Welcome!

I am senior research scientist at Inria, and team leader at the Paris Brain Institute (ICM) located at the Pitié-Salpêtrière hospital in Paris. I am fellow of the Paris AI Research Institute (PR[AI]RIE)

My research lies at the intersection of statistical learning and differential geometry with applications in neuroscience and clinical trial designs. We develop statistical methods for the analysis of structured data such as images or meshes. In particular, we invented the technique named "disease course mapping" for the analysis of longitudinal data, e.g. repeated data of the same subjects over time. This technique allowed the construction of personalised models of disease progression for several neurodegenerative diseases: Alzheimer, Parkinson or Huntington. These models are used to spot the optimal moment to test new therapies in each patient.

I received several awards including the MICCAI Young Investigator Award in 2008, the second Gilles Kahn Award for best dissertation in computer science in 2010. In 2015, I was awarded an ERC Starting Grant from the European Research Council. I was the first laureate of a Sanofi iDEA award outside the USA in 2019. In 2020, I received the Inria - Académie des Sciences young researcher award.

Communications

Publications

  • Editor of 6 archived conference proceedings (4 in the Springer LNCS series)
  • Author of more than 150 peer-reviewed publications, among which
    • methodological journal articles in the fields of neuroimaging (Neuroimage), image analysis (Medical Image Analysis, IEEE Trans. Medical Imaging, SIAM J. Imaging Sciences), computer vision (International J. of Computer Vision), medical journal articles in the fields of neurology such as JAMA Neurology,
    • peer-reviewed conference papers essentially in the field of medical image analysis (Medical Image Computing and Computer-Assisted Intervention (MICCAI), Information Processing in Medical Imaging (IPMI), International Symposium on Biomedical Imaging (ISBI)) and more occasionally in the fields of statistical learning and computer vision (Neural Information Processing System (NeurRIPS), Computer Vision and Pattern Recognition (CVPR))

Software

Deformetrica

Deformetrica: learn from shapes is a software project which provides statistical tools to analyze shape data using space deformations. Input data may be images, curve- or surface- meshes in 2D or 3D without the need for point correspondence. It can be used to build dynamical model of shape changes from longitudinal shape data sets. Brief introduction in this Medium post.

For more details, visit www.deformetrica.org


Leaspy

Leaspy: learn spatiotemporal patterns in python is a software project which allows the construction of personalized models of progression from longitudinal data sets, e.g. multiple subjects observed at multiple non-corresponding time-points. Data may be sets of biomarkers, or data distributed at the nodes of a fixed mesh. Brief introduction in this Medium post.

Fork me on gitlab!

A whole team

Postdocs

  • Igor Koval (since 2020, PhD student in 2016-2019)
  • Thomas Nedelec (since 2019)

PhD students

  • Pierre-Emmanuel Poulet (since 2020)
  • Benoit Sauty (since 2020)
  • Paul Vernhet (since 2019)
  • Clément Mantoux (since 2019), co-supervised with S. Allassonnière
  • Raphael Couronné (since 2017)

Engineers and Scientists

  • Cécile Di Folco (since 2020), data scientist
  • Juliette Ortholand (since 2020), data scientist
  • Mkrtich Vantinyan (since 2020), data scientist
  • Etienne Maheux (since 2019), data scientist
  • Arnaud Valladier (since 2018), data scientist

Alumni

  • Thomas Lartigue (PhD student 2017-2020), co-supervised with S. Allassonnière, left for a postdoctoral position in the team of Sach Mukherjee at the DZNE in Bonn, Germany
  • Alexandre Bône (PhD student 2016-2020), co-supervised with O. Colliot, left for a research and development engineer position at Guerbet.
  • Manon Ansart, PhD student (2016-2019), co-supervised with D. Dormont, left for a postdoc position at LIO Lab in Quebec
  • Maxime Louis, PhD student (2016-2019), co-supervised with B. Charlier, left for a data scientist position within Pixyl
  • Benoit Martin, software developer (2018-2019), left to start a PhD at Sorbonne University
  • Junhao Wen, PhD student (2015-2019), co-supervised with O. Colliot, left for a postdoc position with Davatzikos' lab at UPenn
  • Lou Albessard, PhD student (2015-2018), co-supervised with D. Grimaud-Hervé
  • Sabrina Fontanella (2016-2017), software developer, left for a Data Scientist position within Friss in Utrecht, The Netherlands
  • Michael Bacci (2016-2017), software developer, left as freelance software developer
  • Jean-Baptiste Schiratti, PhD student (2013-2017), left for a joint postdoc position between A. Gramfort's lab at Telecom ParisTech and the start-up Bioserenity.
  • Barbara Gris, PhD student (2013-2016), left for a postdoc position in the mathematical department of KTH Stockholm with O. Oktem.
  • Pietro Gori, PhD student (2012 - 2016), left for a postdoc position at Neurospin in J.F. Mangin's lab, and then assistant professor at Telecom ParisTech
  • Ana Beatriz Graciano Fouquier, postdoc (2013 - 2016), left for a R&D engineer position in the start-up Cardiawave.
  • Susovan Pal, postdoc (2014 - 2015), left for S. Joshi lab at UCLA
  • François Touvet, engineer (2013 - 2015), left for the 3D animation studio Ellipsanime
  • Alexandre Routier, engineer (2012 - 2015), left for a PhD at the Salpêtrière hospital

Want to support or join us?

Support us!

If you wish to support our research, you are welcome to donate to the Brain and Spine Institute (ICM), specifying that your donation is for supporting the research activities of the ARAMIS lab. Contact me for details.

If your company is looking for strong academic partnerships with a leading team in the field of geometric data analysis, feel free to contact me.

Join us!

If you are a brilliant master student or just graduated PhD (Congrats!) with a background in Electrical Engineering, Applied Mathematics or Computer Science, feel free to send me an Contact me (explaining me in 5 lines what you feel interesting in our research). Available positions include postdocs, PhD candidates and software engineers. Current open position are advertised here.