Ludovic Cottret

92
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Publications

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Insights into the metabolic specificities of pathogenic strains from the Ralstonia solanacearum species complex

Caroline Baroukh , Ludovic Cottret , Emma Pires , Rémi Peyraud , Alice Guidot et al.
mSystems, 2023, 18 p. ⟨10.1128/msystems.00083-23⟩
Article dans une revue hal-04172034 v1
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An integrated approach reveals how lipo‐chitooligosaccharides interact with the lysin motif receptor‐like kinase MtLYR3

Younes Bouchiba , Jérémy Esque , Ludovic Cottret , Maude Maréchaux , Mégane Gaston et al.
Protein Science, 2022, 31 (6), 17 p. ⟨10.1002/pro.4327⟩
Article dans une revue hal-03684572 v1
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MtEFD and MtEFD2: Two transcription factors with distinct neofunctionalization in symbiotic nodule development

Marie-Françoise Jardinaud , Justine Fromentin , Marie-Christine Auriac , Sandra Moreau , Yann Pecrix et al.
Plant Physiology, 2022, 189 (3), pp.1587 - 1607. ⟨10.1093/plphys/kiac177⟩
Article dans une revue hal-03728310 v1
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A multi-organ metabolic model of tomato predicts plant responses to nutritional and genetic perturbations

Léo Gerlin , Ludovic Cottret , Antoine Escourrou , Stéphane Genin , Caroline Baroukh
Plant Physiology, 2022, 188 (3), pp.1709-1723. ⟨10.1093/plphys/kiab548⟩
Article dans une revue hal-03727243 v1
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Rhizobium leguminosarum symbiovar viciae strains are natural wheat endophytes that can stimulate root development

Claudia Bartoli , Stéphane Boivin , Marta Marchetti , Carine Gris , Virginie Gasciolli et al.
Environmental Microbiology, 2022, 24 (11), pp.5509-5523. ⟨10.1111/1462-2920.16148⟩
Article dans une revue hal-04204399 v2
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Rhizocarpon geographicum Lichen Discloses a Highly Diversified Microbiota Carrying Antibiotic Resistance and Persistent Organic Pollutant Tolerance

Alice Miral , Adam Kautsky , Susete Alves Carvalho , Ludovic Cottret , Anne-Yvonne Guillerm-Erckelboudt et al.
Microorganisms, 2022, 10 (9), pp.1859. ⟨10.3390/microorganisms10091859⟩
Article dans une revue hal-04204410 v2
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MERRIN: MEtabolic Regulation Rule INference from time series data

Kerian Thuillier , Caroline Baroukh , Alexander Bockmayr , Ludovic Cottret , Loïc Paulevé et al.
Bioinformatics, 2022, 38 (Supplement_2), pp.ii127-ii133. ⟨10.1093/bioinformatics/btac479⟩
Article dans une revue hal-03701755 v2
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EffectorK, a comprehensive resource to mine for Ralstonia, Xanthomonas, and other published effector interactors in the Arabidopsis proteome

Manuel Gonzalez‐fuente , Sébastien Carrere , Dario Monachello , Benjamin G Marsella , Anne‐claire Cazalé et al.
Molecular Plant Pathology, 2020, 21 (10), pp.1257-1270. ⟨10.1111/mpp.12965⟩
Article dans une revue hal-03052440 v1
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An ancestral signalling pathway is conserved in intracellular symbioses-forming plant lineages

Guru Radhakrishnan , Jean Keller , Mélanie K Rich , Tatiana Vernié , Duchesse Lacour Mbadinga Mbadinga et al.
Nature Plants, 2020, 6 (3), pp.280-289. ⟨10.1038/s41477-020-0613-7⟩
Article dans une revue hal-02550894 v1
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Genome-Scale Investigation of the Metabolic Determinants Generating Bacterial Fastidious Growth

Léo Gerlin , Ludovic Cottret , Sophie Cesbron , Geraldine G. Taghouti , Marie-Agnès Jacques et al.
mSystems, 2020, 5 (2), 15 p. ⟨10.1128/mSystems.00698-19⟩
Article dans une revue hal-02901652 v1
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Computational analysis of the Plasmodiophora brassicae genome: mitochondrial sequence description and metabolic pathway database design

