Francois Kepes

Summary

Country: France

Publications

  1. ncbi Modelling macromolecular networks: two meetings in Paris, July, 2002
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS ESA8071 genopole, Evry, France
    Bioessays 24:1188-90. 2002
  2. ncbi Membrane traffic in virtual reality
    Francois Kepes
    Dynamique de la Compartimentation Cellulaire, Institut des Sciences du Vegetal, CNRS UPR2355, Gif sur Yvette and ATelier de Génomique Cognitive, CNRS ESA8071 genopole R, Evry, France
    Traffic 4:13-7. 2003
  3. ncbi Secretory compartments as instances of dynamic self-evolving structures
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS ESA8071 genopole, 523 Terrasses de l Agora, 91000 Evry, France
    Acta Biotheor 50:209-21. 2002
  4. ncbi Periodic epi-organization of the yeast genome revealed by the distribution of promoter sites
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS UMR8071 genopole, 523 Terrasses de l Agora, 91000 Evry, France
    J Mol Biol 329:859-65. 2003
  5. ncbi Periodic transcriptional organization of the E.coli genome
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS UMR8071 genopole, Evry, France
    J Mol Biol 340:957-64. 2004
  6. ncbi [Epigenetics as an aspect of post-genomics]
    Francois Kepes
    Programme d Epigénomique, Genopole, ATelier de Génomique Cognitive, CNRS UMR 8071 Genopole, 93, rue Henri Rochefort, 91000 Evry, France
    Med Sci (Paris) 21:371-6. 2005
  7. ncbi Transcription/replication collisions cause bacterial transcription units to be longer on the leading strand of replication
    Nicolas Omont
    ATGC, CNRS UMR 8071 Genopole, 523 Terrasses de l Agora, 91000 Evry, France
    Bioinformatics 20:2719-25. 2004
  8. ncbi Effects of brefeldin A and nordihydroguaiaretic acid on endomembrane dynamics and lipid synthesis in plant cells
    Patricia Merigout
    Laboratoire de Dynamique de la Compartimentation Cellulaire, Institut des Sciences du Vegetal, CNRS UPR 2355, 91198 Cedex, Gif sur Yvette, France
    FEBS Lett 518:88-92. 2002
  9. ncbi Topological and causal structure of the yeast transcriptional regulatory network
    Nabil Guelzim
    ATelier de Génomique Cognitive, Centre National de la Recherche Scientifique ESA 8071, Genopole R, 523 Terrasses de l Agora, 91000 Evry, France
    Nat Genet 31:60-3. 2002
  10. pmc PreCisIon: PREdiction of CIS-regulatory elements improved by gene's positION
    Mohamed Elati
    Institute of Systems and Synthetic Biology, CNRS, University of Evry, Genopole, 91030 Evry, France
    Nucleic Acids Res 41:1406-15. 2013

