Réseaux de savoirs
Transcription
Réseaux de savoirs
Cointet Jean-Philippe Master II AIV 2005 ENGREF 2004-2005 Ecole Polytechnique 2000-2003 Dynamiques sociales et sémantiques dans les réseaux de savoirs morphogenèse et diffusion Descriptif Cette thèse s'attache à décrire, mesurer et modéliser des réseaux de savoirs mettant en jeu des acteurs qui interagissent au sein d'un réseau social et qui manipulent de l'information. Elle s'appuie essentiellement sur deux objets, la science, et la blosphère politique. En premier lieu, les réseaux scientifiques mettent en rapport d'une part des chercheurs en interaction au sein de réseaux de collaboration et d'autre part des réseaux lexicaux émergeant de leur production, notre objet d'étude étant la co-évolution entre ces deux espaces: social et sémantique. La blogosphère politique est également interprétée de façon duale: d'une part comme un système d'interactions et de citations entre des rédacteurs (multi-réseau), d'autre part un lieu de débat où les opinions sont distribuées sur un ensemble de sources. L'objectif de cette thèse est donc de développer des outils d'analyse quantitative des dynamiques socio-sémantiques et des processus en jeu au sein de ces réseaux de savoirs en adoptant une perspective empirique fondée sur l'observation in-vivo de ces systèmes. On distingue d'une part les études sur la morphogenèse des réseaux (motifs structurels non triviaux - communautés épistémiques, champs paradigmatiques, etc.) couplée à l'étude des comportements locaux susceptibles de les faire émerger (mesure et reconstruction), et d'autre part étude des processus à l'oeuvre sur ces réseaux, en particulier la diffusion d'information. Thèse co-encadrée par: Paul Bourgine (CREA-ISCPIF) et Pierre-Benoît Joly (TSV) Ecole doctorale de l'Ecole Polytechnique, département HSS Dynamiques des réseaux de savoirs ! Acteurs: {Ai} Publications: {Pi} Représentation de connaissances Concepts: {Ci} A1 Cadre théorique: C1 P1 Hc(t) Réseaux de savoirs C1,C2,C3 Les dynamiques sociales des agents (niveau micro) modifient par émergence les structures sociales de haut niveau (en bleu). En modifiant la distribution des connaissances les agents agissent sur la structure multiniveau de la dimension sémantique (en jaune) qui peut elle-même contraindre les dynamiques sociales A1,A2 C2 A2 P2 C2,C3 A1,A2 A3 C3 P3 A4 C3,C4 Hs(t) Les réseaux de savoirs sont formalisés comme des systèmes sociaux mettant en jeu des acteurs qui interagissent au sein d'un réseau social et qui manipulent de l'information. Hs(t+dt) Lc(t) Lc(t+dt) Ls(t) Ls(t+dt) C4 A3,A4,A5 A5 réseau de savoirs Représentation de grand corpus textuels Hc(t+dt) Reconstruction statique de champs paradigmatiques à l'aide d'analyse de cooccurrences et de la définition d'une mesure de proximité conceptuelle asymétrique une approche socio-sémantique multi-niveau reconstruction statique multi-échelle slice:10 time:10.000-11.000 auxin determine Radu S. circadian circadi_clock Newell D. Miliotis Rodma M. P.S. Kanarat Fournier Fernandez Bouchriti N.JH. Costagliola M. Desmarchelier Gonzalez M.I.P. A. Osaka K.Depaola Rosenquist H. Christensen B. Kaper J.Hammer Nishibuchi M.P. Anderson Wegener H.S. Gorris Igimi S. Vanderlinde Hashim Takeda Y. L. J.K. Yamamoto Tamplin M. P. A. Braunig J. D. Dalsgaard Balakrish NairS. Mahoney Reilly A. Murray Hilton J.H.D. Mead P. N. Bˆhm Anelich L. Lee LR. DeShield Rorvik McCoubrey Frid M. PM.W. Kumagai S. Rivera Jimenez S.M.D Hubert Wachsmuth Kasuga Hanninen Pratt C. F.J. Kiehlbauch J. Cox L.A. M. Reichmuth Toyofuku H. Skjerve Aidara-Kane A. Suhaim L.R.A. Tham W. E. Teufel WeiseP. E. Gram L. Huss H.H. Wiedemann P. Rocourt J. Ali-Ahmed M. Bowers J. Liu X. Norrung B.Dalgaard P. Nielsen N.L. Kruse H. McLandsborough L.A. Potter M. Lindgren S. Levin R. Luna J.F. Kvenberg J. Nader A. Lima Dos Santos C. Karunasagar I. Suwanrangsi S. Skinner R. Sumner Hultin H.O. J. Caipo M. Ababouch L. Engeljohn D. Ross T. Caswell J.A. Luber P. Dobson McMeekin T.S. Cordier J. Hathaway S. Walls I. Block C. Stark K. Braden C. Sofos J. Angulo F. D. Vose Carlos C. JouveMitchell J. R.T. Cowden J. Forsythe S. Mead G. Havelaar A Notermans S. M. Roberts T.A. Zwietering Nauta M. Hald T. Gerwen Van S. Bernard D. Lefferts L. Jansen J. Muytjens H. Komolafe O.O. Martinez A Van Schothorst Vicari A. Przyrembel H. Snary E. Van Acker J. Buchanan R. March D. Whiting R.C Bowen A. SchlosserH.W. Lammerding A Wahlstrom Cravioto Humphrey T. Hartung M. Schuch Cole M. Ross W. D.M.T. Estuningsih Destro M.T.S. Nasinyama G. Ebel E. Paoli W.G. Morales R. Anderson Farber J. Hartnett E. Maczka Yoe C C. Coignard B. Hudson J.A. Todd E.C. -0-Amma N Anandavally Cerf O.G. Klein Esteban E. Higuera-Ciapara I. DoyleKelly M.P.L. Walderhaug M. Mensah Tompkin R. P. R. FazilLindquist A. Construction de l'expertise en sécurité alimentaire 1963-1967 markov rhythm +clock +rhythmicity -circadi_clock -markov fuzzy human _protein mice mouse Zwiete Przyrembel H. Van Acker J. Martinez A Cole M. Buchanan R. Paoli G. Taylor E. Destro M.T. Bernard D. Clydesdale F. D'Aoust J. slice:17 time:17.000-18.000 Walls I. Fernandez H. Rivera Mead P. Rosenquist H. Christensen B. Nielsen N.L. Norrung B. Aidara-Kane Braden A. C. Kiehlbauch J. Rodma P.S. Kanarat Fournier Bouchriti N.J Costagliola M. J.K. Gonzalez M.I.Hashim Osaka K. Tham W. H. S.Wachsmuth SkjerveKruse E. Anderson Potter N. M. Rocourt Mahoney D. J. Murray Hilton J.H.D. Bˆhm Anelich L. DeShield Rorvik McCoubrey D L Reilly A. M. PM.W. Jimenez S.M. Hubert Karunasagar I.Frid Ababouch Hanninen M. Pratt C. P.J. L. Toyofuku H. Reichmuth Hammer Suhaim Teufel L.R.A. P. Bowers J. S. Cox L.A. Radu S. Balakrish Nair Weise E. A.Igimi Sofos J.Depaola Takeda Y.M. Yamamoto S. Wiedemann P. Nishibuchi Lima Dos Santos C. Kumagai S. Ali-Ahmed M. Wegener H. F. Kasuga F. Angulo Vose D. Lee R. McLandsborough L.A. Lindgren S. Kaper J. Levin R. Luna J.F. Suwanrangsi S. Kvenberg J. Nader A. Dalsgaard A. Tamplin M. L. Hald T. Gram Skinner R. Jordan D. Huss H.H. HultinSchlosser H.O. W.R. Caipo M. Morales Dalgaard P. Ebel E. Engeljohn D. Liu X. Sumner J. Caswell J.A. Luber P. Cordier J. Mensah P. Dobson S. Vanderlinde P. Block C. McMeekin Ross T. T. Stark Braunig J. Hathaway S. K. Desmarchelier P. Taylor E. Carlos C. Doyle M.P. Klein Vicari A. G. Cowden J. Walderhaug M. Mitchell R.T.Gorris Bowen A. Roberts Van L. Gerwen S. T.A. HavelaarJouve ASnaryJ.E. Zwietering M. R.CLammerding A Whiting Wahlstrom H. M. Destro M.T. Nauta Notermans S. Buchanan R.Paoli G. Lefferts L. Van Schothorst Muytjens Jansen J. Clydesdale F. H. Komolafe O.O. Fazil A. Mead G. Martinez A coli downstream escherichia escherichia operon lineage promote mice population yeast probability flux model yeast _cell candidate candidate markov monte _carlo sacchar_cerevis catalysis yeast _sacchar selection yeas_sacc_cere simulation density central_nervous edge growth input random state steady _state -biology -complex -cytochrome -disruption -feedback -feedbac_inhibit -molecular -molecul_biology -putative -yeas_sacc_cere +biomolecular +coupling +flux +membrane -biomass -cycle -single _cell -synapse +cell _growth +edge -activity -biologi_systems -dependence -experiment -flux -model -state -steady _state +epiderm_growth +mice +spindle +tumor -cerevisiae -participate -saccharomyces -sacchar_cerevis -yeast -yeast _cell -yeast _sacchar -yeas_sacc_cere +budding_yeast +electro_microsc +microscopy +phase bacillus edge dopamine nucleotide excitation nucleot_sequenc hippocampus ability feedbac_regulat sequence specification system selectivity capabilities interface nervous neurotransmitt process dna _interac array gradient oscillation interact polymerase protein_dna control cytoplasm function fission species gene _functio comparing specificity metabol_control nuclear strain thermostabilit multicellular plasma _membran putative network rrna promote emerge integrate marker participate acid _residue active _site amino _acid code recombination sequence resistance sequenc_data complex intercellular intracellular metabol_control multicellular network noise organizing self _organiz strategy time transformation selectivity -candidate -density -feedbac_regulat -gradient -interface -protein_dna -putative -rrna -selectivity +cell _motilit +embryo +fibroblasts +microtubule +virus -candidate -catalysis -edge -growth -input -interact -process -promote +protein_interac +strength -machine_learnin -markov -population -probability -random +computing +higher _order +feedbac_regulat +metabol_pathway +optimization -budding -participate combine molecul_biology multice_organis -ability -capabilities -comparing -dna _interac -selectivity -strain -thermostabilit +construct +epiderm_growth +gaussian +multice_organis +niche +wide _range operate cycle pathway drosoph_melanog coupling feedbac_regulat flux division membrane edge transport regulon variation biomolecular cell _cycle cell _divisio cell _growth regulat_element organism biologi_data cerevisiae cell mutant mutation composition environ_conditi optimization self _organiz drosophila feedbac_inhibit biomass molecular state uncertainty epistasis notch pairwise array feedbac_regulat chromosome epiderm_growth cluster metabol_pathway budding experim_evidenc budding_yeast combine mice electro_microsc mapping spindle microscopy transduction tumor phase lineage melanogaster pattern_formati sensitive computer computing higher _order monte _carlo yeast selection yeast _cell simulation cell _motilit auxin optimization saccharomyces sacchar_cerevis edge polymerase chemistry construct magneti_resonan epiderm_growth embryo protein_interac fibroblasts rna _polymer mass _spectro gaussian molecul_interac multice_organis spectrometry microtubule strength niche spectroscopy virus species spectrum yeast _sacchar specificity 1998-2002 biomass differentiatio in _vitro lymphocytes node stimulation t _cell target ecology diversity budding_yeast carbon biomolecular evolution interaction cycle exchange carbon _dioxide mechanism hybridization protein dioxide perturbation mechanism protein_interac oxygen property plant prot_prot_inte region wide _range yeas_sacc_cere wild learning modular phage synapse process universe species mutant ecosystem mathema_model model niche clock epistasis genotype motif notch population phenotype resource quantit_trait selection regulon data _set endocytosis antibody frequencies endopla_reticul antigen gene immune genetic_network immune _respons population modulate golgi microscopy mitochondria nucleus scoring vegetation +central_nervous +cortex +disease +nervous +neural _network 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-epiderm_growth -express_level -mice -mouse -synapse +chain +kappa _b +nf _kappa +nf _kapp_b -connectivity -cortex -hippocampus -neural _network -neuron -synapti_plastic -visual _cortex +protein_network +autoregulation +gene_expr_leve +motif +regulat_element +repression expression express_data circadian coli brain circadi_clock chain central_nervous disease cycle nervous rhythm protein_network rhythmicity system non _coding messenger model gene _express mrna protein_sequenc messeng_rna molecul_dynamic gene_expr_data regulation recombinant mrna program regulation transcr_regulat promote_sequenc regulat_element -autoregulation -module -overexpression -phage -promote -prot_prot_inte -transduction +feedbac_regulat +repression molecul_dynamic prot_prot_inte receptor -epiderm_growth -express_level -kappa -mouse -synapse +cancer +progression +stem _cell +tumor -autoregulation -module -operon -overexpression -promote -regulon +galaxy +target _gene -algorithm -biomolecular -molecul_dynamic 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+metabol_network +mutagenesis stem _cell model tumor modelling cdna express_data annotation clone gene_expr_data computer encode hybridization messenger mrna feedbac_control express_data genbank gene_expr_data protein_sequenc sequenc_databas molecular feedbac_loop cycle -computer -interac_network -kappa -kappa _b -metabol_network -modelling -nf _kappa -nf _kapp_b +base +hidden _markov +markov +process -autoregulation -gene_expr_leve -motif -repression +gene_regu_netw +gene_regu_netw +region -cdna -coli -escherichia -escheri_coli -express_data -gene_expr_data -hybridization -messenger -operon -regulon -repression +gene +gene _express +gene_expr_prof +gene_regu_netw +gene _transcr +level +knockout +mouse +network_structu -cancer -progression -tumor gene _express endocytosis epiderm_growth active _site genome _scale nervous oligonucleotid predict_accurac plasticity polymerase predict_methods escheri_coli reaction rna _polymer escherichia mutagenesis bacterium evolvability coli genetic_variati escherichia quantit_trait catalysis escheri_coli coli escherichia escheri_coli variance metabol_network variation algorithm attractor computation hidden _markov time time _series coli escherichia escheri_coli operon regulon base regulation +amino _acid +nucleotide +open +sequence +signali_network -cdna -clone -encode -protein_sequenc +amino _acid +homology +nucleotide +sequence -cdna -clone -encode -nucleot_sequenc promote_sequenc model region process regulat_element upstream -cortex -central_nervous -gene_regu_netw -gene_regu_netw -hippocampus -nervous -hybridization -regulat_relatio -plasticity -system -regulat_relatio +interneurons -synapti_plastic +layer -visual _cortex +mrna +cellula_network +detect +express_profili +gene_expr_prof +sequencing +strand -genome _scale cortex chain hippocampus detect brain cellula_network central_nervous nervous system hybridization express_profili interneurons gene_expr_prof layer oligonucleotid mrna polymerase plasticity reaction rhythmicity synapti_plastic sequencing time visual _cortex strand +mammalian +axon -cellula_network -hybridization -interneurons -layer +learning +mice -coli -escherichia -escheri_coli -rna _polymer +seconda_structu +structure +structu_predict +allele +ecology +chromosome +frequencies +functio_annotat +locus +genome _wide +polymorphisms +linkage +population +locus +species +mapping +time_seri_data -evolvability -evolvability -genetic_variati -genetic_variati -variance -quantit_trait -variation -variation -mutagenesis amplification circadi_clock clock homology gene_expr_prof nucleotide gene_regu_netw protein_sequenc gene _transcr stem _cell clock sequence level brain nucleus central_nervous oscillation