Stéphanie Daval , Arnaud Belcour , Kévin Gazengel , Ludovic Legrand , Jerome Gouzy et al.
Genomics, 2019, 111 (6), pp.1629-1640. ⟨10.1016/j.ygeno.2018.11.013⟩
Article dans une revue hal-01943250 v1
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Sunflower resistance to multiple downy mildew pathotypes revealed by recognition of conserved effectors of the oomycete Plasmopara halstedii

Yann Pecrix , Luis Fernando Buendia Martin , Charlotte Penouilh-Suzette , Maude Marechaux , Ludovic Legrand et al.
The Plant Journal, 2019, 97 (4), ⟨10.1111/tpj.14157⟩
Article dans une revue hal-01990159 v1
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Evolutionary History of Plant LysM Receptor Proteins Related to Root Endosymbiosis

Clare Gough , Ludovic Cottret , Benoît Lefebvre , Jean-Jacques Bono
Frontiers in Plant Science, 2018, 9, ⟨10.3389/fpls.2018.00923⟩
Article dans une revue hal-02366084 v1
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LysM Receptor-Like Kinase and LysM Receptor-Like Protein Families: An Update on Phylogeny and Functional Characterization

Luis Fernando Buendia Martin , Ariane Girardin , Tongming Wang , Ludovic Cottret , Benoît Lefebvre
Frontiers in Plant Science, 2018, 9, ⟨10.3389/fpls.2018.01531⟩
Article dans une revue hal-02621378 v1
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Control of primary metabolism by a virulence regulatory network promotes robustness in a plant pathogen

Rémi Peyraud , Ludovic Cottret , Lucas Marmiesse , Stéphane Genin
Nature Communications, 2018, 9, ⟨10.1038/s41467-017-02660-4⟩
Article dans une revue hal-02621546 v1
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MetExploreViz: web component for interactive metabolic network visualization

Maxime Chazalviel , Clément Frainay , Nathalie Poupin , Florence Vinson , Benjamin Merlet et al.
Bioinformatics, 2018, 34 (2), pp.312-313. ⟨10.1093/bioinformatics/btx588⟩
Article dans une revue hal-02621786 v1
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MetExplore: collaborative edition and exploration of metabolic networks

Ludovic Cottret , Clément Frainay , Maxime Chazalviel , Floréal Cabanettes , Yoann Gloaguen et al.
Nucleic Acids Research, 2018, 46 (W1), 8 p. ⟨10.1093/nar/gky301⟩
Article dans une revue hal-01886470 v1
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The Rosa genome provides new insights into the domestication of modern roses

Olivier Raymond , Jerome Gouzy , Jérémy Just , Hélène Badouin , Marion Verdenaud et al.
Nature Genetics, 2018, 50 (6), pp.772-777. ⟨10.1038/s41588-018-0110-3⟩
Article dans une revue hal-01798003 v1
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The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution

Hélène Badouin , Jerome Gouzy , Christopher Grassa , Florent Murat , S Evan Staton et al.
Nature, 2017, 546 (7656), pp.148-152. ⟨10.1038/nature22380⟩
Article dans une revue hal-01603287 v1

Genomic Prediction of Sunflower Hybrids Oil Content

Brigitte Mangin , Fanny Bonnafous , Nicolas Blanchet , Marie-Claude Boniface , Emmanuelle Bret-Mestries et al.
Frontiers in Plant Science, 2017, 8, ⟨10.3389/fpls.2017.01633⟩
Article dans une revue hal-04779355 v1
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Genomic Prediction of Sunflower Hybrids Oil Content

Brigitte Mangin , Fanny Bonnafous , Nicolas Blanchet , Marie-Claude Boniface , Emmanuelle Bret-Mestries et al.
Frontiers in Plant Science, 2017, 8, pp.1-12. ⟨10.3389/fpls.2017.01633⟩
Article dans une revue hal-02624895 v1

Reprogramming of DNA methylation is critical for nodule development in Medicago truncatula.

