Publications

https://scholar.google.com/citations

  • Peer reviewed international journal
  • Peer reviewed international conference with published acts
  • International conference whithout published acts
    • Leyrolle Q, Decoeur F, Dejean C, Brière G, Leon S, Bakoyiannis I, Baroux E, Sterley TL, Bosch-Bouju C, Morel L, Amadieu C, Lecours C, St-Pierre MK, Bordeleau M, De Smedt-Peyrusse V, Séré A, Schwendimann L, Grégoire S, Bretillon L, Acar N, Joffre C, Ferreira G, Uricaru R, Thebault P, Gressens P, Tremblay ME, Layé S, Nadjar A. N-3 PUFA deficiency disrupts oligodendrocyte maturation and myelin integrity during brain development. Glia. 2022 70(1):50-70. URL
    • Brière G, Darbo É, Thébault P*, Uricaru R*. Consensus clustering applied to multi-omics disease subtyping. BMC Bioinformatics. 2021 6;22(1):361. URL
    • Matthew C. Altman, Darawan Rinchai, Nicole Baldwin, Mohammed Toufiq, Elizabeth Whalen, Mathieu Garand, Basirudeen Syed Ahamed Kabeer, Mohamed Alfaki, Scott R. Presnell, Prasong Khaenam, Aaron Ayllón-Benítez, Fleur Mougin, Patricia Thébault, Laurent Chiche, Noemie Jourde-Chiche, J. Theodore Phillips, Goran Klintmalm, Anne O’Garra, Matthew Berry, Chloe Bloom, Robert J. Wilkinson, Christine M. Graham, Marc Lipman, Ganjana Lertmemongkolchai, Davide Bedognetti, Rodolphe Thiebaut, Farrah Kheradmand, Asuncion Mejias, Octavio Ramilo, Karolina Palucka, Virginia Pascual, Jacques Banchereau & Damien Chaussabel Development of a fixed module repertoire for the analysis and interpretation of blood transcriptome data. Nature Communications . 2021 volume 12, Article number: 4385. URL
    • Q. Leyrolle, F. Decoeur, G. Briere, C. Amadieu, A. R. A. A. Quadros, I. Voytyuk, C. Lacabanne, A. Benmamar-Badel, J. Bourel, A. Aubert, A. Sere, F. Chain, L. Schwendimann, B. Matrot, T. Bourgeois, S. Grégoire, J. G. Leblanc, A. De Moreno De Leblanc, P. Langella, G. R. Fernandes, L. Bretillon, C. Joffre, R. Uricaru, P. Thebault, P. Gressens, J. M. Chatel, S. Layé & A. Nadjar Maternal dietary omega-3 deficiency worsens the deleterious effects of prenatal inflammation on the gut-brain axis in the offspring across lifetime. Neuropsychopharmacol. 2021 46, 579–602 .URL
    • Fleury H, Caldato S, Recordon-Pinson P, Thébault P, Guidicelli GL, Hessamfar M, Morlat P, Bonnet F and Visentin J. ART-Treated Patients Exhibit an Adaptive Immune Response against the HFVAC Peptides, a Potential HIV-1. Therapeutic Vaccine (Provir/Latitude45 Study). Viruses 2020 12(11), 1256; URL
    • Aaron Ayllon-Benitez, Romain Bourqui, Patricia Thébault $, Fleur Mougin $. GSAn: an alternative to enrichment analysis for annotating gene sets. NAR Genomics and Bioinformatics.June 2020. Volume 2, Issue 2. URL
    • Q. Leyrolle, F. Decoeur, G. Briere, C. Amadieu, A. R. A. A. Quadros, I. Voytyuk, C. Lacabanne, A. Benmamar-Badel, J. Bourel, A. Aubert, A. Sere, F. Chain, L. Schwendimann, B. Matrot, T. Bourgeois, S. Grégoire, J. G. Leblanc, A. De Moreno De Leblanc, P. Langella, G. R. Fernandes, L. Bretillon, C. Joffre, R. Uricaru, P. Thebault, P. Gressens, J. M. Chatel, S. Layé & A. Nadjar. Maternal dietary omega-3 deficiency worsens the deleterious effects of prenatal inflammation on the gut-brain axis in the offspring across lifetime. Neuropsychopharmacology. Août 2020. URL