Collaborators

Detail Information

Publications17

  1. ncbi Modelling macromolecular networks: two meetings in Paris, July, 2002
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS ESA8071 genopole, Evry, France
    Bioessays 24:1188-90. 2002
  2. ncbi Membrane traffic in virtual reality
    Francois Kepes
    Dynamique de la Compartimentation Cellulaire, Institut des Sciences du Vegetal, CNRS UPR2355, Gif sur Yvette and ATelier de Génomique Cognitive, CNRS ESA8071 genopole R, Evry, France
    Traffic 4:13-7. 2003
  3. ncbi Secretory compartments as instances of dynamic self-evolving structures
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS ESA8071 genopole, 523 Terrasses de l Agora, 91000 Evry, France
    Acta Biotheor 50:209-21. 2002
    ..This model is extended to briefly outline three evolutionary "inventions", from S. cerevisiae to another yeast, Pichia pastoris, on to plant, and on to animal cells: stacking, stabilizing and aggregating the primary Golgi elements...
  4. ncbi Periodic epi-organization of the yeast genome revealed by the distribution of promoter sites
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS UMR8071 genopole, 523 Terrasses de l Agora, 91000 Evry, France
    J Mol Biol 329:859-65. 2003
    ..In this model, self-organization of transcriptional initiation plays a major role in the functional nuclear architecture...
  5. ncbi Periodic transcriptional organization of the E.coli genome
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS UMR8071 genopole, Evry, France
    J Mol Biol 340:957-64. 2004
    ..Binding at genuine regulatory sites on DNA would thus be optimized by co-transcriptionally translating regulators in their vicinity...
  6. ncbi [Epigenetics as an aspect of post-genomics]
    Francois Kepes
    Programme d Epigénomique, Genopole, ATelier de Génomique Cognitive, CNRS UMR 8071 Genopole, 93, rue Henri Rochefort, 91000 Evry, France
    Med Sci (Paris) 21:371-6. 2005
    ..g. a differentiated state that results from tipping a regulatory "toggle switch", involve components that are distributed throughout the nucleus or the cytoplasm, and possibly all the way to cell confines...
  7. ncbi Transcription/replication collisions cause bacterial transcription units to be longer on the leading strand of replication
    Nicolas Omont
    ATGC, CNRS UMR 8071 Genopole, 523 Terrasses de l Agora, 91000 Evry, France
    Bioinformatics 20:2719-25. 2004
    ..This model is validated by an analysis of proven and predicted units in Escherichia coli and Bacillus subtilis. The results are consistent with an equal cost of head-on versus codirectional collisions...
  8. ncbi Effects of brefeldin A and nordihydroguaiaretic acid on endomembrane dynamics and lipid synthesis in plant cells
    Patricia Merigout
    Laboratoire de Dynamique de la Compartimentation Cellulaire, Institut des Sciences du Vegetal, CNRS UPR 2355, 91198 Cedex, Gif sur Yvette, France
    FEBS Lett 518:88-92. 2002
    ..The importance of phytosterols in membrane architecture and membrane trafficking is discussed...
  9. ncbi Topological and causal structure of the yeast transcriptional regulatory network
    Nabil Guelzim
    ATelier de Génomique Cognitive, Centre National de la Recherche Scientifique ESA 8071, Genopole R, 523 Terrasses de l Agora, 91000 Evry, France
    Nat Genet 31:60-3. 2002
    ..This deviation from randomness probably reflects functional constraints that include biosynthetic cost, response delay and differentiative and homeostatic regulation...
  10. pmc PreCisIon: PREdiction of CIS-regulatory elements improved by gene's positION
    Mohamed Elati
    Institute of Systems and Synthetic Biology, CNRS, University of Evry, Genopole, 91030 Evry, France
    Nucleic Acids Res 41:1406-15. 2013
    ..The newly predicted gene targets are demonstrated to be functionally consistent with previously known targets, as assessed by analysis of Gene Ontology enrichment or of the relevant literature and databases...
  11. doi Genomic organization of evolutionarily correlated genes in bacteria: limits and strategies
    Ivan Junier
    Epigenomics Project Institute of Systems and Synthetic Biology, Genopole, CNRS, University of Evry, 91030 Evry, France
    J Mol Biol 419:369-86. 2012
    ..The transition at 20 genes is reminiscent of the size of the longest operons and of topological microdomains. The range for which DNA neighborhood optimizes biochemical interactions might therefore be defined by DNA topology...
  12. ncbi Morphodynamics of the secretory pathway
    Francois Kepes
    ATelier de Génomique Cognitive, CNRS UMR 8071 Genopole and Epigenomics Project, Genopole, Evry, France
    Int Rev Cytol 242:55-120. 2005
    ..Nonequilibrium secretory structures would provide yeasts, and plants to a lesser extent, with the required versatility to cope with ever changing environments, by contrast to the stabler milieu intérieur of homeothermic animals...
  13. pmc Spatial and topological organization of DNA chains induced by gene co-localization
    Ivan Junier
    Epigenomics Project, Genopole, CNRS UPS 3201, UniverSud Paris, University of Evry, Genopole Campus 1 Genavenir 6, Evry, France
    PLoS Comput Biol 6:e1000678. 2010
    ....
  14. pmc CTCF-mediated transcriptional regulation through cell type-specific chromosome organization in the β-globin locus
    Ivan Junier
    Epigenomics Project and institute of Systems and Synthetic Biology, Genopole, CNRS, University of Evry, 5 rue Henri Desbrueres, Evry F 91030, Institute of Complex Systems, Paris, France
    Nucleic Acids Res 40:7718-27. 2012
    ..Our findings show that an ensemble of CTCF contacts functionally affects spatial distances between control elements and target genes contributing to chromosomal organization required for transcription...
  15. ncbi The adaptive filter of the yeast galactose pathway
    Serge Smidtas
    Genoscope Centre National de Séquençage, CNRS UMR8030, 2 rue Gaston Cremieux, 91000 Evry, France
    J Theor Biol 242:372-81. 2006
    ..Finally, this feedback loop, by allowing phosphorylation of some active Gal4p, may be essential to initiate the subsequent long-term response...
  16. doi [Synthetic and integrative biology]
    Francois Kepes
    Genopole, CNRS, Université d Evry, Evry, France
    Med Sci (Paris) 25:39-42. 2009
    ..Integrative biology currently undergoes a deep renewal as we witness the increasing influence of systems biology, which explores life's logic, and of synthetic biology, which exploits it...
  17. pmc Periodic pattern detection in sparse boolean sequences
    Ivan Junier
    Epigenomics Project, Genopole, CNRS UPS3201, UniverSud Paris, University of Evry, Genopole Campus 1 Genavenir 6, 5 rue Henri Desbruères F 91030 EVRY cedex, France
    Algorithms Mol Biol 5:31. 2010
    ..e. sequences of the type 010011011010... where the ratio of the number of 1's (denoting here the transcription start of a gene) to 0's is small...