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authFullName_s : Alain Viari

The CanOE strategy: integrating genomic and metabolic contexts across multiple prokaryote genomes to find candidate genes for orphan enzymes.

Adam Alexander Thil Smith , Eugeni Belda , Alain Viari , Claudine Médigue , David Vallenet et al.
PLoS Computational Biology, 2012, 8 (5), ⟨10.1371/journal.pcbi.1002540⟩
Journal articles hal-00763496v1

Searching for repeated words in a text allowing for mismatches and gaps

M-F. Sagot , V. Escalier , Alain Viari , H. Soldano
incollection, 1995, --, pp.87-100
Journal articles hal-00698197v1
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BCL2 mutations do not confer adverse prognosis in follicular lymphoma patients treated with rituximab

Sarah Huet , Edith Szafer-Glusman , Bruno Tesson , Luc Xerri , Wayne J. Fairbrother et al.
American Journal of Hematology, 2017, 92 (6), pp.515 - 519. ⟨10.1002/ajh.24701⟩
Journal articles hal-01524901v1
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SMAD2/3 mediate oncogenic effects of TGF-β in the absence of SMAD4

Adrien Bertrand-Chapel , Cassandre Caligaris , Tanguy Fenouil , Clara Savary , Sophie Aires et al.
Communications Biology, 2022, 5 (1), pp.1068. ⟨10.1038/s42003-022-03994-6⟩
Journal articles hal-03915470v1
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CDYL2 Epigenetically Regulates MIR124 to Control NF-kB/STAT3-Dependent Breast Cancer Cell Plasticity

Maha Siouda , Audrey D Dujardin , Laetitia Barbollat-Boutrand , Marco Mendoza-Parra , Benjamin Gibert et al.
iScience, 2020, 23 (6), pp.101141. ⟨10.1016/j.isci.2020.101141⟩
Journal articles hal-02956108v1
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Mutational Profile of Aggressive, Localised Prostate Cancer from African Caribbean Men Versus European Ancestry Men

Laurie Tonon , Gaëlle Fromont , Sandrine Boyault , Emilie Thomas , Anthony Ferrari et al.
European Urology, 2019, 75 (1), pp.11-15. ⟨10.1016/j.eururo.2018.08.026⟩
Journal articles hal-01921597v1
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Peptimapper: proteogenomics workflow for the expert annotation of eukaryotic genomes

Laetitia Guillot , Ludovic Delage , Alain Viari , Yves Vandenbrouck , Emmanuelle Com et al.
BMC Genomics, 2019, 20 (1), pp.56. ⟨10.1186/s12864-019-5431-9⟩
Journal articles hal-01987197v1
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A 13-gene expression-based radioresistance score highlights the heterogeneity in the response to radiation therapy across HPV-negative HNSCC molecular subtypes

Jean-Philippe Foy , Louis Bazire , Sandra Ortiz-Cuaran , Sophie Deneuve , Janice Kielbassa et al.
BMC Medicine, 2017, 15, pp.165. ⟨10.1186/s12916-017-0929-y⟩
Journal articles hal-01589514v1
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Genetic Analysis of Lung Cancer and the Germline Impact on Somatic Mutation Burden

Aurélie a G Gabriel , Joshua R Atkins , Ricardo C C Penha , Karl Smith-Byrne , Valerie Gaborieau et al.
JNCI: Journal of the National Cancer Institute, 2022, 114 (8), pp.1159-1166. ⟨10.1093/jnci/djac087⟩
Journal articles hal-03914530v1
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Repurposing rotavirus vaccines for intratumoral immunotherapy can overcome resistance to immune checkpoint blockade

Tala Shekarian , Eva Sivado , Anne-Catherine Jallas , Stephane Depil , Janice Kielbassa et al.
Science Translational Medicine, 2019, 11 (515), pp.eaat5025. ⟨10.1126/scitranslmed.aat5025⟩
Journal articles hal-02347852v1
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A high-risk retinoblastoma subtype with stemness features, dedifferentiated cone states and neuronal/ganglion cell gene expression

Jing Liu , Daniela Ottaviani , Meriem Sefta , Céline Desbrousses , Elodie Chapeaublanc et al.
Nature Communications, 2021, 12 (1), pp.1-20. ⟨10.1038/s41467-021-25792-0⟩
Journal articles hal-03374490v1

Differential strain-specific diagnosis of the heartwater agent: Ehrlichia ruminantium

N. Vachiery , G. Maganga , T. Lefrancois , Y. Kandassamy , F. Stachurski et al.
Infection, Genetics and Evolution, 2008, 8 (4), pp.459-466. ⟨10.1016/j.meegid.2007.06.001⟩
Journal articles istex hal-00287922v1
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Complex dynamic of dengue virus serotypes 2 and 3 in Cambodia following series of climate disasters

Veasna Duong , Matthew R. Henn , Cameron Simmons , Chantha Ngan , Bunthin Y et al.
Infection, Genetics and Evolution, 2012, pp.N/A. ⟨10.1016/j.meegid.2012.05.012⟩
Journal articles pasteur-00793267v1
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Bacterial syntenies: an exact approach with gene quorum.