nervous phase system hippocampus learning mice mrna plasticity rhythm synapti_plastic rhythmicity visual _cortex predict_accurac predict_methods seconda_structu active _site chromosome frequencies functio_annotat catalysis locus genome _wide coli polymorphisms structure escherichia structu_predict escheri_coli population base +molecular -oscillation -feedbac_regulat -gene_expr_prof -gene_regu_netw -gene _transcr -knockout -level -mice -mrna -network_structu -stem _cell +expression +express_data +gene_expr_data +genetic_network +transcriptome -gene_regu_netw -gene_regu_netw -operon model coli dynamic_simulat control promote helix gene_regu_netw promote_sequenc time escherichia linkage time _series escheri_coli molecular network region locus time_seri_data operon molecul_dynamic regulat_genes regulat_element variation regulon simulation regulat_network transcription quantit_trait structure -express_profili -gene_expr_prof -oligonucleotid -sequencing -strand +messeng_rna +bacillus +diffraction +metabol_network +network_motifs +prokaryotes +reactio_network +thermostabilit +marker +trait -functio_annotat -control -network -regulat_genes -regulat_network -time -time _series -time_seri_data -variation +attractor +network_model +state -helix amino _acid nucleotide feedbac_loop open negativ_feedbac sequence positiv_feedbac signali_network regulation chain detect messeng_rna polymerase reaction allele association disease frequencies genotype polymorphisms population chromosome evolvability genetic_variati natural_selecti population genome _wide linkage locus mapping variance marker variation quantit_trait trait model network_model state +interneurons +knockout +mouse +wild +gene _interac +linkage +susceptibility +population +region expression expression gene _express express_profili gene gene_expr_leve messenger gene_expr_prof messeng_rna microarray mrna mrna data _bank hierarc_cluster +acid _residue +cdna +clone +encode -nucleotide -sequence -signali_network homology amino _acid cdna clone encode protein homology protein_data nucleot_sequenc prot_data_bank open protein_sequenc +gene_expr_prof +hierarc_cluster +microar_data +microar_dataset +microar_experim +microar_gene -dna _microar -gene -genetic_network -mouse -transcriptome -downstream -hierarc_cluster -homology +structure 2003-2007 cortex hippocampus interneurons clock knockout learning molecular nucleus phase mice mouse mrna rhythm plasticity rhythmicity synapti_plastic time visual _cortex bind complexes interac_network ligand protein ligand _binding protein_complex receptor protein_complex time _scales +binding_site +functio_modules +ribosome +site -affinity -ligand -ligand _binding -receptor hiv seconda_structu base biology codon biomolecular non _coding molecular nucleotide structure molecul_biology structu_predict molecul_dynamic protein_functio replication yeast virus -biomass -cell -cell _growth -cytoskeleton -growth _rate -hormone -transit_state +fission +fission_yeast +gene _interac -actin -cell -cytoskeleton -homologous -mice -myosin -stem -stem _cell -transformation +connectivity amplification allele chromosome association genome _wide disease linkage chain frequencies locus messenger gene _interac mapping messeng_rna genotype marker polymerase linkage population reaction polymorphisms quantit_trait population region susceptibility trait gradient laser network_structu magneti_resonan protein_complex molecul_interac protein_functio regulat_interac spectroscopy spectrum yeast _cell ecology approximation ecosystem biology frequencies differe_equatio niche markov rna _binding phenotype population scaffold polymorphisms probability strand population process antibody cyclin antigen autoregulation endopla_reticul complex_systems capabilities golgi effector dimer liver immune dna _damage membrane immune _respons dna _repair microscopy immunity repair mitochondria molecul_interac subcell_localiz t _cell topology velocity -chemistry -magneti_resonan -molecul_interac -regulat_interac -spectroscopy -spectrum +excitation +flow +fluorescent +stream -recombination -time _scales +mutation nucleot_sequenc protein_sequenc acid _residue arabidopsis amino _acid development gene _duplica mutation peptide plant sequenc_alignme thaliana -complex_systems -effector -immunity -molecul_interac +regulat_network +subset +suppressor budding_yeast drosophila -cyclin -liver -mitochondria +trans _golgi -autoregulation -capabilities +physics firing cell _differe division fission_yeast gene _interac notch growth chromatin connectivity fission melanogaster neural _network promote promote_sequenc molecular region network_motifs molecul_dynamic regulat_element operon simulation transcription prokaryotes structure upstream antibody cerevisiae higher _order activat_protein antigen endopla_reticul dimer protein_functio golgi dna _damage protein_structu membrane dna _repair relationship physics structu_basis repair structure flow immune saccharomyces kinase fluorescent immune _respons nucleus sacchar_cerevis phosphorylatio laser regulat_network microscopy prot_prot_inte yeast protein_kinase stream subset trans _golgi differentiatio mutation excitation intrace_signali histone lineage pattern_formati yeast _cell suppressor yeast _sacchar t _cell +bond 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-fission_yeast -gene _interac +cyclin +proliferation bond bind bond _network binding_protein conformation dna _binding hydr_bond_netw kappa _b hydroge_bonding nf _kappa loop nf _kapp_b stem structure chromosome conformation predict_methods seconda_structu conformation crystal_structu diffraction structure helix structu_predict predict_methods gene_expr_data linkage locus conformation dynamic_simulat helix mapping magneti_resonan notch molecul_dynamic polymorphisms nuclear segregation spectroscopy cell _fate gene_expr_patt cellular drosophila gene _network drosoph_melanog morphogenesis feedbac_loop pattern genome _wide pattern_formati melanogaster notch rhythmicity patterning cell _divisio cyclin division +promote +transcription -binding_protein gene _interac profiling resistance growth sensitive proliferation sensitivity cdc14 cytokinesis bond _network circadi_clock cdc14 cytoplasm cyclin express_profili dna _replica histone network_structu nuclear prot_prot_inte nucleus replication catalysis defective enzyme feedbac_inhibit feedforward machinery produce prot_prot_inte telomere regulat_network mutation prot_prot_inte antigen cerevisiae cycle fission fission_yeast prot_data_bank cytokinesis saccharomyces mitosis sacchar_cerevis phase wild site dna _binding kappa _b nf _kappa nf _kapp_b promote transcription cooperativity functio_modules interact interaction interac_map molecul_interac -cdc14 -cell _divisio -cyclin -apoptosis -division -express_profili -dna _replica -histone -proliferation -subcell_localiz -prot_prot_inte -universe -replication +image +hormone +metabol_network +nutrient +attractor +blood _flow +flow +vascular +vessels -cdc14 -cyclin -dna _replica -prot_prot_inte -replication -cdc14 -circadi_clock -defective -enzyme -feedbac_inhibit -feedforward -mutation -prot_prot_inte -substrate +active _site +mutagenesis +site +active _site -feedforward anaphase alpha cell _migrati drosophila cellula_network drosoph_melanog hormone collagen growth melanogaster metabol_network extracellular notch network_structu gene_expr_prof rhythmicity nutrient matrix chromatin subset blood _flow cytoplasm flow image network_structu nuclear vascular nucleus vessels active _site catalysis catalysis mutagenesis enzyme bond _network site transit_state genome hydr_bond_netw fission_yeast cyclin bank data _bank protein hierarc_cluster protein_data microarray prot_data_bank microar_data structure microar_experim amino _acid -expression -gene_expr_data -express_data -gene_expr_prof -gene_expr_data -hierarc_cluster -gene_expr_prof -microar_data -hierarc_cluster -microar_dataset -microar_dataset-microar_experim -microar_gene -microar_gene +time _series +time_seri_data -base -simulation +site +express_profili +gene +profiling -microar_data -microar_dataset -microar_experim express_data express_profili escherichia dynamic_simulat expression express_data gene escheri_coli molecular gene _express gene _express gene _express network_motifs molecul_dynamic microarray mechanism +database +sequence microarray gene_expr_data operon site microar_data time _series gene_expr_prof recombinant structure microar_experim time_seri_data hierarc_cluster regulon microarray thermostabilit microar_gene profiling nucleus protein_network interac_map subcell_localiz mutagenesis enzyme mutant substrate mutation transit_state transit_state wild feedback feedbac_control feedbac_loop feedbac_mechani feedbac_regulat loop tumor +positive control feedback feedbac_control feedbac_loop homology feedbac_mechani feedbac_regulat loop prot_data_bank sequence mechanism sequence sequenc_alignme negativ_feedbac positive positiv_feedbac regulation +metabol_pathway +pathway +produce +subgraphs +activity -active _site -catalysis -substrate -transit_state +localization +membrane +subcellular -chromatin -protein_network site -catalysis -mutagenesis -mutant -mutation -transit_state -wild +crystal_structu cancer cell _cycle human checkpoint cell _cycle nuclear fission phase fission_yeast cytokinesis cell development drosophila pattern cell _motilit pattern_formati growth patterning migration specification cytoplasm localization enzyme membrane metabol_pathway nuclear pathway nucleus produce subcellular subgraphs subcell_localiz active _site activity catalysis enzyme substrate transit_state -catalysis -mutagenesis -mutation -site -transit_state -bond _network -hydr_bond_netw -mutagenesis -mutation -site -cancer -checkpoint -cycle -human -microarray -mitosis -phase +cell +cyclin +growth +proliferation +cell _growth +suppressor -microarray -progression active _site -fission -fission_yeast +anaphase active _site active _site cancer catalysis cell _growth bond _network enzyme hydr_bond_netw mutant human mutant transit_state suppressor progression wild wild tumor proliferation site anaphase cell _cycle crystal_structu hydr_bond_netw cdc14 cyclin cell _cycle growth substrate -active _site -bond _network -enzyme -hydr_bond_netw -substrate +bind +complex +structu_basis +structure -crystal_structu -site protein_kinase yeast signali_pathway yeast _sacchar -gene_regu_netw -response -signal _transdu -signali_molecul -transduction -transdu_pathway -tyrosine +inhibitor +signali_network signal _transdu signali_network transduction transdu_pathway tyrosine activity immune inhibitor immune _respons kinase immunity phosphorylatio mice protein_kinase t _cell signali_network virus +prot_inte_data +prot_inte_netw +yeast _cell -fission_yeast -interac_map +checkpoint +dna _damage +dna _repair +repair -cell _growth -human -suppressor -tumor -cell -growth -suppressor +apoptosis -cytokinesis prot_inte_netw prot_prot_inte subgraphs yeast -prot_inte_data -prot_inte_netw +global _network -hybrid -interacting -subgraphs -yeast +interac_map host kinase human pathway protein_interac yeast yeast _cell yeast _sacchar hiv inhibitor protein prot_inte_data -cell _cycle -cycle -cytokinesis +chromosome +spindle activity interaction interac_data interac_network saccharomyces yeas_sacc_cere nuclear nucleus nf _kapp_b subcellular nuclear subcell_localiz active _site activity catalysis enzyme substrate transit_state active _site bond _network enzyme hydr_bond_netw substrate bind complex crystal_structu infection phosphorylatio pathogen protein_kinase persistence signal _transdu replication signaling virulence transduction virus transdu_pathway site structu_basis structure -endopla_reticul -process -surface -trans intracellular membrane plasma _membran trans _golgi tran_golg_netw budding_yeast cancer cdc14 -signal _transdu -transduction -transdu_pathway -host -pathogen -virulence anaphase anaphase cerevisiae interac_map activity cdc14 cdc14 global _network interac_network cdc14 dna _damage dna _repair repair cyclin chromosome cell _cycle saccharomyces human mitosis cycle sacchar_cerevis progression spindle mitosis proliferation tumor antigen protein kinase protein_interac phosphatase yeast prot_inte_data phosphorylatio yeast _cell prot_inte_netw yeast _sacchar prot_prot_inte golgi _network cytokine intracellular gene_regu_netw localization immune membrane plasma _membran immunity surface lymphocytes trafficking mice trans response trans _golgi t _cell tran_golg_netw +effector +infection +pattern_recogni -gene_regu_netw antigen activat_protein cell _cycle cell _growth arp2 filament membrane +localization +surface +trafficking +trans immune _respons cytokine interaction interac_data cancer actin cytoskeleton activity effector hiv immune inhibitor human immune _respons kinase infection immunity pathway persistence phosphorylatio replication protein_kinase virus signaling yeas_sacc_cere infection lymphocytes mice pattern_recogni response t _cell biology arti_neur_netw gene_regu_netw arabidopsis feedforward molecular cdna network molecul_basis network_archite molecul_biology neural _network ontology clone encode thaliana prediction transport transport -activat_protein -inhibitor -pathway -protein_kinase -signal _transdu -signaling -transduction -transdu_pathway +cdc14 +phosphatase checkpoint selection variability golgi activat_protein interacting cerevisiae prot_inte_data prot_inte_netw sacchar_cerevis evolve phenotype golgi golgi _network +hiv +host +human +infection +pathogen +cytokine +persistence +gene_regu_netw +replication +lymphocytes +virulence +response -antigen -virus -immune -immune _respons -immunity -mice -t _cell +pathway +signaling -signali_network -tyrosine hybrid evolution evolvability genetic_algorit trans antigen budding membrane surface -antibodies -antibody -effector -lymphocytes -networking -response -subgraphs -universe +mice +virus activat_protein kinase +hybrid +interacting +interaction +interac_data +protein +protein_interac +prot_inte_data +prot_inte_netw +prot_prot_inte +subgraphs -cdc14 -cerevisiae -fission_yeast -inhibitor -kinase -protein_kinase -saccharomyces -sacchar_cerevis -signali_pathway cycle apoptosis cytoplasm localization kinase kinase sacchar_cerevis cytokinesis mitosis tumor alpha kappa pathway yeast cdc14 cell bond _network process transport yeas_sacc_cere activity