Transcriptional Regulatory Networks in Saccharomyces cerevisiae, Transcriptional regulatory networks in Saccharomyces cerevisiae, pp.799-804, 2002. ,
DOI : 10.1126/science.1075090
Modeling and Simulation of Genetic Regulatory Systems: A Literature Review, Journal of Computational Biology, vol.9, issue.1, pp.67-103, 2002. ,
DOI : 10.1089/10665270252833208
Functional Discovery via a Compendium of Expression Profiles, Cell, vol.102, issue.1, pp.109-126, 2000. ,
DOI : 10.1016/S0092-8674(00)00015-5
Integrating high-throughput and computational data elucidates bacterial networks, Nature, vol.429, issue.6987, pp.92-96, 2004. ,
DOI : 10.1038/nature02456
Cluster analysis and display of genome-wide expression patterns, Proc. Natl Acad. Sci. USA, pp.14863-14868, 1998. ,
DOI : 10.1073/pnas.95.25.14863
Clustering Gene Expression Patterns, Journal of Computational Biology, vol.6, issue.3-4, pp.281-297, 1999. ,
DOI : 10.1089/106652799318274
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.34.5341
Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays, Proc. Natl Acad. Sci. USA, pp.6745-6750, 1999. ,
DOI : 10.1073/pnas.96.12.6745
Genetic network inference: from co-expression clustering to reverse engineering, Bioinformatics, vol.16, issue.8, pp.707-726, 2000. ,
DOI : 10.1093/bioinformatics/16.8.707
Revealing modular organization in the yeast transcriptional network, Nature Genetics, vol.31, pp.370-377, 2002. ,
DOI : 10.1038/ng941
How to infer gene networks from expression profiles, Mol. Syst. Biol, vol.3, p.78, 2007. ,
MUTUAL INFORMATION RELEVANCE NETWORKS: FUNCTIONAL GENOMIC CLUSTERING USING PAIRWISE ENTROPY MEASUREMENTS, Biocomputing 2000, pp.415-426, 2000. ,
DOI : 10.1142/9789814447331_0040
Reverse engineering of regulatory networks in human B cells, Nature Genetics, vol.14, issue.4, pp.382-390, 2005. ,
DOI : 10.1101/gad.906601
ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context, BMC Bioinformatics, vol.7, issue.Suppl 1, p.7, 2006. ,
DOI : 10.1186/1471-2105-7-S1-S7
Large-Scale Mapping and Validation of Escherichia coli Transcriptional Regulation from a Compendium of Expression Profiles, PLoS Biology, vol.280, issue.1, p.8, 2007. ,
DOI : 10.1371/journal.pbio.0050008.sd001
Information-Theoretic Inference of Large Transcriptional Regulatory Networks, EURASIP Journal on Bioinformatics and Systems Biology, vol.6, issue.1, p.79879, 2007. ,
DOI : 10.1162/089976698300017197
Advances to Bayesian network inference for generating causal networks from observational biological data, Bioinformatics, vol.20, issue.18, pp.3594-3603, 2004. ,
DOI : 10.1093/bioinformatics/bth448
Sensitivity and specificity of inferring genetic regulatory interactions from microarray experiments with dynamic Bayesian networks, Bioinformatics, vol.19, issue.17, pp.2271-2282, 2003. ,
DOI : 10.1093/bioinformatics/btg313
Modeling gene expression regulatory networks with the sparse vector autoregressive model, BMC Systems Biology, vol.1, issue.1, p.39, 2007. ,
DOI : 10.1186/1752-0509-1-39
Experimental design for efficient identification of gene regulatory networks using sparse Bayesian models, BMC Systems Biology, vol.1, issue.1, p.51, 2007. ,
DOI : 10.1186/1752-0509-1-51
Inferring genetic networks and identifying compound mode of action via expression profiles Chemogenomic profiling on a genome-wide scale using reverse-engineered gene networks, Science Nat. Biotechnol, vol.301, issue.3, pp.102-105, 2003. ,
A simple and efficient algorithm for gene selection using sparse logistic regression, Bioinformatics, vol.19, issue.17, pp.2246-2253, 2003. ,
