Biography
I am Associate Professor (Maître de Conférences, HDR) in Artificial Intelligence and Medical Imaging at Télécom Paris in the IMAGES group of the LTCI lab. I am also a research collaborator of the Ima-Brain research team at the Institute of Psychiatry and Neuroscience of Paris (IPNP) and of the research laboratory NeuroSpin at the CEA.
I did my academic training with Inria at the ARAMIS Lab in Paris where I worked with Stanley Durrleman (Inria Researcher), Olivier Colliot (CNRS Research Director) and Nicholas Ayache (Inria Research Director) and then at Neurospin (CEA) with Edouard Duchesnay (CEA Research Scientist), Josselin Houenou (M.D. APHP) and Jean-François Mangin (CEA Research Director). Previous to that, I obtained a MSc in Mathematical Modelling and Computation from the DTU in Copenhagen and a MSc in Biomedical Engineering from the University of Padova.
I participated to the development of the open source software suite deformetrica for statistical shape analysis and of the software platform Clinica for clinical neuroimaging studies.
My research interests lie primarily in the fields of machine learning, AI, representation learning, medical imaging and computational anatomy.
Research Projects
Work on new learning methods (e.g., knowledge distillation, contrastive learning, image-to-image translation) for modeling prior anatomical knowledge, transferring relevant anatomical information between domains (e.g., from adult to pediatric data) and discovering new anatomical biomarkers.
Investigate new statistical methods to learn common and distinctive anatomical variations between different parts of a human organ (i.e. white and gray matter of the brain) or between two different populations (i.e. controls and patients).
Propose a method to estimate a 3D atlas of glioblastoma using a population of MR brain images. The resulting atlas should describe the average shape of glioblastoma and its variability, which will depend on its anatomical location, as well as the main variations of the surrounding tissues (mass effect).
Teaching
Master's level course for 2nd year students of Télécom Paris about the main machine learning techniques used for image analysis.
Master's level course for 2nd year students of Télécom Paris about medical acquisition techniques, segmentation algorithms, deformation models and statistical shape analysis.
Course of the Computer Science Master (IMA) at UPMC Sorbonne University and Télécom ParisTech about medical acquisition techniques and image processing.
Course of the BioImaging Master (BIM) at Paris Descartes University and Télécom Paris about the main machine learning techniques used for medical image analysis.
Formation Certifiante sur l'analyse et gestion de grandes masses de données.
Mastère Spécialisé sur le Big Data
Supervision experience
- Gauthier Miralles (since 09/2024), co-supervised with L. Le Folgoc (Télécom Paris) and V. Jugnon (GE HealthCare)
- Mohamad Dabboussi (since 05/2024), co-supervised with Y. Gousseau (Télécom Paris) and Malo Huard (Milvue)
- Marie Arrivat (since 09/2023), co-supervised with E. Angelini (Télécom Paris)
- Ismaël Mounime (since 01/2023) , co-supervised with E. Angelini (Télécom Paris) and Chao Ma (Gordon Center, Harvard)
- Pierre Auriau (since 03/2022), co-supervised with E. Duchesnay, J. F. Mangin and A. Grigis (NeuroSpin, CEA)
- Ali Mammadov (since 10/2022) , co-supervised with L. Le Folgoc (Télécom Paris), G. Hocquet and A. Buronfosse (Paris Saint-Joseph hospital)
- Emma Sarfati (since 09/2022) , co-supervised with I. Bloch (Télécom Paris), Alexandre Bône (Guerbet) and Marc-Michel Rohe (Guerbet)
- Yunlong He (since 10/2023)
- Robin Louiset (11/2020 - 06/2024), co-supervised with E. Duchesnay (NeuroSpin, CEA) and A. Grigis (NeuroSpin, CEA). Now post-doc at DEC, ENS Ulm, Paris.
- Rebeca Vetil (04/2021 - 04/2024), PhD student co-supervised with I. Bloch (Télécom Paris), Alexandre Bône (Guerbet) and Marc-Michel Rohe (Guerbet). Now AI Researcher at Guerbet.
- Carlo Alberto Barbano (10/2020 - 12/2023), PhD student co-supervised with M. Grangetto (University of Turin). Now post-doc at University of Turin.
- Camille Ruppli (01/2021 - 12/2023) , PhD student co-supervised with I. Bloch and Roberto Ardon (Incepto). Now Data Scientist at Incepto.
- Matthis Maillard (10/2019 - 06/2023) , Phd student co-supervised with I. Bloch. Now Data Scientist at Deemea.
