I am heading the joint Inria/ICM Aramis Lab with O. Colliot at the Brain and Spine Institute (ICM) located within the Pitié-Salpêtrière hospital in Paris. I am also the founding director of the ICM Centre for Neuroinformatics, and scientific director of the ICM platform for data management and analytics.
My team focuses on the development of new statistical and computational approaches for the analysis of image data and image-derived geometric data such a surface meshes. We have contributed to the definition of statistical analysis methods for spatiotemporal measurements in longitudinal studies, where sets of geometric objects (or structured data) are observed at multiple points in time.
Our research is essentially motivated by, and applied to the study of the structure and function of the human brain. It makes accessible the wealth and complexity of information contained in multiple modalities of medical images via virtual representations of the brain, and allows the tracking of these representations during ageing or disease progression.
I received the Young Investigator Award from the conference MICCAI in 2008 and 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 am associate editor of IEEE Transactions on Medical Imaging (IF 6.1), and Neurons, Behavior, Data Analysis and Theory (NBDT).
- Dec 18: We have waited it for long, but here it is! You can download our preprint "Simulating Alzheimer's disease progression with personalised digital brain models" here. Soon in the institutional repository HAL
- Dec 8: Proud that my article entitled "AI: a deep misunderstanding" has just been published in the special issue of the French newspaper Liberation on AI and Health.
- Dec 6: Our paper entitled "Spatiotemporal analysis for detection of pre-symptomatic shape changes in neurodegenerative diseases: Initial application to the GENFI cohort" has been accepted for publication in Neuroimage. Nice collaboration with our former post-doc Claire Cury and the University College London!
- Dec 1: Excited to start of our new multi-disciplinary pan-European project "Virtual Brain Cloud". We aim to bridge the gap between short-term simulations of brain activity, and long-term simulations of brain disease progression...
- Nov 23: Our paper entitled "An Automated Pipeline for the Analysis of PET Data on the Cortical Surface" has been accepted for publication in Frontiers in Neuroinformatics. Congrats Arnaud Marcoux!
- Nov 12: Happy to give a lecture at the Symposium on Multivariate analyses, Modelling and Machine Learning in Neuroimaging Research organised at the University Paul Sabatier of Toulouse. Impressive series of talks!
- Oct 23: Our paper entitled "Neurite density is reduced in the presymptomatic phase of C9orf72 disease" has been accepted in the journal of neurology, neurosurgery and psychiatry. Congrats Junhao Wen!
- Sep 20: Happy and honoured to have opened the MICCAI Workshop "Shape in Medical Imaging" in Granada. Warm thanks for the organizers in their effort to unify the shape community this year!
- Sep 18: Congratulations to our student, Wen Wei, for his brilliant podium presentation at MICCAI today entitled "Learning Myelin Content in Multiple Sclerosis from Multimodal MRI through Adversarial Training"!
- Aug 17: Our paper entitled: Reproducible evaluation of classification methods in Alzheimer's disease: framework and application to MRI and PET data has been accepted in NeuroImage. Congratulations Jorge Samper-Gonzalez!
- Aug 9: Happy to learn that our project Virtual Brain Cloud has been accepted for funding in the framework of the Europe Horizon 2020 program! Looking forward to work with our partners in Germany (Charite Berlin, Juelich), France (Aix-Marseille University), UK (University of Oxford) and all over Europe on personalized diagnostics and treatments in neurodegenerative diseases.
- Jun 4: Happy to have successfully defended my Habilitation a Diriger des Recherches today!
- Apr 11: Proud of our research also featured in this article of the magazine Usine Nouvelle. Today is world Parkinson's Disease Day!
- Apr 11: Happy to have our research on Parkinson's Disease featured in this article of the French magazine Sciences et Avenir Today is world Parkinson's Disease Day!
- Thomas Lartigue (since 2017), co-supervised with S. Allassonnière
- Raphael Couronné (since 2017)
- Maxime Louis (since 2016), co-supervised with B. Charlier
- Manon Ansart (since 2016), co-supervised with D. Dormont
- Igor Koval (since 2016), co-supervised with S. Allassonnière
- Alexandre Bône (since 2016), co-supervised with O. Colliot
- Junhao Wen (since 2015), co-supervised with O. Colliot
Engineers and Scientists
- Simona Bottani (since 2017), software engineer
- Arnaud Marcoux (since 2017), imaging engineer
- Benoit Martin (since 2018), software developer
- 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
- Editor of 6 archived conference proceedings (4 in the Springer LNCS series)
- Author of more than 50 peer-reviewed publications (2/3 as first or last author), among which
- journal articles in the highest ranked journals in the fields of neuroimaging (Neuroimage), image analysis (Medical Image Analysis, IEEE Trans. Medical Imaging, SIAM J. Imaging Sciences) and computer vision (International J. of Computer Vision)
- articles in the most selective conferences in medical image analysis (Medical Image Computing and Computer-Assisted Intervention (MICCAI) and Information Processing in Medical Imaging (IPMI), among which 9 oral presentations with a selection rate below 5%) and statistical learning (Neural Information Processing System (NIPS))
Deformetrica is a collaborative project which provides cutting-edge statistical tools to analyze image and image-derived data with deformations. Input data may be images, curve- or surface- meshes in 2D or 3D. It can be used for:
- Registration, namely the superimposition of images or geometric primitives by the computation of an optimal deformation
- Atlas Construction, namely the estimation of an geometrical model from a series of example data, and summary of the variability in shape of this model across the samples
- Regression, namely the construction of a dynamic model from a series of data indexed by time (or other co-factors)
- Dynamic atlas construction, namely the construction of a dynamic model from longitudinal data, i.e. a set of subjects or objects observed at multiple time-points.
For more details, visit www.deformetrica.org
Developed within the European project Health-e-Child, the software ExoShape is a set of Matlab functions and Mex-files to perform statistical analysis of sets of curve and surface meshes. Its development was stopped in 2010, as the more ambitious Deformetrica project took over.
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.
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.