used. A score-based approach, however, is problematic because by assuming a probability distribution, one is ...
Takayuki Yamamoto, Tetsuya Takiguchi, Yasuo Ariki
ISDA
2008
IEEE
9 years 5 months ago
Combining Clustering and Bayesian Network for Gene Network Inference
Gene network reconstruction is a multidisciplinary research area involving data mining, machine learning, statistics, ontologies and others. Reconstructed gene network allows us t...
Suhaila Zainudin, Safaai Deris
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