    • Hervé Fleury, Sabrina Caldato, Patricia Recordon-Pinson, Patricia Thebault, Gwenda-Line Guidicelli, Mojgan Hessamfar, Philippe Morlat, Fabrice Bonnet and Jonathan Visentin. ART-Treated Patients Exhibit an Adaptive Immune Response against the HFVAC Peptides, a Potential HIV-1 Therapeutic Vaccine (Provir/Latitude45 Study). Viruses. 2020. URL
    • Ipoutcha T, Tsarmpopoulos I, Talenton V, Gaspin C, Moisan A, A. Walker C, Brownlie J, Blanchard A, Thébault P and Sirand-Pugnet P. Multiple Origins and Specific Evolution of CRISPR/Cas9 Systems in Minimal Bacteria (Mollicutes).Front. Microbiol. 2019 Nov. Volume 10. URL
    • A. Ayllon-Benitez, F. Mougin, P. Thébault. rGSAn: A R package dedicated to the gene set analysis using semantic similarity measures. In 2019 useR! Conferece, 9-12, July, Toulouse (France) 2019.
    • A. Ayllon-Benitez, F. Mougin, P. Thébault. Evaluating the impacts of semantic similarity measures on the annotation of gene sets. IIn 2019 JOBIM Conference, 2-5, July, Nantes (France) 2019.
    • Ayllon-Benitez A, Mougin F, Allali J, Thiébaut R, Thébault P. A new method for evaluating the impacts of semantic similarity measures on the annotation of gene sets. Plos One. 2018 27 Nov. 13(11):e0208037. URL
    • Mougin F, Auber D, Bourqui R, Diallo G, Dutour I, Jouhet V, Thiessard F, Thiébaut R, Thébault P. Visualizing omics and clinical data: Which challenges for dealing with their variety? Methods. 2017 Sep 6. pii: S1046-2023(17)30036-1. URL
    • Aaron Ayllon-Benitez, Patricia Thébault, Jesualdo Tomas Fernández-Breis, Manuel Quesada-Martínez, Fleur Mougin, Romain Bourqui. Deciphering gene sets annotations with Ontology based visualization. in Proc. of the 21st International Conference on Information Visualisation (IV'17), to appear, 2017.
    • Romain Bourqui, Isabelle Dutour, Jonathan Dubois, William Benchimol and Patricia Thébault. rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining. BMC Bioinformatics, 18:188, 2017.URL
    • Joris Sansen J, Patricia Thébault P, Isabelle Dutour, Romain Bourqui. Visualization of sRNA-mRNA Interaction Predictions. in Proceedings in of the 20th International Conference on Information Visualisation (IV'16), pp. 342-347, Lisboa, Portugal. ; 342-347, 2016. URL
    • Patricia Thébault, Romain Bourqui, William Benchimol, Christine Gaspin, Pascal Sirand- Pugnet, Raluca Uricaru and Isabelle Dutour. Advantages of mixing bioinformatics and visualization approaches for analyzing sRNA-mediated regulatory bacterial networks. Briefings in Bioinformatics, 16(5): 795–805, 2015. URL
    • Joris Sansen, Romain Bourqui, Patricia Thebault, Julien Allali and David AuberVisualizing RNA Secondary Structure Base Pair Binding Probabilities using Nested Concave Hulls. Biovis contest, 5th Symposium on Biological Data Visualization, 2015. URL
    • William Benchimol, Patricia Thébault , Thomas Bandres, Jonathan Dubois, Isabelle Dutour, Romain Bourqui. rNAV, a new software mixing bioinformatics and visualization approaches for analysing bacterial sRNA-mediated regulatory networks. 6th Bordeaux RNA Club Workshop, June 26-27, 2014.