Carine Satge , Sandra Moreau , Erika Sallet , Gaëlle Lefort , Marie-Christine Auriac et al.
Nature Plants, 2016, 2, pp.16166. ⟨10.1038/nplants.2016.166⟩
Article dans une revue hal-02636585 v1

A laser dissection-RNAseq analysis highlights the activation of cytokinin pathways by nod factors in the <em>Medicago truncatula</em> root epidermis

Marie-Françoise Jardinaud , Stephane Boivin , Nathalie N. Rodde , Olivier Catrice , Anna Kisiala et al.
Plant Physiology, 2016, 171 (3), pp.2256-2276. ⟨10.1104/pp.16.00711⟩
Article dans une revue hal-02639350 v1
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A Resource Allocation Trade-Off between Virulence and Proliferation Drives Metabolic Versatility in the Plant Pathogen Ralstonia solanacearum

Rémi Peyraud , Ludovic Cottret , Lucas Marmiesse , Jerome Gouzy , Stéphane Genin
PLoS Pathogens, 2016, 12 (10), pp.e1005939. ⟨10.1371/journal.ppat.1005939⟩
Article dans une revue hal-01404552 v1
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FlexFlux: combining metabolic flux and regulatory network analyses

Lucas Marmiesse , Rémi Peyraud , Ludovic Cottret
BMC Systems Biology, 2015, 9, ⟨10.1186/s12918-015-0238-z⟩
Article dans une revue hal-02633823 v1
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TrypanoCyc: a community-led biochemical pathways database for <em>Trypanosoma brucei</em>

Sanu Shameer , Flora J. Logan-Klumpler , Florence Vinson , Ludovic Cottret , Benjamin Merlet et al.
Nucleic Acids Research, 2015, 43 (D1), pp.D637 - D644. ⟨10.1093/nar/gku944⟩
Article dans une revue hal-02631222 v1
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Identification and phylogenetic analyses of VASt, an uncharacterized protein domain associated with lipid-binding domains in Eukaryotes

Mehdi Khafif , Ludovic Cottret , Claudine Balague , Sylvain Raffaele
BMC Bioinformatics, 2014, 15, 12 p. ⟨10.1186/1471-2105-15-222⟩
Article dans une revue hal-02636200 v1

An integrated analysis of plant and bacterial gene expression in symbiotic root nodules using laser-capture microdissection coupled to RNA sequencing

Brice Roux , Nathalie Rodde , Marie-Françoise Jardinaud , Ton Timmers , Laurent Sauviac et al.
The Plant Journal, 2014, 77 (6), pp.817-837. ⟨10.1111/tpj.12442⟩
Article dans une revue hal-03082945 v1
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Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure

Paulo Vieira Milreu , Cecilia Coimbra Klein , Ludovic Cottret , Vicente Acuña , Etienne E. Birmelé et al.
Bioinformatics, 2014, 30 (1), pp.61-70. ⟨10.1093/bioinformatics/btt597⟩
Article dans une revue hal-00922567 v1
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Exploration of the core metabolism of symbiotic bacteria

Cecilia Coimbra Klein , Ludovic Cottret , Janice Kielbassa , Hubert Charles , Christian Gautier et al.
BMC Genomics, 2012, 13 (1), pp.438. ⟨10.1186/1471-2164-13-438⟩
Article dans une revue hal-00784396 v1
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Telling stories: Enumerating maximal directed acyclic graphs with a constrained set of sources and targets

Vicente Acuña , Etienne Birmelé , Ludovic Cottret , Pierluigi Crescenzi , Fabien Jourdan et al.
Theoretical Computer Science, 2012, 457, pp.1--9. ⟨10.1016/j.tcs.2012.07.023⟩
Article dans une revue hal-00764025 v1
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Transcriptome database resource and gene expression atlas for the rose

André Dubois , S. Carrere , O. Raymond , B. Pouvreau , L. Cottret et al.
BMC Genomics, 2012, 13, pp.638. ⟨10.1186/1471-2164-13-638⟩
Article dans une revue hal-00841830 v1

Algorithms and complexity of enumerating minimal precursor sets in genome-wide metabolic networks.

Vicente Acuña , Paulo Vieira Milreu , Ludovic Cottret , Alberto Marchetti-Spaccamela , Leen Stougie et al.
Bioinformatics, 2012, 28 (19), pp.2474-2483. ⟨10.1093/bioinformatics/bts423⟩
Article dans une revue hal-00751715 v1
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A genomic reappraisal of symbiotic function in the aphid/buchnera symbiosis: reduced transporter sets and variable membrane organisations.