Yves-Pol Deniélou , Marie-France Sagot , Frédéric Boyer , Alain Viari
BMC Bioinformatics, 2011, 12, pp.193. ⟨10.1186/1471-2105-12-193⟩
Journal articles hal-00746864v1
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Chemical and biological insecticides select distinct gene expression patterns in Aedes aegypti mosquito

Laurence Despres , Renaud Stalinski , Frédéric Faucon , Vincent Navratil , Alain Viari et al.
Biology Letters, 2014, 10 (12), pp.20140716-20140716. ⟨10.1098/rsbl.2014.0716⟩
Journal articles hal-01996628v1
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Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort

Raphael Carapito , Richard Li , Julie Helms , Christine Carapito , Sharvari Gujja et al.
Science Translational Medicine, 2021, pp.1-59. ⟨10.1126/scitranslmed.abj7521⟩
Journal articles hal-03436053v1
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A 13-gene expression-based radioresistance score highlights the heterogeneity in the response to radiation therapy across HPV-negative HNSCC molecular subtypes

Jean-Philippe Foy , Louis Bazire , Sandra Ortiz-Cuaran , Sophie Deneuve , Janice Kielbassa et al.
BMC Medicine, 2017, 15 (1), pp.703 - 719. ⟨10.1186/s12916-017-0929-y⟩
Journal articles hal-01599731v1

Flexible Identification of Structural Objects in Nucleic Acid Sequences: Palindromes Mirror Repeats Pseudoknots and Triple Helices

M.-F. Sagot , Alain Viari
Annual Symposium on Combinatorial Pattern Matching (CPM), Jun 1997, Aarhus, Denmark. pp.224-246, ⟨10.1007/3-540-63220-4_62⟩
Conference papers istex hal-00435001v1
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Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration

Marcel Smid , F. Germán Rodríguez-González , Anieta M. Sieuwerts , Roberto Salgado , Wendy J. C. Prager-van Der Smissen et al.
Nature Communications, 2016, 7, ⟨10.1038/ncomms12910⟩
Journal articles hal-01388445v1
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The circular RNome of primary breast cancer

Marcel Smid , Saskia M Wilting , Katharina Uhr , F. Germán Rodríguez-González , Vanja de Weerd et al.
Genome Research, 2019, 29 (3), pp.356-366. ⟨10.1101/gr.238121.118⟩
Journal articles hal-02338656v1

Bioinformatique et protéomique

Alain Viari
Interstices, 2004
Journal articles hal-01350280v1
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Actualités en recherche en oncologie : l'essentiel du 4e Symposium International 2019 du Centre de Recherche en Cancérologie de Lyon

Frédéric Catez , Nicole Dalla-Venezia , Jean-Jacques Diaz , Bertrand Dubois , Anthony Ferrari et al.
Bulletin du Cancer, 2020, 107 (1), pp.136-140. ⟨10.1016/j.bulcan.2019.12.002⟩
Journal articles hal-03004269v1

PepLine: A Software Pipeline for High-Throughput Direct Mapping of Tandem Mass Spectrometry Data on Genomic Sequences

Myriam Ferro , Marianne Tardif , Erwan Reguer , Romain Cahuzac , Christophe Bruley et al.
Journal of Proteome Research, 2008, 7 (5), pp.1873-1883. ⟨10.1021/pr070415k⟩
Journal articles hal-02072530v1

Integration of data and methods for genome analysis.

Patrick Durand , Claudine Médigue , Anne Morgat , Yves Vandenbrouck , Alain Viari et al.
Current Opinion in Drug Discovery and Development, 2003, 6 (3), pp.346-52
Journal articles hal-02072584v1
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Ribosomal RNA 2′O-methylation as a novel layer of inter-tumour heterogeneity in breast cancer

Virginie Marcel , Janice Kielbassa , Virginie Marchand , Kundhavai s Natchiar , Hermes Paraqindes et al.
NAR Cancer, 2020, 2 (4), pp.1-12. ⟨10.1093/narcan/zcaa036⟩
Journal articles inserm-03103238v1
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The complete genome sequence of the murine respiratory pathogen Mycoplasma pulmonis

Isabelle Chambaud , Roland Heilig , Stephane Ferris , Valérie Barbe , Delphine Samson et al.
Nucleic Acids Research, 2001, 29 (10), pp.2145-2153. ⟨10.1093/nar/29.10.2145⟩
Journal articles hal-02679458v1
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Characterization of Depressive Symptoms Trajectories After Breast Cancer Diagnosis in Women in France

Cécile Charles , Aurélie Bardet , Alicia Larive , Philip Gorwood , Nicolas Ramoz et al.
JAMA Network Open, 2022, 5 (4), pp.e225118. ⟨10.1001/jamanetworkopen.2022.5118⟩
Journal articles inserm-03650391v1

Spatial modelling of plant diversity from high-throughput environmental dna sequence data

Angelika Studeny , Florence Forbes , Eric Coissac , Alain Viari , Celine Mercier et al.
45èmes Journées de Statistique, Société Française de Statistique, May 2013, Toulouse, France
Conference papers hal-00933699v1
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Integrated analysis highlights APC11 protein expression as a likely new independent predictive marker for colorectal cancer

Youenn Drouet , Isabelle Treilleux , Alain Viari , Sophie Léon , Mojgan Devouassoux-Shisheboran et al.
Scientific Reports, 2018, 8 (1), ⟨10.1038/s41598-018-25631-1⟩
Journal articles hal-01920572v1

Routine molecular screening of advanced refractory cancer patients: An analysis of the first 2490 patients of the ProfiLER study.

Olivier Tredan , Veronique Corset , Qing Wang , Romain Varnier , Camille Pacaud et al.
Journal of Clinical Oncology, 2017, 35 (18_suppl), pp.LBA100-LBA100. ⟨10.1200/JCO.2017.35.18_suppl.LBA100⟩
Journal articles hal-03811696v1