    • Jonathan Dubois, Amine Ghozlane, Patricia Thébault, Isabelle Dutour, Romain Bourqui. Genome-wide detection of sRNA targets with rNAV. in Proceedings in 3rd IEEE Symposium on Biological Data Visualization, 13-14 October 2013, Atlanta, USA. 2013; 81-88. PDF
    • Amine Ghozlane, Frédéric Bringaud, Hayssam Souedan, Isabelle Dutour1, Fabien Jourdan and Patricia Thébault. Flux analysis of the Trypanosoma brucei glycolysis based on a multi-objective criteria bioinformatic approach. Advances in Bioinformatics, 2012,  :159423. doi: 10.1155/2012/159423. URL
    • Tardy F, Baranowski E, Nouvel LX, Mick V, Manso-Silvàn L, Thiaucourt F, Thébault P, Breton M, Sirand-Pugnet P, Blanchard A, Garnier A, Gibert P, Game Y,  Poumarat F, Citti C. Emergence of atypical Mycoplasma agalactiae strains harboring a new prophage and associated with an alpine wild ungulate mortality episode. Appl Environ Microbiol. 2012 Jul;78(13):4659-68. Epub 2012 Apr 20. PubMed PMID: 22522685; PubMed Central PMCID: PMC3370481.
    • Dupuy V, Manso-Silván L, Barbe V, Thebault P, Dordet-Frisoni E, Citti C, Poumarat F, Blanchard A, Breton M, Sirand-Pugnet P, Thiaucourt F. Evolutionary History of Contagious Bovine Pleuropneumonia Using Next Generation Sequencing of  Mycoplasma mycoides Subsp. mycoides "Small Colony". PLoS One. 2012;7(10):e46821. 
    • Jonathan Dubois*, Ludovic Cottret, Patricia Thebault, Frédéric Bringaud, Amaine ghozlane,Fabien Jourdan, David Auber and Romain Bourqui. Systrip: a visual environment for the investigation of time-series data in the context of metabolic networks. IV 2012, 16th IEEE international conference on Information Visualisation. (2012) 8-13th July 2012, Montpellier.
    • Patricia Thebault. A multi-objective heuristic integrating biological data for flux analysis in metabolic networks, Open Source Software for Systems, Pathways, Interactions and Networks (SPIN-OSS) retreat being held at the Wellcome Trust Genome Campus, EBI, England, 14-16 November 2012.
    • Lemaitre C, Barré A, Citti C, Tardy F, Thiaucourt F, Sirand-Pugnet P, Thébault P. A novel substitution matrix fitted to the compositional bias in Mollicutes improves the prediction of homologous relationships. BMC Bioinformatics. 2011 24;12:457. PubMed PMID: 22115330; PubMed Central PMCID: PMC3248887.
    • Amine Ghozlane, Frédéric Bringaud,  Fabien Jourdan and PatriciaThébault. Metaboflux : a method to analyse flux distributions in metabolic networks. (2010). Metabolomics conference 2010 . Amsterdam june 27 - july 1
    • Vincent Lacroix, Ludovic Cottret, Patricia Thébault, Marie-France Sagot: An Introduction to Metabolic Networks and Their Structural Analysis. IEEE/ACM Trans. Comput. Biology Bioinform. 5(4): 594-617 (2008)
    • Thébault P., DeGivry S., Schiex T. and Gaspin C. Searching RNA motifs and their intermolecular contacts with constraint networks Bioinformatics, 22(17):2074-2080, 2006.
    • Renalier M.H., Joseph S., Gaspin C., Thébault P., and Mougin Héléne. The tRNA modification Cm56 is catalized either by a specific 2'-O-methylase, or a C/D sRNP upon Archaea. RNA journal. 11(7):1051-63, 2005 
    • Christine Gaspin, Simon de Givry, Thomas Schiex, Patricia Thébault, and Matthias Zytnicki. A new local consistency for weighted CSP applied to ncRNA detection. Workshop on Constraint Based Methods for Bioinformatics October 5, 2005, Sitges (Spain)
    • Thébault P. , DeGivry S., Schiex T. and Gaspin C. Combining constraint processing and pattern matching to describe and locate structured motifs in genomic sequences. Fifth IJCAI-05 Workshop on Modelling and Solving Problems with Constraints, Edindurgh, Scotland, 2005. 