Hubert Charles , Severine Balmand , Araceli Lamelas , Ludovic Cottret , Vicente Pérez-Brocal et al.
PLoS ONE, 2011, 6 (12), pp.e29096. ⟨10.1371/journal.pone.0029096⟩
Article dans une revue hal-00659506 v1
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CycADS: an annotation database system to ease the development and update of BioCyc databases.

Augusto F Vellozo , Amélie S Véron , Patrice Baa-Puyoulet , Jaime Huerta-Cepas , Ludovic Cottret et al.
Database - The journal of Biological Databases and Curation, 2011, 2011, pp.bar008. ⟨10.1093/database/bar008⟩
Article dans une revue hal-00632965 v1
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MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks.

Ludovic Cottret , David Wildridge , Florence Vinson , Michael P Barrett , Hubert Charles et al.
Nucleic Acids Research, 2010, 38 (Web Server issue), pp.W132-7. ⟨10.1093/nar/gkq312⟩
Article dans une revue hal-00690651 v1

Graph methods for the investigation of metabolic networks in parasitology

Ludovic Cottret , Fabien Jourdan
Parasitology, 2010, 137, pp.1393-1407. ⟨10.1017/S0031182010000363⟩
Article dans une revue istex hal-02661590 v1
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Graph-based analysis of the metabolic exchanges between two co-resident intracellular symbionts, Baumannia cicadellinicola and Sulcia muelleri, with their insect host, Homalodisca coagulata.

Ludovic Cottret , Paulo Vieira Milreu , Vicente Acuña , Alberto Marchetti-Spaccamela , Leen Stougie et al.
PLoS Computational Biology, 2010, 6 (9), epub ahead of print. ⟨10.1371/journal.pcbi.1000904⟩
Article dans une revue hal-00690650 v1
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Use of reconstituted metabolic networks to assist in metabolomic data visualization and mining

Fabien Jourdan , Ludovic Cottret , Laurence Huc , David Wildridge , Richard Scheltema et al.
Metabolomics, 2010, 6 (2), pp.312-321. ⟨10.1007/s11306-009-0196-9⟩
Article dans une revue hal-02662801 v1

Deciphering the connectivity structure of biological networks using MixNet

Franck Picard , V. Miele , L. Cottret , J.J. Daudin , S. Robin
BMC Bioinformatics, 2009, in press, pp.1-1
Article dans une revue hal-00391483 v1
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Deciphering the connectivity structure of biological networks using MixNet

Franck Picard , Vincent Miele , Jean-Jacques J.-J. Daudin , Ludovic Cottret , Stephane S. Robin
BMC Bioinformatics, 2009, 10, pp.1-11. ⟨10.1186/1471-2105-10-S6-S17⟩
Article dans une revue hal-02658961 v1

Systemic analysis of the symbiotic function of Buchnera aphidicola, the primary endosymbiont of the pea aphid Acyrthosiphon pisum.

Lilia Brinza , José Viñuelas , Ludovic Cottret , Federica Calevro , Yvan Rahbé et al.
Comptes Rendus. Biologies, 2009, 332 (11), pp.1034-49. ⟨10.1016/j.crvi.2009.09.007⟩
Article dans une revue istex hal-00445861 v1

Deciphering the connectivity structure of biological networks using MixNet

Franck Picard , V. Miele , J.J. Daudin , L. Cottret , S. Robin
BMC Bioinformatics, 2009, 10, pp.1-11
Article dans une revue hal-00428390 v1

Analyse systémique de la symbiose intracellulaire : évolution et organisation du réseau métabolique des endocytobiotes

L. Cottret
incollection, 2009, pp.307-316
Article dans une revue hal-00539375 v1

An introduction to metabolic networks and their structural analysis.

