Cibi Publications Page

Publications
  • El Helou R, Pinna G, Cabaud O, Wicinski J, Bhajun R, Guyon L, Rioualen C, Finetti P, Gros A, Mari B, Barbry P, Bertucci F, Bidaut G, Harel-Bellan A, Birnbaum D, Charafe-Jauffret E, Ginestier C. miR-600 Acts as a Bimodal Switch that Regulates Breast Cancer Stem Cell Fate through WNT Signaling. Cell Rep. 2017 Feb 28;18(9):2256-2268.
  • Gondois-Rey F, Chéret A, Mallet F, Bidaut G, Granjeaud S, Lécuroux C, Ploquin M, Müller-Trutwin M, Rouzioux C, Avettand-Fenoël V, De Maria A, Pialoux G, Goujard C, Meyer L, Olive D. A Mature NK Profile at the Time of HIV Primary Infection Is Associated with an Early Response to cART. Front Immunol. 2017 Feb 10;8:54
  • Gondois-Rey F, Granjeaud S, Rouillier P, Rioualen C, Bidaut G, Olive D. Multi-parametric cytometry from a complex cellular sample: Improvements and limits of manual versus computational-based interactive analyses. Cytometry A. 2016 May;89(5):480-90. doi: 10.1002/cyto.a.22850.
  • Guillaumond F, Bidaut G, Ouaissi M, Servais S, Gouirand V, Olivares O, Lac S, Borge L, Roques J, Gayet O, Pinault M, Guimaraes C, Nigri J, Loncle C, Lavaut MN, Garcia S, Tailleux A, Staels B, Calvo E, Tomasini R, Iovanna JL, Vasseur S. Cholesterol uptake disruption, in association with chemotherapy, is a promising combined metabolic therapy for pancreatic adenocarcinoma. Proc Natl Acad Sci U S A. 2015 Feb 24;112(8):2473-8. doi: 10.1073/pnas.1421601112.
  • Secq V, Leca J, Bressy C, Guillaumond F, Skrobuk P, Nigri J, Lac S, Lavaut MN, Bui TT, Thakur AK, Callizot N, Steinschneider R, Berthezene P, Dusetti N, Ouaissi M, Moutardier V, Calvo E, Bousquet C, Garcia S, Bidaut G, Vasseur S, Iovanna JL, Tomasini R. Stromal SLIT2 impacts on pancreatic cancer-associated neural remodeling. Cell Death Dis. 2015 Jan 15;6:e1592. doi: 10.1038/cddis.2014.557.
  • Tiberi G, Pekowska A, Oudin C, Ivey A, Autret A, Prebet T, Koubi M, Lembo F, Mozziconacci MJ, Bidaut G, Chabannon C, Grimwade D, Vey N, Spicuglia S, Calmels B, Duprez E. PcG methylation of the HIST1 cluster defines an epigenetic marker of acute myeloid leukemia. Leukemia. 2015 May;29(5):1202-6. doi: 10.1038/leu.2014.339.
  • Zangari J, Partisani M, Bertucci F, Milanini J, Bidaut G, Berruyer-Pouyet C, Finetti P, Long E, Brau F, Cabaud O, Chetaille B, Birnbaum D, Lopez M, Hofman P, Franco M, Luton F. EFA6B antagonizes breast cancer. Cancer Res. 2014 Aug 12. pii: canres.0298.2014.
  • Bonacci T, Audebert S, Camoin L, Baudelet E, Bidaut G, Garcia M, Witzel II, Perkins ND, Borg JP, Iovanna JL, Soubeyran P. Identification of New Mechanisms of Cellular Response to Chemotherapy by Tracking Changes in Post-Translational Modifications by Ubiquitin and Ubiquitin-Like Proteins. J Proteome Res. 2014 Apr 2.
  • Arcangeli ML, Bardin F, Frontera V, Bidaut G, Obrados E, Adams RH, Chabannon C, Aurrand-Lions M. Function of Jam-B/Jam-C interaction in homing and mobilization of human and mouse hematopoietic stem and progenitor cells. Stem Cells. 2014 Apr;32(4):1043-54.
