After a diploma of statistician engineer from the Ensai (Ecole Nationale de la Statistique et de l’Analyse de l’Information) and a Ph.D in applied mathematics in the Statistics & Genome lab (AgroParisTech), I worked as a developer for the XLSTAT software. I have implemented some statistical methods such as mixture models, log-linear regression, mood test, bayesian hierarchical modeling CBC/HB, … Then I worked as a head teacher in statistics for one year. I was recruited in the Bioinformatic and biostatistic hub of the C3BI (Center of Bioinformatics, Biostatistics and Integrative Biology) in 2014, I am in charge of the statistical analysis and the development of R/R shiny pipelines.
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Timeline
Courses
11ème école de bioinformatique AVIESAN-INSERM-IFB
Initiation au traitement des données de génomique obtenues par séquençage à haut débit Bulk RNA-seq, ChIP-seq/ATAC-seq, variants DNA-seq, single-cell RNA-Seq, niveau 1 Objectifs La formation s’adresse à des biologistes directement impliqués dans des projets […]
2022-11-13 18:00:00
2022-11-18 13:00:00
Europe/Paris
11ème école de bioinformatique AVIESAN-INSERM-IFB
Initiation au traitement des données de génomique obtenues par séquençage à haut débit Bulk RNA-seq, ChIP-seq/ATAC-seq, variants DNA-seq, single-cell RNA-Seq, niveau 1 Objectifs La formation s’adresse à des biologistes directement impliqués dans des projets […]
Station Biologique De Roscoff, Place Georges Teissier, Roscoff, France
Multiple roles of RNAs
A practical course on RNA methods RNA research is at the basis of our current understanding of gene expression regulation and was crucial for the discovery of tools such as siRNA and CRISPR/Cas9. RNA […]
2023-02-13 09:00:00
2023-02-24 18:00:00
Europe/Paris
Multiple roles of RNAs
A practical course on RNA methods RNA research is at the basis of our current understanding of gene expression regulation and was crucial for the discovery of tools such as siRNA and CRISPR/Cas9. RNA […]
28 Rue du Docteur Roux, Paris, France
Bioinformatics program for PhD students 2020-2021
This mandatory training program, required for all Institut Pasteur PhD students, begins with a group of common core courses including a knowledge base in reproducible research, R Programming and Statistics. Each student then can […]
Image Analysis Hub
Bioinformatics and Biostatistics HUB
INCEPTION – Institut Convergence for the study of Emergence of Pathology Through Individuals and Populations
Computational Biology
Center for Technological Resources and Research
Vincent Guillemot
Christophe Malabat
Jean-Yves Tinevez
Marie-Agnès Dillies
Frédéric Lemoine
Nicolas Maillet
Blaise Li
Stevenn Volant
Pascal Campagne
Hugo Varet
Hanna Julienne
Violaine Saint-André
Julien Guglielmini
Thomas Bigot
Quentin Giai Gianetto
Claudia Chica
Rachel Legendre
Adrien Pain
Natalia Pietrosemoli
Emeline Perthame
Stéphane Rigaud
Benoît Lelandais
Dmitry Ershov
Sébastien MELLA
Anđela Davidović
Thomas Obadia
Véronique Hourdel
Amine Ghozlane
Alexis Criscuolo
Amaury Vaysse
2020-10-15 09:30:00
2021-06-03 17:00:00
Europe/Paris
Bioinformatics program for PhD students 2020-2021
This mandatory training program, required for all Institut Pasteur PhD students, begins with a group of common core courses including a knowledge base in reproducible research, R Programming and Statistics. Each student then can […]
25-28 Rue du Dr Roux, 75015 Paris, France
Introduction to data analysis
This five weeks graduate level course will give participants basic skills and hands-on training in biostatistics. It will cover all the steps of an analysis workflow : design, collection, curation, hypothesis testing and data […]
2017-01-16 09:00:00
2017-02-17 13:00:00
Europe/Paris
Introduction to data analysis
This five weeks graduate level course will give participants basic skills and hands-on training in biostatistics. It will cover all the steps of an analysis workflow : design, collection, curation, hypothesis testing and data […]
28 Rue du Docteur Roux, Paris, France
Morning session – Data analysis using R
This course is an introduction to data analysis. It is better to have a minimal knowledge of R. If not, an introductory tutorial is available on the course’s web page and the basics of […]
2016-03-08 09:00:00
2016-04-12 12:00:00
Europe/Paris
Morning session – Data analysis using R
This course is an introduction to data analysis. It is better to have a minimal knowledge of R. If not, an introductory tutorial is available on the course’s web page and the basics of […]
28 Rue du Docteur Roux, Paris, France
Introduction to Data Analysis