Vincent Lacroix , Ludovic Cottret , Patricia Thebault , Marie-France Sagot
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2008, 5 (4), pp.594-617. ⟨10.1109/TCBB.2008.79⟩
Article dans une revue hal-00355497 v1
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Metabolic network visualization eliminating node redundance and preserving metabolic pathways

Romain Bourqui , L. Cottret , Vincent Lacroix , D. Auber , P. Mary et al.
BMC Biology, 2007, 1 - n°29, pp.1-19. ⟨10.1186/1752-0509-1-29⟩
Article dans une revue hal-00434765 v1

Microbiota-Host interactions during juvenile growth: exploration of interconnected metabolic networks

Edern Cahoreau , Pavel Melentev , Hanna Kulyk , Lindsay Peyriga , Justine Bertrand-Michel et al.
NMR metabolomics symposium, Jun 2025, Nantes (France), France
Communication dans un congrès hal-05460083 v1
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MULTI-ORGAN GENOME-SCALE METABOLIC MODELING OF A TOMATO PLANT AT VEGETATIVE GROWTH STAGE

Léo Gerlin , Antoine Escourrou , Ludovic Cottret , Stéphane Genin , Caroline Baroukh
13ème Congrès international de la SFBV, Société Française de la Biologie Végétale, Aug 2022, Montpellier, France
Communication dans un congrès hal-04718279 v1
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Multi-organ genome-scale metabolic modeling of tomato plant

Leo Gerlin , Antoine Escourrou , Ludovic Cottret , Stephane Genin , Caroline Baroukh
7th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2021), Mar 2021, Virtual, France
Communication dans un congrès hal-03350567 v1

Investigation of the metabolic network of Xylella fastidiosa responsible of its fastidious growth

Leo Gerlin , Ludovic Cottret , Sophie Cesbron , Geraldine G. Taghouti , Marie-Agnès Jacques et al.
3rd European Conference on Xylella fastidiosa and the final meeting of the XF-ACTORS project, Apr 2021, Virtual, France
Communication dans un congrès hal-03350588 v1
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Learning Boolean controls in regulated metabolic networks: a case-study

Kerian Thuillier , Caroline Baroukh , Alexander Bockmayr , Ludovic Cottret , Loïc Paulevé et al.
CMSB 2021 - 19th International Conference on Computational Methods in Systems Biology, 2021, Bordeaux, France. pp.159-180, ⟨10.1007/978-3-030-85633-5_10⟩
Communication dans un congrès hal-03207589 v3
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Exploration of the growth-virulence trade-off in the plant pathogen Ralstonia solanacearum species complex

Caroline Baroukh , Emma Pires , Ludovic Cottret , Remi Peyraud , Stéphane Genin
MicrobiOccitanie 2019 - Rencontre des Microbiologistes Région Occitanie, Feb 2019, Montpellier, France
Communication dans un congrès hal-02786961 v1
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Genome-scale investigation of the metabolic determinants generating bacterial fastidious growth

Leo Gerlin , Ludovic Cottret , Sophie Cesbron , Géraldine Taghouti , Marie-Agnès Jacques et al.
Symposium on Synthetic and Systemic Biology, Nov 2019, Bordeaux, France
Communication dans un congrès hal-03350558 v1

Phylogenetic and Phylogenomic Approaches to Decipher the Evolution of the Nitrogen Fixing Root Nodule Symbiosis

Jean Keller , Tatiana Vernié , Hélène San Clemente , Ludovic Cottret , Camille Girou et al.
18th Congress of International-Society-for-Molecular-Plant-Microbe-Interactions (IS-MPMI), International Society for Molecular Plant-Microbe Interactions, Jul 2019, Glasgow, United Kingdom. pp.13-13
Communication dans un congrès hal-02961209 v1
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Visualization of time-series data in the context of metabolic networks with Systrip Software

Jonathan Dubois , Ludovic Cottret , Amine Ghozlane , David Auber , Frédéric Bringaud et al.
Journées Ouvertes Biologie Informatique Mathématiques (JOBIM 2013), Jul 2013, France
Communication dans un congrès hal-00838725 v1
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Systrip: a visual environment for the investigation of time-series data in the context of metabolic networks

Jonathan Dubois , Ludovic Cottret , Amine Ghozlane , David Auber , Frédéric Bringaud et al.
16th International Conference on Information Visualization (IV'12), Jul 2012, Montpellier, France. pp.4771a204
Communication dans un congrès hal-00742176 v1

