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Qlife Winter School : Quantitative Cell Dynamics in Developmental Systems

Qlife Quantitative Biology Winter School, Master in Life Science, ENS
Year : 2 (M2)
Semester : 2 (S2)
Volume horaire/Durée : one week (February 8-12, 2021)


Patrick Charnay, ENS Biologie


50 h




Digital workshops ; development ; morphogenesis ; organogenesis ; 2D and 3D segmentation and visualization ; inference of forces ; multiscale analysis ; developmental transcriptomics ; single cell transcriptomics ; spatial transcriptomics ; bar coding transcriptomics ; cell tracking ; cell dynamics modelling ; lineage tracing ; transcriptional regulation ; deep learning

Prerequisites for the course :

Some coding ability in R, Matlab or Python. Attendance is competitive and open to M2 students, PhD students and postdocs in biology, physics or biocomputing. Some knowledge or experience in the field is therefore recommended.

Course objectives and description

Through a series of lectures and digital workshops, the winter school will cover a multiplicity of themes encompassing state-of-the-art quantitative approaches to analyze development and morphogenesis. It will use data sets from different model systems, including drosophila, ascidians, plants and mammals. Dynamic, quantitative analysis of embryonic development will be performed through image analysis, segmentation and visualization, and cell tracking. Force inference, multiscale analysis and modelling will be then used to interpret these data. Finally, the data will be integrated with the output of single cell, spatial and barcoding transcriptomic analyses, to provide a comprehensive, dynamic understanding of the developmental system at the single cell level, with an unprecedented combined view of cell location, morphology, interactions, migration and expression patterns, differentiation pathway and fate.


After the course, the student writes a report on one of the workshops, which will be assessed by the coordinator of the workshop.

Course material

The course will include introductory lectures, a series of hands-on digital workshops run by experts, and inspirational seminars from prestigious scientists.