- Anton François (10/2019 - 05/2023) , Phd student co-supervised with J. Glaunès (MAP5). Now post-doc at ENS Paris-Saclay.
- Florence Carton (09/2021 - 01/2023). Post-Doc. Now Research Engineer at Total.
- Benoit Dufumier (10/2019 - 12/2022) , Phd student co-supervised with E. Duchesnay. Now post-doc at EPFL.
- Giammarco La Barbera (10/2019 - 12/2022) , Phd student co-supervised with I. Bloch, L. Rouet and S. Sarnacki. Now Research Engineer at Necker hospital.
- Mateus Riva (02/2019 - 12/2022) , Phd student co-supervised with I. Bloch and F. Yger. Now AI Data Engineer at Valeo.
- Ariel Nora (04/2022 - 10/2022) , Master student IPParis, co-supervised with G. Hocquet. Now Phd candidate at Télécom Paris.
- Robin Kips (01/2019 - 04/2022) , Phd student, co-supervised with I. Bloch (Télécom Paris) and M. Perrot (L'Oréal), Now Applied Research Scientist, Meta Reality Labs
- Alessandro Hizdri (09/2021 - 02/2022) , Master student Politecnico of Torino
- Corentin Mercier (10/2017 - 12/2020) , Phd student, co-supervised with I. Bloch, J.M. Thiery, D. Rohmer, T. Boubeker and M.P. Cani, Now Software engineer at Pixyz
- Francesco Maso (09/2020 - 02/2021) , Master student Politecnico of Torino, Now Data Analyst at SDG (Padova)
- Nemo Fournier (09/2020 - 02/2021) , Master student ENS de Lyon, Now Phd student at Aramis LAB (Paris)
- Ilaria Battaglia (09/2020 - 02/2021) , Master student Politecnico of Torino, Now Junior Consultant & Engineer, Capgemini
- Bruno Belucci Teixeira (05/2020 - 09/2020) , Master student ESPCI Paris, co-supervised with I. Bloch
- Pierre Roussillon (09/2018 - 11/2019) , Postdoc , co-supervised with I. Bloch, J.M. Thiery , Now Prof. Prépa ECG at Lycée Louis Le Grand
- Alessandro Di Girolamo (05/2019 - 10/2019) , Master student Politecnico of Torino , co-supervised with I. Bloch , Now Digital Business Integration Analyst at Accenture
- Alessandro Delmonte (09/2017 - 02/2018) , Master student Politecnico of Torino , co-supervised with I. Bloch , Now Senior Artificial Intelligence Engineer at Clario
- Ariane Fleury (02/2017 - 07/2017) , Master student Paris Descartes University , co-supervised with P. Roca
- Raphaël Berdugo (05/2017 - 11/2017) , Master student Ensae ParisTech , Now CTO and Co-founder @alfred-eyes.ai
Publications
PhD Thesis
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P. Gori
Statistical models to learn the structural organisation of neural circuits from multimodal brain images - Application to Gilles de la Tourette syndrome
PhD Thesis, UPMC, Paris, France
Book chapters
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N. Charon, B. Charlier, J. Glaunès, P. Gori, P. Roussillon
Fidelity metrics between curves and surfaces: currents, varifolds, and normal cycles
Book chapter in Riemannian Geometric Statistics in Medical Image Analysis, Elsevier, 2019
Journal Articles
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N. Vinit, T. Blanc, I. Bloch, L. Pio, R. Kassir, G. La Barbera, E. Bonnot, P. Gori, ..., S. Sarnacki
Robotics and 3D modeling for precision surgery in pediatric oncology
EJC Paediatric Oncology, 2024 -
B. Dufumier, P. Gori, S. Petiton, R. Louiset, J.F. Mangin, A. Grigis, E. Duchesnay
Exploring the potential of representation and transfer learning for anatomical neuroimaging: application to psychiatry
NeuroImage, 2024 -
G. La Barbera, L. Rouet, H. Boussaid, A. Lubet, R. Kassir, S. Sarnacki, P. Gori, I. Bloch
Tubular structures segmentation of pediatric abdominal-visceral ceCT images with renal tumors: assessment, comparison and improvement
Medical Image Analysis, 2023 -
R. Kips, R. Jiang, S. Ba, B. Duke, M. Perrot, P. Gori, I. Bloch