Réévaluation génomique de la fonction de transport chez Buchnera, endocytobiote des pucerons : une faible diversité de transporteurs et une organisation membranaire variable

Hubert Charles , Severine Balmand , Araceli Lamelas , Ludovic Cottret , Vicente Pérez-Brocal et al.
4. Réunion Réseau Français de Biologie Adaptative des Pucerons et Organismes Associés, Réseau Biologie Adaptative des Pucerons et des Organismes Associés (BAPOA). FRA., Nov 2011, Paris, France
Communication dans un congrès hal-02808863 v1
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Absence of a core metabolic network common to symbiotic bacteria

Cecilia Coimbra Klein , Ludovic Cottret , Hubert Charles , Christian Gautier , Ana Tereza Ribeiro de Vasconcelos et al.
6. Meeting GDRE-RA Comparative genomics, Nov 2011, Lyon, France. 33 diapositives
Communication dans un congrès hal-02806316 v1

Initial metabolic reconstruction of Klebsiella pneumoniae Kp13, a multidrug resistant pathogen involved in nosocomial outbreaks in Brazil

P. Ivan , Cecilia C. Klein , Ludovic Cottret , Ana T Vasconcelos , Ac Gales et al.
X-meeting, 2011, Florianópolis, Brazil
Communication dans un congrès hal-00748781 v1

Telling Stories

Vicente Acuña , Etienne Birmele , Ludovic Cottret , Pierluigi Crescenzi , Fabien Jourdan et al.
ICALP 2011 satellite workshop: Graph Algorithms and Applications (GA), 2011, Zurich, Switzerland. ⟨10.1016/j.tcs.2012.07.023⟩
Communication dans un congrès hal-00748788 v1

Metabolic network comparison of bacteria in the context of symbiosis

Cecilia C. Klein , Ludovic Cottret , Hubert Charles , Christian Gautier , Ana T Vasconcelos et al.
Otto Warburg International Summer School and Research Symposium on Evolutionary Genomics, 2011, Berlin, Germany
Communication dans un congrès hal-00748784 v1

The Acyrthosiphon pisum Cyc database (AcypiCyc) created using a novel BioCyc Annotation Database System (CycADS): a useful tool to explore and study the pea aphid metabolism

Stefano Colella , A. Vellozo , Ludovic Cottret , Gérard Febvay , Federica Calevro et al.
5th Meeting of the International Aphid Genomics Consortium "Pea Aphid Genome Annotation Workshop 2, Barcelona, Espagne, juin 2009, Jun 2009, France
Communication dans un congrès hal-00498411 v1

AcypiCyc (Acyrthosiphon pisum Cyc database) : a model database to visualize and study the metabolic network underlying the pea aphid-Buchnera symbiosis

Stefano Colella , Augusto Vellozo , Ludovic Cottret , Gérard Febvay , Federica Calevro et al.
6. International Symbiosis Society (ISS) Congress, 2009, Madison, août 2009, United States
Communication dans un congrès hal-02814342 v1

CycADS: an annotation management system for the development and update of BioCyc metabolic network databases

A. Vellozo , Patrice Baa-Puyoulet , A. Veron , Jaime Huerta-Cepas , Ludovic Cottret et al.
1st International Workshop on Information Systems for Insect Pests, Rennes, FRANCE, 2009, France
Communication dans un congrès hal-00496032 v1

AcypiCyc (Acyrthosiphon pisum Cyc database) and CycADS (Cyc Annotation Database System): moving from genome sequence annotation to metabolic network analyses

Stefano Colella , A. Vellozo , L. Cottret , G. Febvay , Federica Calevro et al.
8th International Symposium on Aphids (8 ISA 2009), 2009, Catania (Italie), juin 2009, France. pp.1-1
Communication dans un congrès hal-00391280 v1

AcypiCyc (Acyrthosiphon pisumCyc database) and CycADS (CycAnnotation Database System) : moving from genome sequence annotation to metabolic network analyses

Stefano Colella , Augusto Vellozo , Ludovic Cottret , Gérard Febvay , Federica Calevro et al.
Réseau Français de Biologie Adaptative des Pucerons, 2009, Paris, juin 2009, France
Communication dans un congrès hal-02815123 v1