inhibitor kappa _b signaling sacchar_cerevis budding_yeast adhesion cell _migrati interac_network saccharomyces saccharomyces mitosis inhibitor interac_map fission_yeast cycle mitosis tumor budding +kinase +pathway +signaling -response -transcription -tumor nf _kappa cerevisiae cerevisiae cycle microarray progression alpha kappa response transcription regulation amino _acid -cell -cell _fate -differentiatio -function -gene_regu_netw -interac_map -lineage -notch +pattern +pattern_formati +patterning +specification -cdc14 -disruption -genetic_network -interac_data -yeast _cell +interac_map budding_yeast cdc14 activity inhibitor kappa _b nf _kappa nf _kapp_b mechanism positiv_feedbac nucleot_sequenc -cell _fate -development -differentiatio -drosophila -function -gene_regu_netw -interac_map -lineage -notch +adhesion +cell _migrati +cell _motilit +growth +migration +activity +inhibitor +response +tumor -promote negativ_feedbac protein_sequenc hydr_bond_netw catalysis nuclear function gene_regu_netw notch protein structure active _site cytoplasm drosophila nuclear promote lineage database protein_data differentiatio nf _kapp_b transcription -activat_protein -activity -gene_regu_netw -activat_protein -phosphorylatio -activity -response -gene_regu_netw -signal _transdu -phosphorylatio -signali_molecul -protein_kinase -transduction -response -transdu_pathway -signali_molecul -tyrosine +signali_network +inhibitor +interac_network +signali_pathway component dynamic_systems membrane trans _golgi tran_golg_netw t _cell universe budding cdc14 catalysis regulation cdna bank data _bank kappa _b nf _kappa feedbac_regulat -budding -budding_yeast -budding_yeast -disruption -checkpoint -genetic_network -cyclin -interac_data -phase -yeast _cell +cytokinesis -yeast _sacchar -yeas_sacc_cere +fission_yeast -budding_yeast -cdc14 -cyclin -fission -fission_yeast intracellular response subgraphs tyrosine active _site golgi golgi _network networking transdu_pathway yeast _sacchar +plasma _membran +process +surface +trans -microscopy -trafficking plasma _membran lymphocytes transduction positive endopla_reticul antigen immunity response signal _transdu signali_molecul yeast yeast _cell bond _network chromatin negativ_feedbac open expression coli diffraction feedbac_control feedbac_mechani protein_sequenc -acid _residue -cdna -clone -encode -open +sequence +sequenc_alignme -genome -genome _scale -genomic_data -human _genome -project +cancer +microarray +progression +tumor -anaphase -cytokinesis -image -scaffold +protein_network +subcell_localiz cell cell _fate development clone encode homology +alpha +kappa +nuclear -bind -dna _binding alpha kappa mechanism metabol_network positiv_feedbac immune immune _respons protein_kinase saccharomyces sacchar_cerevis mitosis yeas_sacc_cere nucleot_sequenc microar_gene -bacillus -metabol_network -prokaryotes -reactio_network +recombinant +control +feedbac_mechani +feedbac_regulat +mechanism -feedbac_loop -positiv_feedbac flux inhibitor trans _golgi tran_golg_netw transport effector kinase phosphorylatio interac_data fission project feedforward trafficking antibody gene_regu_netw genetic_network cycle human human _genome wild Reconstruction bottom-up de la dynamique des champs sicentifiques feedbac_inhibit feedbac_mechani membrane microscopy antibodies activity cdc14 cerevisiae disruption checkpoint genomic_data mutant mutation wild feedback intracellular +effector +immunity +networking +response +subgraphs +universe -coexpression -complex_systems -lineage -node -subset -surface activat_protein budding_yeast cell _cycle genome _scale mutagenesis mutant substrate transit_state concentration golgi golgi _network node +gene_regu_netw +response +signal _transdu +transduction +transdu_pathway +tyrosine -intracellular -intrace_signali -signaling -signali_pathway -synapti_plastic +disruption +genetic_network +interac_data -fission -fission_yeast -prot_data_bank 2003-2007 alpha endopla_reticul t _cell -anaphase -cycling -cytokinesis -progression -synchronizatio +budding_yeast +checkpoint +fission +fission_yeast -degrees_c -sensitive -strain -temperature +mutagenesis +mutation phase control lineage lymphocytes surface cdc14 active _site attractor cytokinesis scaffold -cooperativity -drosoph_melanog -functio_modules -interact -interaction -melanogaster -molecul_interac -rhythmicity +cell +cell _fate +development +differentiatio +function +gene_regu_netw +lineage immune immune _respons signaling synapti_plastic budding ribosome coexpression complex_systems kinase protein_kinase signali_molecul signali_pathway yeas_sacc_cere budding_yeast binding_site functio_modules integrate intracellular intrace_signali phosphorylatio yeast yeast _cell yeast _sacchar progression synchronizatio universe -cell _fate antibody activity cycling strain wild activat_protein cdc14 cyclin mutant sensitive temperature transit_state subcell_localiz budding_yeast cdc14 -surface golgi golgi _network intracellular localization membrane plasma _membran trafficking trans trans _golgi tran_golg_netw transport +architecture +biologi_network +information +informa_process +level +network_motifs +process -arti_neur_netw -feedforward -network -neural _network -prediction +annotation +database +functio_annotat +gene _ontolog +genome +information +sequence -gene_regu_netw -molecul_basis annotation gene _ontolog genome information molecular +auxin +plant +root -cdna -clone -encode algorithm biology database functio_annotat molecul_biology +algorithm +genetic_algorit +genetic_network +network_model +reverse_enginee +time -feedforward architecture biologi_network information informa_process level network_archite network_motifs process ontology sequence arti_neur_netw bayesian genetic_algorit genetic_network network network_archite arabidopsis auxin plant network_model root neural _network thaliana prediction bayesia_network chain hidden _markov markov model monte _carlo biodiversity diversity ecosystem food _web species carbon carbon _dioxide dioxide metabol_network cellular distribution cellula_functio network_topolog cellula_process network_motifs property scale produce process scale _free strain reactio_network small _world simulation reverse_enginee time -biology -molecular -molecul_biology -sequence +gene +microarray +process -genetic_network -network_archite -network_model -reverse_enginee -time +mutant +differe_equatio +dynamic_systems +equation +modelling +nonlinear -bayesia_network -distribution -network_topolog +evolution bayesian annotation chain database differe_equatio functio_annotat algorithm gene arti_neur_netw auxin equation gene _ontolog genetic_algorit arabidopsis mutant hidden _markov genome network information neural _network root microarray prediction thaliana ontology process plant dynamic_systems markov model modelling monte _carlo bind evolution property scale scale _free small _world complex complexes dna _binding dna _interac macromolecular protein_complex protein_dna prediction predict_methods protein_structu seconda_structu sequence structure structu_predict nonlinear simulation D'Aoust J. réseau de proximité de projets européens reconstruction des dynamiques des champs scientifiques: les mutations paradigmatiques de la biologie depuis 50 ans Dynamiques d’opinions 0 10 10 2 10 g(δ ) −2 10 −3 −3 10 10 −4 −4 1 2 3 4 soc a d stance d 10 5< Opinions et influence 0 01 02 03 04 05 06 07 08 09 Left Centre Right Press E | 0.03 3 Détecter, mesurer, représenter les dynamiques "d'opinions" au niveau des acteurs. E | 0.13 3 d | 0.22 D | 0.06 None 3 a | 0.23 A | 0.12 B | 0.05 1 0 e | 0.20 A a| 0.14 | 0.33 1 a | 0.16 a | 0.72 A | 0.33 Reconstruction et modèles prédictifs d'influence dans une écosphère informationnelle. 