Marie-Agnès DILLIES

I obtained an engineering degree in Biomedical engineering from Université de Technologie de Compiègne (UTC) in 1989, a master degree in Control of Complex Systems from UTC in 1990, a PhD in Control of Complex Systems from UTC in 1993, a University Degree in Human Genetics from The University of Rennes 1 in 2001 and a master degree in Functional Genomics from University Paris Diderot (Paris 7) in 2002. I worked as a statistician at the Transcriptome and Epigenome Platform from 2002 to 2017, where I was responsible for the statistical analyses of the data and had an important training activity (on the campus and outside). Since 2015 I have been co-head of the Bioinformatics and Biostatistics Hub within the Center of Bioinformatics, Biostatistics and Integrative Biology (C3BI). I am co-director of the Pasteur course Introduction to Data Analysis and co-organiser of the sincellTE summer school (a school dedicated to single cell transcriptome and epigenome data analysis). I am also co-managing the StatOmique group which gathers more than 60 statisticians from France.

• Biomarqueurs d’identification précoce du sepsis aux urgences (BIPS)(Jean-Marc CAVAILLON - Cytokines and Inflammation) - In Progress
• Study of the early pathogenesis during Lassa fever in cynomolgus monkeys and its correlation with the outcome(Sylvain BAIZE - Biology of Viral Emerging Infections) - In Progress
• Host microbiota modification by the pathogen Listeria monocytogenes(Javier PIZARRO-CERDA - Bacteria-Cell Interactions) - Closed
+ 1 project

Quentin GIAI-GIANETTO

Since September 2016, I am a research engineer in the Bioinformatics and Biostatistics HUB of the Institut Pasteur and detached in the Proteomics facility. I have a PhD in Signal Processing from the Ecole Nationale Supérieure des Télécommunications de Bretagne (Telecom Bretagne) and a Master in Mathematics with a specialty in Statistical Engineering from Rennes 1 University. After my PhD, I was a research and teaching assistant in Mathematics at the Institut National des Sciences Appliquées (INSA) of Rennes, then I worked as a consultant for public local authorities in the company Ressources Consultants Finances. I started working in the field of Proteomics in October 2014 in the EDyP laboratory located in Grenoble (http://www.edyp.fr/). I have been working on the improvement of statistical analysis of bottom-up proteomics data. Today, most of the projects I work on consist of detecting changes in protein abundances using discovery-driven mass spectrometry. I am interested in the development of new methodologies to optimize proteomics data analysis pipelines, from the identification of peptides/proteins to their quantification and the interpretation of results. For this purpose, I worked on several R packages which can be downloaded from the CRAN and Bioconductor: cp4p (https://cran.r-project.org/web/packages/cp4p/index.html), imp4p (https://cran.r-project.org/web/packages/imp4p/index.html), DAPAR (http://bioconductor.org/packages/release/bioc/html/DAPAR.html) and its GUI ProStar.

• Modulation of neutrophil cytosolic proteome in GCSF-treated patients. Impact of sample treatment(Marteyn BENOIT - Molecular Microbial Pathogenesis) - In Progress

Vincent GUILLEMOT

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• Optimisation of freeze and conservation method of peripherical blood mononucleated cells(SORDOILLET VALLIER - Other) - Pending
• Afribiota-Neuro(Pascale VONAESCH - Molecular Microbial Pathogenesis) - In Progress
• Genetic and statistical analysis of data produced with the Collaborative Cross at the Institut Pasteur(Xavier MONTAGUTELLI - Mouse Genetics) - In Progress

François LAURENT

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Gael MILLOT

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• The anti-IgE antibody Omalizumab induces adverse reactions through engagement of Fc gamma receptors(Bianca BALBINO - Antibodies in Therapy and Pathology) - In Progress
• LGP2 binds PACT to regulate RIG-I- and MDA5-mediated antiviral response(Anastassia KOMAROVA - Viral Genomics and Vaccination) - In Progress
• Comparison of matrices of antibody gene usage(Pierre BRUHNS - Antibodies in Therapy and Pathology) - Pending

Emeline PERTHAME

Since February 2017 Research engineer, Hub of Bioinformatics and Biostatistics of the C3BI, Institut Pasteur 2015-2017 Post doctoral position, team MISTIS, INRIA Grenoble Topic: Robust clustering and robust non linear regression in high dimension. Collaboration with Florence Forbes (INRIA). 2012-2015 PhD thesis in Statistics, Applied Mathematics Department of Agrocampus-Ouest, IRMAR UMR 6625 CNRS, Rennes Topic: Stability of variable selection in regression and classification issues for correlated data in high dimension. Supervisor: David Causeur (Agrocampus-Ouest, IRMAR). Education 2015 PhD thesis in Statistics, Applied Mathematics Department of Agrocampus-Ouest, IRMAR UMR 6625 CNRS, Rennes 2012 ISUP degree (Institut de Statistique de l’UPMC), Université Pierre et Marie Curie, Paris 2012 Master 2 of Statistics, Université Pierre et Marie Curie, Paris

• Quality controls for human plasmas and serums stored in biobanks(HELENE LAUDE - Biological Resource Center of Institut Pasteur (CRBIP)) - In Progress
• Early transcriptional signature of T-cell memory after dengue vaccination(Claude ROTH - Functional Genetics of Infectious Diseases) - Pending
• Determination of host response elicited by different Salmonella lifestyles(Chak Hon LUK - Dynamics of Host-Pathogen Interactions) - Pending

Hugo VARET

Hugo Varet is a biostatistician engineer from the Ensai (Ecole Nationale de la Statistique et de l’Analyse de l’Information) and has been recruited by the hub of the C3BI (Center of Bioinformatics, Biostatistics and Integrative Biology) to work at the Transcriptome & Epigenome Platform. He is in charge of the statistical analyses of the RNA-Seq data produced by the platform and develops R pipelines that help in this task. One of them is named SARTools and is available on GitHub: https://github.com/PF2-pasteur-fr/SARTools.

• Defining Shigella-targeting of human lamina propria mononuclear cells using CyTOF technology(Katja BRUNNER - Molecular Microbial Pathogenesis) - Closed
• Exploring immunological mechanisms of human graft-verus-host disease after hematopoietic stem cell transplantation(Eleonora LATIS - Immunoregulation) - Closed
• Functional interactions between HP1 proteins and RNA.(Christophe RACHEZ - Epigenetic Regulation) - Closed

Stevenn VOLANT

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.

• Hamper cell-to-cell variation to enhance drug-mediated killing(Giulia MANINA - Microbial Individuality and Infection) - Pending
• Afribiota-Neuro(Pascale VONAESCH - Molecular Microbial Pathogenesis) - In Progress
• MOODel: Modeling Mood Disorders(Aroldo A. DARGÉL - Perception and Memory) - In Progress