AcypiCyc (Acyrthosiphon pisumCyc database) and CycADS (CycAnnotation Database System) : moving from genome sequence annotation to metabolic network analyses

Stefano Colella , Augusto Vellozo , Ludovic Cottret , Gérard Febvay , Federica Calevro et al.
8. International Symposium on Aphids (8 ISA 2009), 2009, Catania, juin 2009, Italy
Communication dans un congrès hal-02814863 v1

Caractérisation et modélisation de la « fonction symbiotique » de Buchnera aphidicola chez le puceron du pois Acyrthosiphon pisum

Hubert Charles , Federica Calevro , Stefano Colella , Jean-Michel Fayard , Gérard Febvay et al.
Séminaire INRA AgroBI, 2008, Bordeaux, décembre 2008, France
Communication dans un congrès hal-02824972 v1

Development of the Acyrthosiphon pisum Cyc database (ApsCyc) : from genome sequence to metabolic network analyses

Augusto Vellozo , Stefano Colella , Ludovic Cottret , Gérard Febvay , Federica Calevro et al.
Integrative Post-Genomics - IPG'08, 2008, Lyon, novembre 2008, France
Communication dans un congrès hal-02821711 v1

Annotation of metabolism genes: towads the implementation of an Acyrthosiphon pisum Cyc database (ApsCyc) to perform metabolic network analyses

Stefano Colella , A. Vellozo , L. Cottret , G. Febvay , Federica Calevro et al.
4th Meeting of the International Aphid Genomics Consortium "Pea Aphid Genome Annotation Workshop 1", 2008, Princetown (USA), juillet 2008, France. pp.1-1
Communication dans un congrès hal-00391279 v1

Development of the Acyrthosiphon pisum Cyc database (ApsCyc): from genome sequence to metabolic network analyses

A. Vellozo , Stefano Colella , L. Cottret , G. Febvay , Federica Calevro et al.
Integrative Post-Genomics - IPG'08, 2008, Lyon (France), novembre 2008, France. pp.1-1
Communication dans un congrès hal-00391519 v1

Metabolic network reconstruction from genomic annotations

L. Cottret
First Systryp meeting, 2008, Glasgow (UK), juin 2008, France. pp.1-1
Communication dans un congrès hal-00391287 v1

Caractérisation et modélisation de la « fonction symbiotique » de Buchnera aphidicola chez le puceron du pois Acyrthosiphon pisum

H. Charles , Federica Calevro , Stefano Colella , J.M. Fayard , G. Febvay et al.
Séminaire INRA AgroBI, 2008, Bordeaux (France), décembre 2008, France. pp.1-1
Communication dans un congrès hal-00391273 v1

Interactions trophiques dans la symbiose puceron - Buchnera : Régulations transcriptionnelles de la réponse à la carence en acides aminés essentiels

Federica Calevro , H. Charles , J.M. Fayard , G. Febvay , Yvan Rahbé et al.
Réseau Français de Biologie Adaptative des Pucerons, 2008, Paris (France), janvier 2008, France. pp.1-1
Communication dans un congrès hal-00391259 v1

Enumerating precursor sets of target metabolites in a metabolic network

L. Cottret , P.V. Milreu , Vicente Acuna , A. Marchetti-Spaccamela , F. Viduani Martinez et al.
WABI 2008 - 8th International Workshop on Algorithms in Bioinformatics, Sep 2008, Karlsruhe, Germany. pp.233-244
Communication dans un congrès hal-00391292 v1

SymBioCyc: Metabolic data on endosymbiotic, parasitic and free bacteria

L. Cottret , H. Charles , M.F. Sagot
Integrative Post-Genomics - IPG'07, 2007, Lyon (France), novembre 2007, France. pp.1-1
Communication dans un congrès hal-00391290 v1

Regulation of expression following nutritional stresses in the reduced genome of Buchnera aphidicola, "Is there any life left?