Real-time Virtual-Try-On from a Single Example Image through Deep Inverse Graphics and Learned Differentiable Renderers
Computer Graphics Forum (EuroGraphics), 2022 -
A. Routier, N. Burgos, M. Díaz, M. Bacci, S. Bottani, O. El-Rifai, S. Fontanella, P. Gori, ..., M.-O. Habert, S. Durrleman, O. Colliot
Clinica: an open source software platform for reproducible clinical neuroscience studies
Frontiers in Neuroinformatics, 2021 -
M. Zanello, R. Carron, S. Peeters, P. Gori, A. Roux, I. Bloch, C. Oppenheim, J. Pallud
Automated neurosurgical stereotactic planning for intraoperative use. A comprehensive review of the literature and perspectives
Neurosurgical Review, 2020 -
C. Mercier, S. Rousseau, P. Gori, I. Bloch, T. Boubekeur
QFib: Fast and Efficient Brain Tractogram Compression
Neuroinformatics, 2020 -
A. Roux, P. Roca, M. Edjali-Goujon, K. Sato, M. Zanello, E. Dezamis, P. Gori, S. Lion, A. Fleury, F. Dhermain, J-F Meder, E. Lechapt-Zalcman, F. Chretien, P. Varlet, C. Oppenheim, J. Pallud
MRI atlas of IDH-wildtype supratentorial glioblastoma: probabilistic maps of phenotype, management, and outcomes
Radiology, 2019 -
A. Virzi, C. Muller, J.B. Marret, E. Mille, L. Berteloot, D. Grévent, N. Boddaert, P. Gori, S. Sarnacki, I. Bloch
Comprehensive Review of 3D Segmentation Software Tools for MRI Usable for Pelvic Surgery Planning
Journal of Digital Imaging, 2019 -
C. Muller, E. Mille, A. Virzi, J.B. Marret, Q. Peyrot, A. Delmonte, L. Berteloot, P. Gori, T. Blanc, D. Grevent, N. Boddaert, I. Bloch, S. Sarnacki
Integrating tractography in pelvic surgery: a proof of concept
Journal of Pediatric Surgery Case Reports, 2019 -
P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, A. Routier, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
Double diffeomorphism: combining morphometry and structural connectivity analysis
IEEE Transactions on Medical Imaging, 2018 -
P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
A Bayesian Framework for Joint Morphometry of Surface and Curve meshes in Multi-Object Complexes
Medical Image Analysis, 35, pp.458-474, 2017 -
P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, F. De Vico Fallani, M. Chavez, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
Parsimonious Approximation of Streamline Trajectories in White Matter Fiber Bundles
IEEE Transactions on Medical Imaging, 35(12), pp.2609-2619, 2016
Conference Articles
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J. Laval, J. Chavas, V. Troiani, ..., P. Gori, D. Rivière, J.-F. Mangin
Towards a foundation model for cortical folding
MLCN worskhop (MICCAI), 2024 -
R. Louiset, E. Duchesnay, A. Grigis, B. Dufumier, P. Gori
SepVAE: a contrastive VAE to separate pathological patterns from healthy ones
MIDL, 2024 & IMLH workshop (ICML), 2023 -
R. Louiset, E. Duchesnay, A. Grigis, P. Gori
Separating common from salient patterns with Contrastive Representation Learning
ICLR, 2024 -
F. Carton, R. Louiset, P. Gori
Double InfoGAN for Contrastive Analysis
AISTATS, 2024 -
P. Auriau, A. Grigis, B. Dufumier, R. Louiset1, J. Chavas, P. Gori, JF Mangin, E. Duchesnay
Supervised diagnosis prediction from cortical sulci: toward the discovery of neurodevelopmental biomarkers in mental disorders
IEEE ISBI, 2024 -
I. B.G. Mounime, W. Lee, T. Marin, P.K. Han, Y. Djebra, S.V. Eslahi, P. Gori, E. Angelini, G. El Fakhri, C. Ma
Sparsity Constrained Linear Tangent Space Alignment Model (sLTSA) for 3D Cardiac Extracellular Volume Mapping
IEEE ISBI, 2024 (Oral) -
E. Sarfati, A. Bône, M.-M. Rohé, P. Gori, I. Bloch
Weakly-supervised positional contrastive learning: application to cirrhosis classification
MICCAI, 2023 -
C. Ruppli, P. Gori, R. Ardon, I. Bloch