    • Salanoubat M, Genin S, Artiguenave F, Gouzy J, Mangenot S, Arlat M, Billault A, Brottier P, Camus JC, Cattolico L, Chandler M, Choisne N, Claudel-Renard C, Cunnac S, Demange N, Gaspin C, Lavie M, Moisan A, Robert C, Saurin W, Schiex T, Siguier P, Thébault P , Whalen M, Wincker P, Levy M, Weissenbach J, and Boucher CA. Genome sequence of the plant pathogen ralstonia solanacearum. Nature, 415(6871):497-502, 2002.
    • Capela D., Barloy-Hubler F., Gouzy J., Bothe G., Ampe F., Batut J., Boistard P., Becker A., Boutry M., Cadieu E., Dreano S., Gloux S., Godrie T., Goffeau A., Kahn D., Kiss E., Lelaure V., Masuy D., Pohl T., Portetelle D., Puehler A., Purnelle B., Ramsperger U., Renard C., Thébault P., Vandenbol M., Weidner S., Galibert F. Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021. Proc. Natl. Acad. Sci. U.S.A..98:9877-9882, 2001.
    • Galibert, F., T. M. Finan, S. R. Long, A. Pühler, A. P. Abola, F. Ampe, F. Barloy-Hubler, M. J. Barnett, A. Becker, P. Boistard, G. Bothe, M. Boutry, L. Bowser, J. Buhrmester, E. Cadieu, D. Capela, P. Chain, A. Cowie, R. W. Davis, S. Dréano, N. A. Federspiel, R. F. Fisher, S. Gloux, T. Godrie, A. Goffeau, B. Golding, J. Gouzy, M. Gurjal, I. Hernandez-Lucas, A. Hong, L. Huizar, R. W. Hyman, T. Jones, D. Kahn, M. Kahn, S. Kalman, D. H. Keating, E. Kiss, C. Komp, V. Lelaure, D. Masuy, C. Palm, M. C. Peck, T. M. Pohl, D. Portetelle, B. Purnelle, U. Ramsperger, R. Surzycki, P. Thébault, M. Vandenbol, F.-J. Vorhölter, S. Weidner, D. H. Wells, K. Wong, K.-C. Yeh and Batut, J. The composite genome of the legume symbiont Sinorhizobium meliloti. Science. 293:668-672, 2001.
    • Kahn, D.; Barloy-Hubler, F.; Batut, J.; Becker, A.; Bothe, G.; Capela, D.; Godrie, T.; Goffeau, A.; Gouzy, J.; Masuy, D.; Pohl, T.; Portetelle, D.; Pünier, A.; Purnelle, B.; Thébault, P.; Vandenbol, M.; Weidner, S. & Galibert The Melilo Eu Project: Sequence of the 3.7 Mb Chromosome of Sinorhizobium meliloti Nitrogen Fixation: From Molecules to Crop Productivity, Springer Netherlands, Pedrosa, F.; Hungria, M.; Yates, G. & Newton, W. (Eds.) 2000, 38, 285-286
    • Thébault P., Monestié P., McGrath A. and Higgins D. MIAH : automatic alignment of eukaryotic SSU rRNAs. Bioinformatics 15(4):341-342, 1999
    • Chetouani F., Monestié P., Thébault P., Gaspin C. and Michot B. ESSA: An integrated and interactive computer tool for analysing RNA secondary structure. Nucleic Acids Res. 25(17) : 3514-3522, 1997
    • Mura P.,Thébault P., Papet Y. and Piriou A. Positivity threshold in emergency toxicology: necessity or inconvenience . Toxicorama . 5(4), 1994.