Yvan Rahbé , H. Charles , J. Vinuelas , N. Reymond , Federica Calevro et al.
Seminarios del Institut Cavanilles de Biodiversitat i Biologia Evolutiva (ICBiBE) - Univ. Valencia (ESP), 2007, Valencia (Espagne), juin 2007, France. pp.1-1
Communication dans un congrès hal-00391505 v1

Enumerating precursor sets of target metabolites in a metabolic network

L. Cottret , P.V. Milreu , Vicente Acuna , A. Marchetti-Spaccamela , F. Viduani Martinez et al.
8th Workshop on Algorithms in Bioinformatics (WABI), 2007, Karlsruhe (Allemagne), septembre 2008, France. pp.233-244
Communication dans un congrès hal-00391291 v1

Recherche de précurseurs dans un réseau métabolique

L. Cottret , Vicente Acuna , H. Charles , M.F. Sagot
Réseaux d'interaction : analyse, modélisation et simulation (RIAMS), 2007, Villeurbanne (France), novembre 2007, France. pp.1-1
Communication dans un congrès hal-00391288 v1

Régulation génétique et métabolique chez Buchnera aphidicola (AgroBi 2006)

L. Cottret , L. Brinza , J. Vinuelas , G. Duport , Federica Calevro et al.
Journée INRA-INRIA "Insertion des mathématiques dans les approches biologiques : du gène à l'organisme", 2006, Lyon (France), décembre 2006, France. pp.1-1
Communication dans un congrès hal-00391289 v1
Image document

MetExploreViz, online visualisation tool for metabolic networks

Jean-clément Gallardo , Marion Liotier , Florence Vinson , Fabien Jourdan , Ludovic Cottret
Metabolomics 2025, Jun 2025, Prague, Czech Republic. 12, 2016
Poster de conférence hal-05180188 v1

MtCel2, a new cellulase involved in the establishment of the Medicago truncatula-Sinorhizobium meliloti symbiosis

María Isabel Rubia , Lisa Frances , Maria Fernanda Guerrero-Molina , Marilyne Renard , Anaïs Dufour et al.
15th European Nitrogen Fixation Conference, Aug 2023, Naples, Italy
Poster de conférence hal-04909369 v1
Image document

MetExplore: Omics data analysis in the context of metabolic networks

Maxime Chazalviel , Adrien Rohan , Nathalie Poupin , Florence Vinson , Clément Frainay et al.
European RFMF Metabomeeting 2020, Jan 2020, Toulouse, France.
Poster de conférence hal-02948391 v1
Image document

Metabolic modelling of trophic interactions between a plant pathogen and its host plant

Caroline Baroukh , Rémi Peyraud , Ludovic Cottret , Stéphane Genin
International Plant Systems Biology, Sep 2018, Roscoff, France. , 2018
Poster de conférence hal-02786492 v1

TrypanoCyc: a community effort towards the development of a metabolic pathway database for Trypanosoma brucei.

Flora Logan-Klumpler , Ludovic Cottret , Florence Vinson , Fabien Jourdan , Michael Barrett
Kinetoplastid Molecular Cell Biology Meeting (KMCB 2011), 2011, Inconnue, France. 2011
Poster de conférence hal-02803549 v1

MetExplore, a framework for the analysis of metabolic networks: applications in the field of metabolomics data and the study of endocrine disruptors

Ludovic Cottret , Florence Vinson , Nicolas J. Cabaton , Maria-Helena Meireles , Daniel Zalko et al.
6th Copenhagen Workshop on Endocrine Disrupters, Apr 2011, Copenhague, Denmark. 2011
Poster de conférence hal-02802904 v1

MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks

Ludovic Cottret , David Wildridge , Florence Vinson , Michael P. Barrett , Marie-France Sagot et al.
JOBIM 2010, Sep 2010, Montpellier, France. , 1 p., 2010, JOBIM 2010 Montpellier, Journée Ouvertes Biologie Informatique Mathématique, Montpellier, France, 7 - 9 septembre 2010
Poster de conférence hal-02821730 v1

Annotation of metabolism genes : towads the implementation of an Acyrthosiphon pisum Cyc database (ApsCyc) to perform metabolic network analyses

Stefano Colella , Augusto Vellozo , L. Cottret , Gérard Febvay , Federica Calevro et al.
4. Meeting of the International Aphid Genomics Consortium "Pea Aphid Genome Annotation Workshop 1", 2008, Princetown, juillet 2008, United States. 2008
Poster de conférence hal-02818508 v1