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(en) « Network biology: understanding the cell's functional organization », Nature Reviews. Genetics, vol. 5, no 2, , p. 101–13 (PMID14735121, DOI10.1038/nrg1272)
(en) « The pleiotropic structure of the genotype–phenotype map: the evolvability of complex organisms », Nature Reviews. Genetics, vol. 12, no 3, , p. 204–13 (PMID21331091, DOI10.1038/nrg2949)
(en) « Quantitative variation in autocrine signaling and pathway crosstalk in the Caenorhabditis vulval network », Current Biology, vol. 21, no 7, , p. 527–38 (PMID21458263, PMCID3084603, DOI10.1016/j.cub.2011.02.040)
(en) « Network motifs in the transcriptional regulation network of Escherichia coli », Nature Genetics, vol. 31, no 1, , p. 64–8 (PMID11967538, DOI10.1038/ng881)
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Banf et Rhee, « Computational inference of gene regulatory networks: Approaches, limitations and opportunities », Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol. 1860, no 1, , p. 41–52 (ISSN1874-9399, PMID27641093, DOI10.1016/j.bbagrm.2016.09.003)
kent.ac.uk
kar.kent.ac.uk
(en) « Models of transcription factor binding: sensitivity of activation functions to model assumptions », Journal of Theoretical Biology, vol. 257, no 3, , p. 419–29 (PMID19121637, DOI10.1016/j.jtbi.2008.11.026, lire en ligne)
« Inhibitory transcription factors », The International Journal of Biochemistry & Cell Biology, vol. 28, no 9, , p. 965–74 (PMID8930119, DOI10.1016/1357-2725(96)00039-8)
Banf et Rhee, « Computational inference of gene regulatory networks: Approaches, limitations and opportunities », Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol. 1860, no 1, , p. 41–52 (ISSN1874-9399, PMID27641093, DOI10.1016/j.bbagrm.2016.09.003)
« Uniform, optimal signal processing of mapped deep-sequencing data », Nature Biotechnology, vol. 31, no 7, , p. 615–22 (PMID23770639, DOI10.1038/nbt.2596)
(en) « Network biology: understanding the cell's functional organization », Nature Reviews. Genetics, vol. 5, no 2, , p. 101–13 (PMID14735121, DOI10.1038/nrg1272)
(en) « The pleiotropic structure of the genotype–phenotype map: the evolvability of complex organisms », Nature Reviews. Genetics, vol. 12, no 3, , p. 204–13 (PMID21331091, DOI10.1038/nrg2949)
(en) « Quantitative variation in autocrine signaling and pathway crosstalk in the Caenorhabditis vulval network », Current Biology, vol. 21, no 7, , p. 527–38 (PMID21458263, PMCID3084603, DOI10.1016/j.cub.2011.02.040)
(en) « Network motifs in the transcriptional regulation network of Escherichia coli », Nature Genetics, vol. 31, no 1, , p. 64–8 (PMID11967538, DOI10.1038/ng881)
« The incoherent feed-forward loop accelerates the response-time of the gal system of Escherichia coli », Journal of Molecular Biology, vol. 356, no 5, , p. 1073–81 (PMID16406067, DOI10.1016/j.jmb.2005.12.003)
« The coherent feedforward loop serves as a sign-sensitive delay element in transcription networks », Journal of Molecular Biology, vol. 334, no 2, , p. 197–204 (PMID14607112, DOI10.1016/j.jmb.2003.09.049)
« Whole genome, whole population sequencing reveals that loss of signaling networks is the major adaptive strategy in a constant environment », PLOS Genetics, vol. 9, no 11, , e1003972 (PMID24278038, PMCID3836717, DOI10.1371/journal.pgen.1003972)
« The evolution of genetic networks by non-adaptive processes », Nature Reviews. Genetics, vol. 8, no 10, , p. 803–13 (PMID17878896, DOI10.1038/nrg2192)
« Feed-forward loop circuits as a side effect of genome evolution », Molecular Biology and Evolution, vol. 23, no 10, , p. 1931–6 (PMID16840361, DOI10.1093/molbev/msl060)
(en) « Models of transcription factor binding: sensitivity of activation functions to model assumptions », Journal of Theoretical Biology, vol. 257, no 3, , p. 419–29 (PMID19121637, DOI10.1016/j.jtbi.2008.11.026, lire en ligne)
« Metabolic stability and epigenesis in randomly constructed genetic nets », Journal of Theoretical Biology, vol. 22, no 3, , p. 437–67 (PMID5803332, DOI10.1016/0022-5193(69)90015-0)
« Neural model of the genetic network », The Journal of Biological Chemistry, vol. 276, no 39, , p. 36168–73 (PMID11395518, DOI10.1074/jbc.M104391200)
« A general modeling strategy for gene regulatory networks with stochastic dynamics », Journal of Computational Biology, vol. 13, no 9, , p. 1630–9 (PMID17147485, DOI10.1089/cmb.2006.13.1630)
« Evolution and Morphogenesis of Differentiated Multicellular Organisms: Autonomously Generated Diffusion Gradients for Positional Information » () (lire en ligne) — « (ibid.) », dans Artificial Life XI: Proceedings of the Eleventh International Conference on the Simulation and Synthesis of Living Systems, MIT Press