    National conference or journal

    • Dupuy V, Sirand-Pugnet P, Baranowski E, Barré A, Breton M, Couture C, Dordet-Frisoni E, Gaurivaud P, Jacob D, Lemaitre C, Manso-Silván L, Nikolski M, Nouvel LX, Poumarat F, Tardy F, Thébault P, Theil S, Citti C, Blanchard A, Thiaucourt F. Complete Genome Sequence of Mycoplasma putrefaciens Strain 9231, One of the Agents of Contagious Agalactia in Goats. Genome Announc. 2013 Jun 13;1(3).
    • Manso-Silván L, Tardy F, Baranowski E, Barré A, Blanchard A, Breton M, Couture C, Citti C, Dordet-Frisoni E, Dupuy V, Gaurivaud P, Jacob D, Lemaitre C, Nikolski M, Nouvel LX, Poumarat F, Thébault P, Theil S, Thiaucourt F, Sirand-Pugnet P. Draft Genome Sequences of Mycoplasma alkalescens, Mycoplasma arginini, and Mycoplasma bovigenitalium, Three Species with Equivocal Pathogenic Status for Cattle. Genome Announc. 2013 Jun 13;1(3).
    • Dordet-Frisoni E, Baranowski E, Barré A, Blanchard A, Breton M, Couture C, Dupuy V, Gaurivaud P, Jacob D, Lemaitre C, Manso-Silván L, Nikolski M, Nouvel LX, Poumarat F, Sirand-Pugnet P, Thébault P, Theil S, Thiaucourt F, Citti C, Tardy F. Draft Genome Sequences of Mycoplasma auris and Mycoplasma yeatsii, Two Species of the Ear Canal of Caprinae. Genome Announc. 2013 Jun 13;1(3). PMC3707572.
    • Ghozlane A., Dubois J., Dutour I., Bourqui R., Breton M., Thebault P. iRNA: Integrative pipeline for genome-wide detection of sRNA targets, "Autour des ARNs non codant" - Rencontre bioinformatique 2012, France (2012)
    • Patricia Thebault, Outils Bioinformatiques dédiés à la prédiction de cibles de petits ARNs : Application à des données de RNA-SEQ de Mycoplasma pneumoniae. RNA CLUB, 30 sept 2010, Institut Européen de Chimie et Biologie (IECB), Bordeaux, France.
    • Patricia Thebault, ARN non codant, de la Biologie à la Bioinformatique, Premières Journées TREE Master, 6-8 décembre 2010, Labri, Bordeaux, France.
    • Amine Ghozlane*, Frédéric Bringaud, Fabien Jourdan and Patricia Thébault. Metaboflux : a method to analyse flux distributions in metabolic networks. (2010). Journées Ouverte de Bioinformatique et Mathématiques (JOBIM) (short presentation given by Amine Ghozlane). 7-9 septembre Montpellier.
    • Gaspin C. et Thébault P. Identification d'ARN non codants. Biofutur, Janvier 2005. 251, 33-36
    • Zytnicki M. et Thébault P. Réseaux de contraintes et recherche de motifs structurés, Séminaires : Indexation de texte et découverte de motifs, Algorithmique des séquences, LIFL, 9/10 décembre 2004, Dijon.
    • Thébault P. Formalisme CSP et localisation de motifs structurés dans les textes génomiques. Séminaire mathématiques pour le génome , 13 Janvier 2004, INRA, Jouy-en-Josas.
    • Thébault P., Allouche D., Gaspin C. Recherche d'ARN non codants structurés : analyse comparative des outils existants.2002, SIFRARN, Nancy.
    • Thébault P., Allouche - D., Gaspin C. Evaluation of methods for the searching RNA motifs task. ECCB'2002, Saarsbrucken, Allemagne.
    • Thébault P., Schiex T., Kahn D. et Gouzy. J. L'environnement iANT : integrated ANnotation Tool. JOBIM'2000, Montpellier, France.
    • Schiex T., Thébault P. and Kahn D. Recherche des gènes et des erreurs de séquençage dans les génomes bactériens GC-riches (et autres..). JOBIM'2000, Montpellier, France.