DOI : 10.1093/bioinformatics/btg308
The inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo, Genome Biology, vol.7, issue.5, p.36, 2006. ,
DOI : 10.1186/gb-2006-7-5-r36
Regression shrinkage and selection via the lasso, J. R. Stat. Soc. B, vol.58, pp.267-288, 1996. ,
Functional interaction of bold -catenin with the transcription factor LEF-1, Nature, vol.328, pp.638-642, 1996. ,
Fnr-, NarP- and NarL-Dependent Regulation of Transcription Initiation from the Haemophilus influenzae Rd napF (Periplasmic Nitrate Reductase) Promoter in Escherichia coli K-12, Journal of Bacteriology, vol.187, issue.20, pp.6928-6935, 2005. ,
DOI : 10.1128/JB.187.20.6928-6935.2005
Synthetic microarray data generation with RANGE and NEMO, Bioinformatics, vol.24, issue.1, pp.132-134, 2008. ,
DOI : 10.1093/bioinformatics/btm529
RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions, Nucleic Acids Research, vol.34, issue.90001, p.394, 2006. ,
DOI : 10.1093/nar/gkj156
Entropy and Information Theory, 1990. ,
The mutual information: Detecting and evaluating dependencies between variables, Bioinformatics, vol.18, issue.Suppl 2, pp.231-240, 2002. ,
DOI : 10.1093/bioinformatics/18.suppl_2.S231
Estimating mutual information using B-spline functions ? an improved similarity measure for analysing gene expression data, BMC Bioinformatics, vol.5, issue.1, p.118, 2004. ,
DOI : 10.1186/1471-2105-5-118
Applied Multiple Regression/Correlation Analysis for the Behavioral Sciences, 2003. ,
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models, Bioinformatics, vol.19, issue.4, pp.524-531, 2003. ,
DOI : 10.1093/bioinformatics/btg015
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks, Genome Research, vol.13, issue.11, pp.2498-2504, 2003. ,
DOI : 10.1101/gr.1239303
Analyzing time series gene expression data, Bioinformatics, vol.20, issue.16, pp.2493-2503, 2004. ,
DOI : 10.1093/bioinformatics/bth283
Co-expression pattern from DNA microarray experiments as a tool for operon prediction, Nucleic Acids Research, vol.30, issue.13, pp.2886-2893, 2002. ,
DOI : 10.1093/nar/gkf388
Statistics Notes: Diagnostic tests 1: sensitivity and specificity, BMJ, vol.308, issue.6943, p.1552, 1994. ,
DOI : 10.1136/bmj.308.6943.1552
URL : http://www.bmj.com/cgi/content/short/308/6943/1552
Statistics Notes: Diagnostic tests 2: predictive values, BMJ, vol.309, issue.6947, p.102, 1994. ,
DOI : 10.1136/bmj.309.6947.102
Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata, Nucleic Acids Research, vol.36, issue.Database, pp.866-870, 2008. ,
DOI : 10.1093/nar/gkm815
Exploration, normalization, and summaries of high density oligonucleotide array probe level data, Biostatistics, vol.4, issue.2, pp.249-264, 2003. ,
DOI : 10.1093/biostatistics/4.2.249
The EcoCyc Database, Nucleic Acids Research, vol.30, issue.1, pp.56-58, 2002. ,
DOI : 10.1093/nar/30.1.56
Evolvability and hierarchy in rewired bacterial gene networks, Nature, vol.57, issue.7189, pp.840-845, 2008. ,
DOI : 10.1038/nature06847
A novel method for accurate operon predictions in all sequenced prokaryotes, Nucleic Acids Research, vol.33, issue.3, pp.880-892, 2005. ,
DOI : 10.1093/nar/gki232
Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks, BMC Bioinformatics, vol.7, issue.1, p.280, 2006. ,
DOI : 10.1186/1471-2105-7-280
SIRENE: supervised inference of regulatory networks, Bioinformatics, vol.24, issue.16, pp.76-82, 2008. ,
DOI : 10.1093/bioinformatics/btn273
URL : https://hal.archives-ouvertes.fr/hal-00259119
Reconstruction of genetic circuits, Nature, vol.426, issue.7067, pp.443-448, 2005. ,
DOI : 10.1038/nature04335