  • O. Stahl, H. Duvergey, A. Guille, P. Finetti, S. Granjeaud, O.Vigy and G. Bidaut. Djeen (Database for Joomla!’s Extensible Engine): A Research Information Management System for flexible multi-technology project administration. BMC Res Notes. 2013 Jun 6;6:223. doi: 10.1186/1756-0500-6-223.
  • M. Garcia, R. Millat-Carus, F. Bertucci, P. Finetti, D. Birnbaum, G. Bidaut. Interactome-Transcriptome integration for predicting distant metastasis in breast cancer. Bioinformatics (2012) 28 (5): 672-678.
  • Bekhouche I, Finetti P, Adelaïde J, Ferrari A, Tarpin C, Charafe-Jauffret E, Charpin C, Houvenaeghel G, Jacquemier J, Bidaut G, Birnbaum D, Viens P, Chaffanet M, Bertucci F. High-resolution comparative genomic hybridization of inflammatory breast cancer and identification of candidate genes. PLoS One. 2011 Feb 9;6(2):e16950.
  • M. Garcia, O. Stahl, P. Finetti, D. Birnbaum, F. Bertucci, and G. Bidaut. Linking interactome to disease: a network-based analysis of metastatic relapse in breast cancer. Handbook of Research on Computational and Systems Biology: Interdisciplinary Applications pp 406-427. L.A. Liu, D Wei, Y. Li, H. Lei Editors. IGI Global.
  • G. Bidaut. Interpreting and comparing clustering experiments though graph visualization and ontology statistical enrichment with the ClutrFree package. Biomedical Informatics for Cancer Research. MF. Ochs, J.T. Casagrande, R.V. Davuluri Editors.
  • G. Bidaut and C.J. Stoeckert. Large Scale Transcriptome Data Integration across Multiple Tissues to Decipher Stem Cell Signatures. Methods Enzymol. 2009;467:229-45.
  • C.Arnaud, M. Sebbagh, S. Nola, S. Audebert, G. Bidaut, A. Hermant, O. Gayet, N.J. Dusetti, V. Ollendorff, M-J. Santoni, J-P. Borg and P. Lécine. MCC, a new interacting protein for Scrib, is required for cell migration in epithelial cell. FEBS Lett. 2009 Jul 21;583(14):2326-32.
  • G. Bidaut and C.J. Stoeckert. Characterization of unknown adult stem cell samples by large scale data integration and artificial neural networks. Proceedings of the Pacific Symposium on Biocomputing 2009:356-67.
  • M. F. Ochs, A. J. Peterson, A. V. Kossenkov, G. Bidaut. Incorporation of Gene Ontology to Enhance Microarray Data Analysis. Methods Mol Biol. 2007;377:243-54.
  • G. Bidaut, K. Suhre, J.-M. Claverie, and M. F. Ochs. Determination of strongly overlapping signaling activity from microarray data. BMC Bioinformatics 2006, 7:99.
  • G. Bidaut, F.J. Manion, C. Garcia, and M.F. Ochs. WaveRead: Automatic measurement of relative gene expression levels from microarrays using wavelet analysis. Journal of Biomedical Informatics 2006 Aug;39(4):379-88.
  • G. Bidaut, K. Suhre, J.-M. Claverie, and M. F. Ochs. Bayesian Decomposition Analysis of Bacterial Phylogenomic Profiles. The American Journal of Pharmacogenomics 5(1):63-70.
  • A.V. Kossenkov, G. Bidaut, and M.F. Ochs. Estimating Cellular Signaling from Microarray Data, in K.A. Do, P. Mueller, M. Vannucci, Editors, Bayesian Inference for Gene Expression and Proteomics, Cambridge University Press.
  • G. Bidaut & M.F. Ochs. ClutrFree: Cluster Tree Visualization and Interpretation. Bioinformatics 20(16): 2869-71.
  • Kossenkov, G. Bidaut, and M.F. Ochs. Genes associated with prognosis in adenocarcinomas across studies at multiple institutions., in J. Shoemaker and S. Lin, Editors, Methods of Microarray Data Analysis IV, 239-253, Kluwer Academic, Boston.
