Massively parallel sequencing applied to single cells allows us to investigate new questions that were out of reach for classical bulk genomics. Cell-to-cell variability is central in gene regulation or cell differentiation, as it provides information on the underlying molecular networks. Consequently, single cell expression profiling has the promise of revolutionizing our understanding of genomes regulation.

Nevertheless, the specific characteristics of single cell data as well as their dimensionality calls for new mathematical models and computational tools. The goal of this project is to develop new methodologies to investigate cell identity and the dynamics of cell differentiation, by integrating single cell expression and epigenomic data. For that purpose, our consortium gathers unique combined expertises in statistics, machine learning, optimal transport and systems biology, and an extended network of collaborators on single-cell (medical) genomics in France and abroad.

Consortium

Researchers

Avatar

Alice Cleynen

Université de Montpellier

CR CNRS, Statistics

Avatar

Angélina Roche

Université Dauphine

MCF, Statistics

Avatar

Bertrand Michel

Central Nantes

Laboratoire de Mathématiques Jean Leray

PR, Statistics

Avatar

Fabien Crauste

Université de Paris

Researcher

Avatar

Filippo Santambrogio

Lyon 1

PR, Optimal Transport

Avatar

Franck Picard

ENS de Lyon/LBMC

PI, DR CNRS, Statistics

Avatar

Jean-Philippe Vert

Google Brain/Mines Paris-Tech

Senior Researcher, Machine Learning

Avatar

Joon Kwon

AgroParisTech/INRAE

Mathématiques & Informatique Appliquées Paris

CR INRAE, Machine Learning

Avatar

Julien Chiquet

AgroParisTech/INRAE

Mathématiques & Informatique Appliquées Paris

PI, DR INRAE, Statistical learning

Avatar

Laure Sansonnet

AgroParisTech/INRAE

Mathématiques & Informatique Appliquées Paris

MCF, Statistics

Avatar

Laurent Modolo

ENS de Lyon/LBBE

IR CNRS, Computational Biology

Avatar

Nelle Varoquaux

TIMC-IMAG

Université Grenobe-Alpes

CR CNRS, Machine Learning

Avatar

Olivier Gandrillon

ENS de Lyon/LBMC

Laboratoire de Biologie de Modélisation de la Cellule

PI, DR CNRS, Systems Biology

Avatar

Philippe Veber

CNRS/Lyon 1

IR CNRS

Avatar

Stéphane Robin

AgroParisTech/INRAE

Mathématiques & Informatique Appliquées Paris

DR INRAE, Statistics

Avatar

Thibault Espinasse

Lyon 1

MCF, Statistics

Avatar

Thomas Lepoutre

Inria/Lyon 1

Dracula, INRIA

CR INRIA, EDP

Avatar

Vincent Calvez

ENS de Lyon

DR CNRS

Avatar

Vincent Rivoirard

Université Dauphine

PR? Statistics

Avatar

Yohann de Castro

Centrale Lyon

PR, Statistics

Students

Avatar

Anthony Ozier-Lafontaine

Central Nantes/ENS Lyon

PhD Student

Avatar

Bastien Batardière

AgroParisTech/INRAE

Mathématiques & Informatique Appliquées Paris

M2 Internship

Avatar

Elias Ventre

Inria/ENS de Lyon

Laboratoire de Biologie de Modélisation de la Cellule

Dracula, INRIA

PhD Student

Avatar

Félix Raimundo

Google Brain

PhD Student

Avatar

Hugues Van Assel

ENS de Lyon/LBMC

M2 Internship

Avatar

Vincent Marty

Inria/ENS de Lyon

Laboratoire de Biologie de Modélisation de la Cellule

Dracula, INRIA

M2 Internship

Recent Publications

Meetings