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About

I received a Ph.D. in Biostatistics and Bioinformatics applied to Cancer Research in 2011 from the University Paris Sud XI, I was working at the Curie institute under the supervision of Emmanuel Barillot and François Radvanyi. My Ph.D. was about the unsupervised analysis of cancer transcriptome.  During my postdoctoral time, I worked on the computational and statistical analysis of NGS data.

My areas of interest and expertise include

  • functional genomics
  • human genetics
  • statistical analysis of high-dimensional data
  • normalization, batch-correction, meta-analysis of high-throughput data
  • unsupervised learning, independent component analysis
  • NGS data analysis (RNA-Seq, DNA-Seq, …)
  • analysis of the non-coding genome, transposable elements

Courses

Morning session – Introduction to NGS data analysis

The Hub of Bioinformatics and Biostatistics at the Institut Pasteur organizes thematic courses open to everybody. The second session, entitled “Introduction to NGS data analysis” will take place every Tuesday, from the May 10th […]

2016-05-10 09:00:00 2016-06-28 12:00:00 Europe/Paris Morning session – Introduction to NGS data analysis The Hub of Bioinformatics and Biostatistics at the Institut Pasteur organizes thematic courses open to everybody. The second session, entitled “Introduction to NGS data analysis” will take place every Tuesday, from the May 10th […] 28 Rue du Dr 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

Projects

CV

Education

Oct. 2007-June 2011: Ph.D. in bioinformatics and biostatistics.
Institut Curie / Inserm U900 / Mines ParisTech and CNRS UMR144, Institut Curie, France. Title: “Independent Component Analysis of Cancer Transcriptome”.
Supervisors: Dr. Emmanuel Barillot and Dr. François Radvanyi

Université Paris-Sud XI d’Orsay, France:
2005 – 2007:  M. Sc. BIBS “Bioinformatics and Biostatistics”.
2004 – 2005:  B. Sc. BIBS “Bioinformatics and Biostatistics”.
2002 – 2004:  DEUG MIAS “Mathematics and Informatics applied to sciences”.

Work Experience 

Bioinformatics Research Scientist.
 – NovemberUniversity of California, San Francisco, USA.

Postdoctoral researcher with Dr. Noah Zaitlen. Study of allele-specific expression; data analysis of sequencing data (DNA-Seq, RNA-Seq) from functional genomics experiments, CrispR screens.

University of California, Berkeley.

Postdoctoral researcher with Pr. Terry Speed in the Statistics Department. Correction of batch effects in miRNA-Seq and RNA-Seq data, analysis of transposable elements in RNA-Seq data from The Cancer Genome Atlas.

Spring 2007 (6 months): Genomic Science Department, Sanofi-Aventis, Vitry, France. Master internship with Dr. Arne Muller and Dr. Edgardo Ferran: Analysis of transcriptome data from treated cell lines.

Teaching

2007 – 2010:  Université Paris Descartes V, France.
Biomathematics for undergraduate students in pharmaceutic sciences (46h per year): Algebra, Analysis, Probabilities and Statistics.
Biostatistics for undergraduate students in Biology (18h per year): Initiation to descriptive statistics and statistical tests.

From 2015: Institut Pasteur.
Teaching of statistics (multivariate analysis, statistical power, …) with practical sessions in R, RNA-Seq data analysis, and experimental design. Public: PhD students and researchers in biology.

Programming Skills

Progr. languages: python, java, shell scripting
Statistical packages: S-plus/R, Matlab

Softwares

GeneValorization. Java webstart application that gives a clear and handful overview of the bibliography corresponding to one particular gene list.
EMA. R package that proposes an analysis strategy and a selection of tools to investigate microarray gene expression data.
MineICA. R package whose goal is to facilitate the interpretation of an ICA decomposition of genomics data. Available in Bioconductor.

Publications

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