  • J. D. Grant, L. A. Somers, Y. Zhang, F. J. Manion, G. Bidaut, and M. F. Ochs. FGDP: functional genomics data pipeline for automated, multiple microarray data analyzes. Bioinformatics 20(2): 282-283.
  • G. Bidaut, K. Suhre, J.-M. Claverie, M. F. Ochs. Analysis of phylogenetic profiles using Bayesian Decomposition, in Proceedings of the 2003 IEEE Computer Society Bioinformatics Conference, The IEEE Computer Society.
  • M. F. Ochs, T. D Moloshok, G. Bidaut, G. Toby (2003): Bayesian Decomposition: Analyzing microarray data within a biological context, Proceedings of the National Cancer Institute Applications of Bioinformatics in Cancer Detection Workshop, Annals of the New York Academy of Sciences 1020:212-26.
  • G. Bidaut, J.D. Grant, T.D. Moloshok, F. J. Manion, M. F. Ochs (2002): Bayesian Decomposition analysis of gene expression in yeast deletion mutants, in Methods of Microarray Data Analysis II, K. Johnson and S. Lin, Editors, Kluwer Scientifc, Boston.
  • M.F. Ochs and G. Bidaut. Microarray Data Normalization, in Microarray Image Analysis - Nuts and Bolts, S. Shah and G. Kamerova, Editors, DNA Press, LLC: 131-154, London.
Invited Seminars
  • 25-09-2014: C. Rioualen: Cancer stem cells regulatory circuit is deciphered through an interactome–regulome–transcriptome integrative approach. 7th Santorini Conference Biologie Prospective, Thera, Greece
  • 10-10-2013: G. Bidaut: CNV-Interactome-Transcriptome Integration to Detect Driver Genes in Breast Cancer. Cytoscape Retreat and Symposium, Paris, France
  • 04-06-2013: G. Bidaut: CNV-Interactome-Transcriptome Integration to Detect Driver Genes in Cancer. World Biotechnology Congress, Boston, USA
  • 01-06-2013: G. Bidaut: CNV-Interactome-Transcriptome Integration to Detect Driver Genes in Cancer. John Hopkins Distinguished Seminar Series, Baltimore, USA
  • 04-12-2011: M. Garcia: Biomarkers Discovery in Breast Cancer by Interactome-Transcriptome Integration. Mathematical and Statistical Aspects of Molecular Biology, Vienna, Austria
  • 12-06-2010: G.Bidaut: Projet ITI: Découverte de biomarqueurs en Cancérologie par intégration Transcriptome Interactome. Conférence Biologie, Chimie, Physique, CNRS Campus Joseph Aigier, Marseille, France
  • 09-08-2010: G. Bidaut: High throughput genomics data in cancer. Bioinformatics, genomics and cancer. Meeting Cancéropoles Clara-Paca, Centre Léon Bérard, Lyon
  • 09-04-2010: M. Garcia: Biomarkers Discovery in Breast Cancer by Interactome -Transcriptome Integration. Cancer Bioinformatics Workshop, Cambridge, UK.
  • 01-24-2009: G. Bidaut: Integrative Bioinformatics Perspectives - CRCM Team Leader conference
  • 01-09-2009: G. Bidaut: Characterization of unknown adult stem cell samples by large scale data integration and artificial neural networks, Pacific Symposium on Biocomputing (PSB) 2009, Big Island of Hawaii, USA.
  • 10-17-2008: G. Bidaut: Détection de biomarqueurs en cancer par analyse intégrative transcriptome-interactome. Rencontres sur le thème mathématiques et Cancer, LATP, Marseille, France.
  • 03-21-2008: G. Bidaut: Découverte de marqueurs robustes par intégration interactome-transcriptome. Rencontres sur le thème mathématiques et Cancer, Institut Paoli-Calmettes, Marseille, France.
  • 02-23-2007: G. Bidaut: High throughput analysis deciphers signaling pathway behavior and isolates developmental biomarkers in stem/progenitor cells. Séminaires du Centre de Recherche en Cancérologie de Marseille, Institut Paoli-Calmettes, Marseille, France.