Congratulations to Hamza

Hamza has successfully defended his Phd thesis entitled : « Estimation efficace cerveau entier de la réponse hémodynamique pour la déconvolution semi-aveugle de l’activité neurale régularisée par variation totale en IRM fonctionnelle », today, in front of the following committee:

  • Dr. Julien Mairal (rapporteur)
  • Pr. Dimitri Van de Ville (rapporteur)
  • Pr. Charles Soussen (examinateur)
  • Dr. Myriam Edjlali-Goujon (examinatrice)
  • Dr. Florence Forbes (examinatrice)
  • Dr. Philippe Ciuciu (directeur de thèse)
  • Dr. Claire Leroy  (co-encadrante)
  • Dr. Thomas Moreau (co-encadrant)

Congratulations !

PhD defense of Hicham Janati on March 23rd

Hicham will defend his PhD thesis on March 23rd  at 10 am, online.
Title:  Advances in Optimal transport and applications to Neuroscience
Brain imaging devices can provide a glimpse at neural activity in multiple spatial locations and time points. Moreover, neuroimaging studies are usually conducted for multiple individuals undergoing the same experimental protocol. Inferring the underlying sources is a challenging inverse problem that can only be tackled by biasing the solutions with prior domain knowledge. Several prior hypotheses have been pursued in the literature such as promoting sparse over dense solutions or solving the problem for multiple subjects at once. However, none take advantage of the particular spatial geometry of the problem. The purpose of this thesis is to exploit the multi-subject, spatial and temporal aspects of magneto-encephalography data as much as possible to improve the conditioning of the inverse problem. To that end, our contributions revolve around three axes: optimal transport (OT), sparse multi-task regression and time series. Indeed, the ability of OT to capture spatial disparities between measures makes it very well suited to compare and average neural activation patterns based on their shape and location over the cortical surface of the brain. For the sake of scalability, we take advantage of the entropic formulation of optimal transport, which we argue has two important missing pieces. From a theoretical perspective, it has no closed form analytical expressions, and from a practical perspective, entropy leads to a significant increase in variance known as entropic bias. We complete this puzzle by studying multivariate Gaussians for which we uncover an entropic OT closed form and propose debiased algorithms to compute fast and accurate optimal transport barycenters. Second, we define a multi-task prior based on OT and sparse penalties to jointly solve the inverse problem for multiple subjects to promote spatially coherent solutions. Our real data experiments highlight the benefits of using OT as a prior over classical multi-task regression penalties. Finally, we propose a loss function to compare and average spatio-temporal data that computes temporal alignments across spatially similar observations of the data via a fast GPU friendly algorithm.

PhD defense of Antonia

Antonia Machlouzarides Shalit is defending her PhD thesis entitled “Development of subject-specific representations of neuroanatomy via a domain-specific language”

on Dec 15th. Follow it live on


PhD Defense of Jerome-Alexis

Jerome Alexis is defending his PhD thesis entitled “Statistical control of sparse models in high dimension” on Friday, Dec 11th at 2pm. The committee comprises:

Mme Chloé-Agathe AZENCOTT – Reviewer

M. Thomas NICHOLS – Reviewer

M. Pierre NEUVIAL – Examiner

M. Christophe AMBROISE – Examiner

M. Joseph SALMON – Co-encadrant de thèse :

M. Bertrand THIRION – Directeur de thèse :

Congratulations !

PGMO PhD Prize for Maturin

Maturin Massias, former PhD student of Parietal, is receiving the PGMO PhD Prize for his work  “Sparse high dimensional regression in the presence of colored heteroscedastic noise : application to M/EEG source imaging” and implementation of his ideas in CELER (

Congratulations !

6 papers at NeurIPS 2020

We’re delighted to announce that the following 6 papers have been accepted at NeurIPS:

  • Entropic Optimal Transport between (Unbalanced) Gaussian Measures has a Closed Form Hicham Janati, Boris Muzellec, Gabriel Peyré, Marco Cuturi
  • Modeling shared responses in Neuroimaging Studies through MultiViewICA. Hugo Richard, Luigi Gresele, Aapo Hyvärinen, Bertrand Thirion, Alexandre Gramfort, Pierre Ablin.
  • PEP: Parameter Ensembling by Perturbation. Alireza Mehrtash, Purang Abolmaesumi, Polina Golland, Tina Kapur, Demian Wassermann, William Wells.
  • Leaning to solve TV regularised problems with unrolled algorithms. Hamza Cherkaoui, Jeremias Sulam, Thomas Moreau.
  • NeuMiss networks: differential programming for supervised learning with missing values. Marine Le Morvan, Julie Josse, Thomas Moreau, Erwan Scornet, Gaël Varoquaux.
  • Statistical control for spatio-temporal MEG/EEG source imaging with desparsified multi-task Lasso. Jérôme-Alexis Chevalier, Alexandre Gramfort, Joseph Salmon, Bertrand Thirion.

Congratulations to all !

Kamalaker’s defense on September 14th

Kamalaker Dadi is defending his PhD thesis “Population Imaging for Mental Health” on Sept 14th in Alan Turing (and online !)

Here are the committee members:

  • Sylvia Villeneuve, McGill University, Canada
  • Pierre Bellec, Université de Montréal, Canada
  • Camille Maumet, Université Rennes I, France
  • Vincent Frouin, CEA Neurospin, Université Paris-Saclay, France
  • Michel Thiebaut, Université de Bordeaux, France
  • Gaël Varoquaux, Parietal Inria, Université Paris-Saclay, France
  • Bertrand Thirion, Parietal Inria, Université Paris-Saclay, France
  • Denis Engemann, Parietal Inria, Université Paris-Saclay, France
  • Josselin Houenou, UNIACT Lab, Université Paris-Saclay, France

Please join us to discover his great contributions to the field !