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Scientific Fields
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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 – 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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