1 a | 0.25 5 a | e0.43 | 0.19 8 e | 0.42 f | 0.14 c | 0.3 1 b | 0.14 c | 0.20 e | 0.13 b | 0.19 a | 0.49 b | 0.22 c | 0.16 a | 0.42 6 b | 0.38 7 c | 0.43 semant c d stance δ Evolution des centres d'intérêt au sein de la blogsphère politique française, couplée à un multi-réseau dynamique propension d'interaction par rapport à une distance sociale ou sémantique F C c b A B C D A D a B E C 08 b E A Diagramme d'influences systématiques entre grands groupes de sources dans la blogosphère politique 1 B E F Modéliser la formation des réseaux comme une dynamique événementielle. c Ra o o Nodes n ormed a Modèles hypergraphiques de morphogenèse de graphe g | 0.08 C | 0.04 2 4 L'objectif est de mesurer, au niveau des acteurs les régularités induites par la structure du réseau sociosémantique sur leur comportement d'interaction. −2 10 2 2 Mesure d'attachement préférentiel sur des réseaux réels −1 −1 10 f (d) biosynthesis human target _gene translocation +golgi _network +intracellular +trafficking +tran_golg_netw +transport antibodies anaphase cell _cycle degrees_c hydr_bond_netw mutant substrate transit_state scaffold regulat_relatio -autoregulation -biology -cellular -expression -feedbac_loop -gene _express -gene_expr_leve +alpha -gene _regulat +cell _migrati -genome _wide +collagen -regulat_genes +extracellular -regulation +gene_expr_prof -regulat_interac +matrix -transcr_regulat -biology +genome -cellular +genome _sequenc -feedbac_loop +hiv -genome _wide +host +infection +integrate +network_model +persistence +replication +virus +coexpression +complex_systems +lineage +lymphocytes +node +surface -regulat_network -suppressor +activity +intracellular +signaling +signali_molecul +signali_pathway +synapti_plastic +fission +fission_yeast +prot_data_bank -mutation budding anaphase apoptosis chromatin embryo biology cellula_network +anaphase +apoptosis +cdc14 +cytokinesis +cyclin +cytoplasm +dna _replica +express_profili +network_structu +nuclear +replication +scaffold -chromatin +subcell_localiz -higher _order +universe -histone -higher _order -nucleus -prot_prot_inte -cell _divisio -division -fission -fission_yeast -growth +profiling +resistance +sensitive +sensitivity drosophila bond _network +anaphase -budding +cell _cycle -budding_yeast +cycle -cerevisiae +cyclin -chromatin +cycling -higher _order +cytokinesis -histone +mitosis -nucleus +phase -saccharomyces +progression -sacchar_cerevis +synchronizatio -yeast -budding -yeast _cell -budding_yeast -yeast _sacchar -cerevisiae -yeas_sacc_cere -mutation +circadi_clock -saccharomyces +defective -sacchar_cerevis +feedbac_inhibit -yeast +mutant -yeast _cell +transit_state -yeast _sacchar +wild -yeas_sacc_cere Morphogenèse de réseau! 10 chromosome rearrangement yeas_sacc_cere feedback control acid _residue gene _express gene_expr_data gene_expr_prof microar_dataset reactio_network wild évolution du réseau de collaboration d'experts du JEMRA, comité réunis pour le CODEX 0 Phylogénie des sciences antibodies cdc14 cell _divisio drosoph_melanog segmentation bind bind host infection network_model persistence +feedbac_loop +loop +positiv_feedbac expression base dynamic_simulat metabol_network regulon +messenger -detect expression gene _express mouse transcriptome express_data escherichia escheri_coli dna _microar gene gene _express diffraction attractor gene_regu_netw -feedbac_regulat -gene -gene_regu_netw -gene _transcr -level +expression +gene_expr_leve +bank +data _bank +hierarc_cluster +protein +protein_data +prot_data_bank -amino _acid -nucleotide -protein_sequenc -sequence brain circadian mammalian complex affinity surface genome _sequenc feedback feedbac_control nucleot_sequenc acid _residue gene_expr_data coli amplification -feedbac_regulat -gene -gene _express -gene_expr_prof -gene_regu_netw -gene _transcr -level +expression +express_profili +messenger +messeng_rna bank genetic_network upstream variance -allele -ecology -frequencies -ecology -locus -locus -model -species -polymorphisms -time_seri_data -species -variance -time +association -time _series +disease -time_seri_data +genotype +evolvability +genetic_variati +natural_selecti -feedbac_regulat -gene_expr_prof -gene_regu_netw -gene _transcr -level -mrna +dna _microar +expression +microarray express_data thermostabilit circadi_clock predict_methods protein regulat_relatio expression downstream mapping species time_seri_data time circadi_rhythms infection molecul_interac time _scales yeast _sacchar yeas_sacc_cere replication allele ecology brain cortex axon mammalian -modular -oscillation -pattern_formati -quantit_trait -signalling -structu_informa +chromosome +firing +segmentation +development +mutation -genotype -root segmentation -control -feedbac_regulat -mechanism +positiv_feedbac mrna -downstream -gene_regu_netw -operon -promote -promote_sequenc -region -regulat_element -transcription -upstream +control +network +regulat_genes +regulat_network +dynamic_simulat +helix +molecular +molecul_dynamic +simulation +structure -chain -hidden _markov -markov -model -process -algorithm -attractor -computation -evolvability -genetic_variati -hidden _markov -quantit_trait -variance +model +time_seri_data circadian circadi_clock -base -homology -nucleotide -nucleot_sequenc -oligonucleotid -promote_sequenc -protein_sequenc -sequence -sequenc_data -sequencing -upstream +acid _residue +gene _duplica +peptide +sequenc_alignme +cyclin +liver +membrane -endocytosis -nucleus antibodies density chemistry burst recombination saccharomyces sacchar_cerevis stem genome amino _acid gene _express mice mouse network_structu bacillus circadi_rhythms 1998-2002 mice stem _cell transformation virus circadi_rhythms phase lineage myosin pattern_formati gene_expr_data gene knockout operon promote markov system rhythm homologous notch pairwise +antibodies +complex_systems +effector +immunity +molecul_interac +t _cell -modulate budding conformation interaction -autoregulation -bind -binding_protein -autoregulation -chip -chip -dna _binding -interaction -interaction -intrace_signali -intrace_signali -macromolecular -macromolecular -protein -protein_dna -protein_dna -protein_interac -protein_interac -prot_prot_inte -prot_prot_inte -subunit -subunit +complex +kappa _b +complexes +nf _kappa +interac_network +nf _kapp_b +protein_complex +protein_complex +time _scales receptor tran_golg_netw visual _cortex nucleus -antigen -autoregulation -binding_protein -biomolecular -cell _surface -chip -dna _binding -epiderm_growth -interaction -intrace_signali -macromolecular -molecul_dynamic -protein -protein_dna -protein_interac -prot_prot_inte -subunit -surface +affinity +ligand +ligand _binding trafficking trans _golgi regulat_relatio feedbac_regulat gene_regu_netw chain hidden _markov transcription oscillation locus cerevisiae differentiatio linkage mapping hormone cdc14 cytoskeleton circadi_clock growth growth _rate cellula_network coli chain hybridization regulat_relatio synapti_plastic brain golgi _network gene _regulat regulat_genes regulat_interac downstream gene_regu_netw amplification hippocampus rhythm +nucleus +oscillation +time -cycle biomass cytoskeleton division transit_state signalling development gene_expr_leve mechanism regulation rhythmicity circadian cell cell _growth quantit_trait chromosome dna _binding intrace_signali macromolecular cell _surface gene_expr_data feedbac_regulat negativ_feedbac brain cortex gene_regu_netw clock phase cell _divisio notch oscillation pattern_formati structu_informa transcr_regulat central_nervous circadian circadi_clock circadi_rhythms neural _network cycle division yeast _cell protein_interac +endocytosis +golgi _network +trafficking +trans _golgi +tran_golg_netw -antigen -biomolecular -molecul_dynamic -prot_prot_inte +autoregulation +gene_expr_leve +gene _regulat +regulat_genes +regulat_interac +regulat_relatio -express_data -module expression feedback cdna clone database nucleot_sequenc transduction -feedbac_regulat -repression chromosome modular cell _cycle cell _divisio sensitive +approximation +biology +differe_equatio +markov +probability +process -data _set -frequencies -gene -genetic_network carbon budding_yeast cell _differe melanogaster cell gtpase resistance sensitivity autoregulation control upstream +cortex +gene_regu_netw +hippocampus +hybridization +plasticity +regulat_relatio +synapti_plastic +visual _cortex -disease -protein_network cdc14 gene _interac wild -amino _acid -homology -autoregulation -oligonucleotid -local _structu -promote_sequenc -long _range -sequence -topology -sequenc_data +biomolecular -sequencing +molecul_dynamic -upstream +codon +non _coding protein_dna surface coli transcription +clock +phase -biomolecular -crystal_structu -diffraction -hydroge_bonding -molecular -network_structu -self _organiz -subunit -x _ray +predict_methods +seconda_structu +structu_predict chip cell _surface epiderm_growth module simulation escheri_coli promote operon regulon repression strain -mathema_model -model -resource -selection +frequencies +phenotype +polymorphisms subunit motif escheri_coli feedbac_regulat sensitive prot_prot_inte gene_expr_leve escherichia kappa kappa _b nf _kappa nf _kapp_b mutation root binding_protein biomolecular expression gene _express messenger non _coding mice mouse synapse regulon transduction antigen algorithm cdna hybridization kappa phage promote prot_prot_inte system visual _cortex mutant plant thaliana bind escheri_coli operon promote transcription circadi_rhythms -conformation -crystal_structu -diffraction -hydroge_bonding -molecular -network_structu -self _organiz -structure -subunit -x _ray +algorithm +computer +model +molecul_dynamic +program +simulation -biosynthesis -cdna -downstream -gene _transcr -hybridization -messenger -messeng_rna -mrna -non _coding -protein_data -transcription +expression +module +regulation circadi_clock metabol_network genotype upstream +bulk +density +gradient +network_structu +protein_complex +protein_functio +rna _binding +scaffold +strand +subcell_localiz +topology +velocity -budding_yeast -carbon _dioxide -dioxide -oxygen bulk budding cell drosoph_melanog autoregulation arabidopsis sequence sequenc_data sequencing -biology -biomolecular -conformation -conformation -crystal_structu -crystal_structu -diffraction -diffraction -hydroge_bonding -human -local _structu -hydroge_bonding -long _range -information -molecular -informa_process -molecul_biology -molecular -network_structu -network_structu -self _organiz -process -structure -self _organiz -topology -structure -x _ray -subunit +bind -universe +binding_protein -x _ray +chip +cell _surface +dna _binding +epiderm_growth +interaction +molecul_dynamic +intrace_signali +prot_prot_inte +macromolecular +receptor +protein +surface +protein_dna +protein_interac +prot_prot_inte coli downstream promote_sequenc neuron synapti_plastic downstream 1993-1997 homology protein_sequenc +laser +regulat_interac -mass _spectro -spectrometry autoregulation escherichia cortex disease nervous time 1988-1992 topology x _ray autoregulation connectivity hippocampus neural _network clock rhythm rhythmicity -behavior -brain -circadi_rhythms -connectivity -genes _encodin -hippocampus -interneurons -learning -lineage -modular -neuron -structu_informa +epiderm_growth +express_level +kappa +autoregulation +module +overexpression +prot_prot_inte -downstream -gtpase -metabol_network -repression central_nervous circadian circadi_clock 1983-1987 molecul_biology structure subunit oligonucleotid promote_sequenc molecular self _organiz -cell _motilit -chemistry -edge -embryo -fibroblasts -magneti_resonan -mass _spectro -microtubule -spectrometry -spectroscopy -spectrum +burst +infection +protein_functio +replication -electro_microsc -feedbac_regulat -metabol_pathway -microscopy -optimization -phase +cdc14 +recombination +time _scales actin nucleot_sequenc long _range network_structu protein_data transcription transcr_regulat +actin +cell +cell _differe +cytoskeleton +differentiatio +homologous +myosin +stem +stem _cell +transformation -drosophila -drosoph_melanog -epiderm_growth -epistasis -experim_evidenc -melanogaster -notch -pairwise -spindle -tumor -cluster -combine -drosophila -drosoph_melanog -epistasis -lineage -melanogaster -pattern_formati -transduction +circadi_clock +linkage +locus -cell _cycle -edge +transit_state drosophila nucleotide biology local _structu molecular informa_process mrna non _coding autoregulation diffraction hydroge_bonding information messenger messeng_rna +modular +neural _network +oscillation +quantit_trait +signalling +structu_informa -epistasis -lineage -pairwise +cdc14 +cycle +yeast _cell -cell _growth -edge base conformation human hybridization synapse crystal_structu antigen gene _transcr modular -combine -feedbac_control -feedbac_inhibit -mutant -mutation -operate -pathway -regulat_element -regulon -wild +gene _interac +gtpase +resistance +sensitivity -combine -feedbac_control -feedbac_inhibit -operate -pathway -regulat_element -regulon +autoregulation +circadi_clock +metabol_network +strain amino _acid biomolecular gene _express code information specification transduction repression -bacillus -biomass -code -composition -cycle -environ_conditi -messenger -messeng_rna -organism -variation +amino _acid +homology +nucleotide +nucleot_sequenc +oligonucleotid +promote_sequenc +sequence +sequencing +upstream -autoregulation -biology -complex_network -formalism -complex_network -molecul_biology -crystal_structu -multice_organis -formalism -optimization -multice_organis -structu_basis -optimization -time _scales -self _organiz -transit_state -structu_basis +biomolecular -time _scales +conformation -transit_state +diffraction +local _structu +hydroge_bonding +long _range +network_structu +topology +structure +subunit +x _ray +biosynthesis +cdna +downstream +gene _express +hybridization +non _coding +protein_data +transcr_regulat -code -protein_sequenc -sequenc_data development brain gtpase metabol_network regulon mouse neuron behavior escheri_coli escheri_coli interneurons circadi_rhythms 1978-1982 +development +information +modular +specification +synapse -gene _transcr -messenger -mrna -transcription structu_informa -liver -mechanism -temperature -time _series -timing Przyrembel H. Van Acker J. Miliotis Cole M.M. BernardMarch D. D. Kelly L. Ross W. Cravioto Humphrey T. E. Farber J. Estuningsih S. Anderson W. D.M.T. Hartnett Nasinyama G. Forsythe Schuch S. Maczka Todd E.C. Yoe C C. Coignard B. Hudson J.A. -0-Amma N Anandavally Cerf O. Hartung M.Newell D. Walls I. Esteban E. Higuera-Ciapara I. Lindquist R. Tompkin R. computer machine_learnin saccharomyces experim_evidenc putative transport feedbac_control base formalism reaction transition transit_state process downstream coli connectivity hippocampus time timing Navigation dans des bases de données biparties, identification de structures remarquables, aide à la décision. Ross W. Todd E.C. Tompkin R. level participate autoregulation Doyle M.P. Farber J. budding participate experiment disruption +combine +feedbac_control +mutant +mutation +operate +pathway +regulat_element +sensitive +wild -biology -convergence -feedback -feedbac_regulat -molecular -molecul_biology -yeas_sacc_cere bacillus crystal_structu entropy cellula_process sequenc_data cdna genes _encodin rhythm temperature time _series -clock -time +cycle Klein G. Farber J. messeng_rna protein_sequenc operon transcr_regulat catalysis cellular messenger messenger nucleus mrna transcription biologi_process code eukaryo_cells messenger operon +downstream +gtpase +promote +metabol_network +regulon +phage +repression -combine -combine -construct -construct -operon -transduction circadi_rhythms mechanism rhythmicity Représentation de réseaux hétérogènes Lindgren S. Luna J.F. Ababouch Lima Dos Santos C. Liu L. X.Nader A. Skinner R. Caipo M. Engeljohn D. Luber P. Cordier J. Block C. Hald T. dependence cerevisiae complex cytochrome molecular yeas_sacc_cere -cell -cell _cycle -cell _divisio -concentration -division -environment -expression -parameter -single _cell -synapse -temperature +bacillus +base +composition +organism +variation +autoregulation +complex_network +crystal_structu +formalism +multice_organis +optimization +self _organiz +structu_basis +time _scales +transit_state -convergence -regulon -determine -environment -expression -probability -process -reliability +catalysis +entropy +reaction +transition +transit_state biosynthesis liver Carlos C. Cowden J. Forsythe S. Havelaar A Ebel E. Lefferts L. Schlosser W. Muytjens H. Van Gerwen S. O.O. Komolafe Walderhaug M. Jouve J. Zwietering Vicari Przyrembel H. Morales R. M. A. Van Acker J. Vanderlinde P. Notermans S.Snary E. Desmarchelier P. Roberts T.A. March A. D. Nauta M. JansenMead Bowen J. G. Wahlstrom H.Fazil A. Cravioto Schuch D.M.T. Estuningsih S. Nasinyama G. Maczka C. Yoe C Whiting Paoli G. A R.C Coignard B. Hudson J.A.Lammerding -0-Amma N Anandavally Humphrey T. Cerf O. Buchanan R. Van Schothorst Esteban E. Higuera-Ciapara I. Kelly L. Cole M. Mensah P. D. Lindquist R.Jordan Newell D. M. Hartung Hartnett E. Anderson W. Dobson S. Sumner J. McMeekin Ross T. T. code gene _transcr escheri_coli brain clock Karunasagar I. Mitchell R.T. chromatin combine construct escherichia +brain +connectivity +genes _encodin +hippocampus +interneurons +lineage +neuron +structu_informa -circadian -clock -fusion -fuzzy -human _protein -rhythm -rhythmicity +circadi_clock +liver +mechanism +temperature +time +time _series +timing circadi_rhythms Caswell J.A. +messeng_rna +protein_sequenc +sequenc_data -gene _transcr -mrna -transcription -biomass -coli -determine -environment -escherichia -escheri_coli -expression -filament -probability -reliability -state -uncertainty +biologi_process +cellular +level +participate biology Igimi S. Kasuga F. Kumagai S. Kiehlbauch J. Yamamoto S. 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Balakrish Nair convergence process mrna transcription concentration biology expression probability messenger filament biomass environment code gene _transcr coli escherichia escheri_coli -gain -intercellular -perform +fusion +human _protein circadi_clock Une analyse longitudinale permet de tracer l'émergence d'autorités ou les processus d'enrôlement, de mettre en évidence les collèges invisibles correspondant à des communautés épistémiques pré-existantes. cellula_process rna _polymer Taylor E. D'Aoust J. slice:13 time:13.000-14.000 biomass gain mice mouse perform uncertainty circadian Jordan D. Clydesdale F. fuzzy intercellular circadi_rhythms Comp e e Ne wo E dos Reny Ne wo Sca e F ee Ne wo Even Based Ne wo Rea Ne wo On cherche à comprendre comment la topologie d'un réseau donné peut influer sur la dynamique de diffusion de l'information. 1 08 04 06 04 02 02 0 0 Réseaux bipartis, hypergraphiques, et projetés, modèle de formation d'équipes 0 20000 40000 Expérience de diffusion en ligne Diffusion et topologie 06 D F k k k k k 0 60000 S mu a on T me S eps 40000 80000 Mise en place d'un protocole expérimentale pour collecter des données et mesurer un phénomène de diffusion in-vivo 80000 100000 120000 l'arbre de diffusion de l'application Happyflu sur internet simulation d'un processus de diffusion sur un réseau réel et des réseaux stylisés Calendrier et perspectives ! Production Publications Participation à des projets: - ANR COBINA - Connaissances Biologiques et Normes d'Action Publiques - 2007-2010 - ANR LinkFluence - 2008 - 2010 - PROJET MOMA Caldendrier: - écriture à compter de novembre 2008, - soutenance escomptée en mars 2009. - ``How realistic knwoledge diffusion networks should be?", J.P. Cointet & C. Roth, JASSS -- Vol. 10, No. 3 - June 2007 - ``Bottom-up scientific field detection for dynamical and hierarchical science mapping - methodology and case study", D. Chavalarias & J.P. Cointet, Scientometrics -- Vol. 75, No. 1 - April 2008 - ``Multi-level science mapping with asymmetrical paradigmatic proximity", J-P. Cointet & D. Chavalarias, NHM (Network and Heterogeneous media) -- Vol. 3, No. 2 - June 2008 Conférences internationales - ``Cycles in hypergraph-based networks: signal or noise, artefacts or processes", L. Tabourier, J-P. Cointet, C. Roth, 10e rencontres francophones sur les aspects ALGOrithmiques des TELécommunications-- St. Malo -- mai 2008 - ``Science mapping with asymetrical semantic proximity", D. Chavalarias & J.P. Cointet, ECCS : European Conference on Complex Systems -- Dresden, Germany -- October 2007 - ``Information diffusion on realistic networks", J.P. Cointet & C. Roth, 9th ``francophone summit on algorithms for telecommunications'' -- Ile d'Oléron, France -- May 2007 - ``Intertemporal topic correlations in online media", J.P. Cointet, E. Faure, C. Roth, ICWSM : International Conference on Weblogs and Social Media -- Boulder, CO, USA -- March 2007 Organisation journée thématique - Journée thématique ``Dynamiques de graphes", organisation : J.P. Cointet, Clémence Maginen, Guillaume Valadon, ISCPIF - 13 octobre 2008