This four-week graduate level course will give participants basic skills and hands-on training in statistics and descriptive data analysis. This course is (primarily) dedicated to first year PhD students of the Institut Pasteur (each […]
2018-10-22 09:00:00
2018-11-20 00:00:00
Europe/Paris
Introduction to Data Analysis
This four-week graduate level course will give participants basic skills and hands-on training in statistics and descriptive data analysis. This course is (primarily) dedicated to first year PhD students of the Institut Pasteur (each […]
28 Rue du Dr Roux, Paris, France
Introduction to Data Analysis
This four-week graduate level course will give participants basic skills and hands-on training in statistics and descriptive data analysis. This course is (primarily) dedicated to first year PhD students of the Institut Pasteur (each […]
Bioinformatics and Biostatistics HUB
INCEPTION – Institut Convergence for the study of Emergence of Pathology Through Individuals and Populations
Marie-Agnès Dillies
Stéphane Descorps-Declère
Vincent Guillemot
Emeline Perthame
Hugo Varet
Stevenn Volant
Thomas Obadia
Gaël Millot
Quentin Giai Gianetto
Anne Biton
Christophe Becavin
2018-01-08 09:00:00
2018-02-02 00:00:00
Europe/Paris
Introduction to Data Analysis
This four-week graduate level course will give participants basic skills and hands-on training in statistics and descriptive data analysis. This course is (primarily) dedicated to first year PhD students of the Institut Pasteur (each […]
28 Rue du Docteur Roux, Paris, France
Projects
Software
CV
Professional Experience
Since October 2014 – Institut Pasteur – HUB Team
2013 – 2014 – Head teacher in statistics – MEDISUP sciences
Main activities: Teach statistics to first year medicine students
2012 – 2013 – Developer of algorithms and statistical methods – Addinsoft, XLSTAT software
Main activities: Implement new statistical modules for XLSTAT software. Write support and tutorials for each new methods (french/english).
2008 – 2012 – Ph.D student in applied mathematics, statistics – AgroParisTech
Subject: Semi-parametric modelisation with Markovian dependency. Main activities: Develop new statistical models to deal with spatial dependency in tiling-array data (microarrays with overlapping probes). Supervisors: Stéphane Robin and Marie-Laure Martin Magniette
Education
2012 – Ph.D in applied mathematics, statistics – AgroParisTech
2008 – Master 2 degree in mathematics, statistics option – Université de Rennes 1
2008 – Biostatistics engineer – ENSAI (Ecole Nationale de la Statistique et de l’Analyse de l’Information) – Bruz
Publications
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2023Parvimonas micra, an oral pathobiont associated with colorectal cancer, epigenetically reprograms human colonocytes., Gut Microbes 2023 Dec; 15(2): 2265138.
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2023Comprehensive Characterization of Viral Diversity of Female Mosquitoes in Madagascar, Viruses, 2023, 15 (9), pp.1852. ⟨10.3390/v15091852⟩.
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2023Primary role of type I interferons for the induction of functionally optimal antigen-specific CD8+ T cells in HIV infection., EBioMedicine 2023 Apr; 91(): 104557.
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2022Sexual dysfunction among males and females with bipolar disorder and healthy subjects: The burden of illness severity., Bipolar Disord 2022 Aug; (): .
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2022Reprogramming dysfunctional CD8+ T cells to promote properties associated with natural HIV control., J Clin Invest 2022 06; 132(11): .
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2022Low CCR5 expression protects HIV-specific CD4+ T cells of elite controllers from viral entry., Nat Commun 2022 Jan; 13(1): 521.
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2022The role of glycosylphosphatidylinositol (gpi) anchored proteins in Cryptococcusneoformans., Microbes Infect 2022 ; 24(8): 105016.
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2021Mining zebrafish microbiota reveals key community-level resistance against fish pathogen infection., ISME J 2021 Mar; 15(3): 702-719.
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2021Optimal combination of early biomarkers for infection and sepsis diagnosis in the emergency department: The BIPS study., J Infect 2021 Feb; (): .
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2020SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis., BMC Bioinformatics 2020 Aug; 21(1): 345.
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