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research

Research

Before embarking on data science, I did some academic research, first in statistical physics, and then at the interface with microbiology.

Back in the days I used to study statistical physics models, in particular how extreme value statistics may help characterize the geometry of objects known as fluctuating interfaces. After completing my PhD in this domain, I bifurcated to biology.

My research then focused on bacterial gene expression and physiology. I addressed biological questions with an interdisciplinary approach, from wet lab experiments to data analysis to theoretical modelling. Fresh news: biology is a complicated world. As a result I ended up coding a library for data analysis which eventually was quite fun to do.

Data analysis became so pregnant that I decided to dedicate to that and learned a few machine learning techniques. I am now doing that full time.

Past projects

tunacell

tunacell is a Python library that provides tools to analyse time-series obtained from time-lapse microscopy of dividing micro-organisms (in particular, but not restricted to, bacteria).

I developed it while doing a postdoc with Pietro Cicuta, Marco Cosentino Lagomarsino, and Bianca Sclavi.

You can visit the Github repo, and read the growing documentation.

Stay tuned for the beta release.

Kinetics of adaptation of B. subtilis to changing environment.

When the carbon source feeding a population of bacteria is changed, cells need to produce the appropriate enzyme(s) in order to proliferate on the new substrate. We look at a particular carbon source substitution in B. subtilis and investigate the kinetics of adaptation.

Collaborators
  • Ovidiu Radulescu (scientific advisor), DIMNP, Montpellier, France
  • Nathalie Declerck, CBS, Montpellier, France

Evolution of gene expression in Drosophila

During a first postdoc in Cologne, I participated in modeling how gene expression levels evolved in the Drosophila genus.

Collaborators
  • Johannes Berg (scientific advisor), Institute for Theoretical Physics, Cologne, Germany
  • Michael Lässig, Institute for Theoretical Physics, Cologne, Germany
  • Armita Nourmohammad, Lewis-Sigler Institute for Integrative Genomics, Princeton, USA

Fluctuating interfaces

Watermelon

Before I switched to the world of living systems, I used to do theoretical physics. During my PhD I studied extreme value statistics of growing interfaces, under the supervision of Grégory Schehr. In this work, we provided an original characterization of few classes of interfaces via the behaviour of the maximal size of their fluctuations. (for more details, visit the publications page)

Collaborators