Decoupled conditional contrastive learning with variable metadata for prostate lesion detection
MILLanD workshop (MICCAI), 2023 (Oral) -
R. Vétil, C. Abi-Nader, A. Bône, M.-P. Vullierme, M.-M. Rohé, P. Gori, I. Bloch
Non-Redundant Combination of Hand-Crafted and Deep Learning Radiomics: Application to the Early Detection of Pancreatic Cancer
CaPTion workshop (MICCAI), 2023 -
B. Dufumier, C. A. Barbano, R. Louiset, E. Duchesnay, P. Gori
Integrating Prior Knowledge in Contrastive Learning with Kernel
ICML, 2023 -
C. A. Barbano, B. Dufumier, E. Tartaglione, M. Grangetto, P. Gori
Unbiased Supervised Contrastive Learning
ICLR, 2023 -
C. A. Barbano, B. Dufumier, E. Duchesnay, M. Grangetto, P. Gori
Contrastive learning for regression in multi-site brain age prediction
IEEE ISBI, 2023 -
E. Sarfati, A. Bône, M.-M. Rohé, P. Gori, I. Bloch
Learning to diagnose cirrhosis from radiological and histological labels with joint self and weakly-supervised pretraining strategies
IEEE ISBI, 2023 (Oral) -
G. La Barbera, H. Boussaid, F. Maso, S. Sarnacki, L. Rouet, P. Gori, I. Bloch
Anatomically constrained CT image translation for heterogeneous blood vessel segmentation
BMVC, 2022 -
M. Riva, P. Gori, F. Yger, I. Bloch
Is the U-Net Directional-Relationship Aware?
ICIP, 2022 -
C. Ruppli, P. Gori, R. Ardon, I. Bloch
Optimizing transformations for contrastive learning in a differentiable framework
MILLanD workshop (MICCAI), 2022 -
R. Vétil, C. Abi-Nader, A. Bône, M.P. Vullierme, M.M. Rohé, P. Gori, I. Bloch
Learning shape distributions from large databases of healthy organs: applications to zero-shot and few-shot abnormal pancreas detection
MICCAI, 2022 (Student Travel Award) -
A. François, M. Maillard, C. Oppenheim, J. Pallud, I. Bloch, P. Gori, J. Glaunès
Weighted Metamorphosis for registration of images with different topologies
WBIR, 2022 (Best Paper Award) -
M. Maillard, A. François, J. Glaunès, I. Bloch, P. Gori
A Deep Residual Learning Implementation of Metamorphosis
IEEE ISBI, 2022 -
R. Vétil, A. Bône, M.P. Vullierme, M.M. Rohé, P. Gori, I. Bloch
Improving The Automatic Segmentation Of Elongated Organs Using Geometrical Priors
IEEE ISBI, 2022 -
R. Kips, P.-A. Bokaris, M. Perrot, P. Gori, I. Bloch
Hair Color Digitization through Imaging and Deep Inverse Graphics
Electronic Imaging (EI), 2022 -
B. Dufumier, P. Gori, J. Victor, A. Grigis, E. Duchesnay
Conditional Alignment and Uniformity for Contrastive Learning with Continuous Proxy Labels
MedNeurIPS, 2021 (Oral) -
R. Louiset, P. Gori, B. Dufumier, J. Houenou, A. Grigis, E. Duchesnay
UCSL : A Machine Learning Expectation-Maximization framework for Unsupervised Clustering driven by Supervised Learning
ECML/PKDD, 2021 -
B. Dufumier, P. Gori, J. Victor, A. Grigis, E. Duchesnay
Contrastive Learning with Continuous Proxy Meta-Data for 3D MRI Classification
MICCAI, 2021 -
R. Kips, R. Jiang, S. Ba, E. Phung, P. Aarabi, P. Gori, M. Perrot, I. Bloch
Deep Graphics Encoder for Real-Time Video Makeup Synthesis from Example
CVPR Workshop AI for Content Creation, 2021 -
A. François, P. Gori, J. Glaunès
Metamorphic image registration using a semi-Lagrangian scheme
SEE GSI, 2021 -
G. Barbera, P. Gori, H. Boussaid, B. Belucci, A. Delmonte, J. Goulin, S. Sarnacki, L. Rouet, I. Bloch
Automatic size and pose homogenization with Spatial Transformer Network to improve and accelerate pediatric segmentation
IEEE ISBI, 2021 -
M. Hu, M. Maillard, Y. Zhang, T. Ciceri, G. Barbera, I. Bloch, P. Gori
Knowledge distillation from multi-modal to mono-modal segmentation networks
MICCAI, 2020 -
R. Kips, P. Gori, M. Perrot, I. Bloch
CA-GAN: Weakly Supervised Color Aware GAN for Controllable Makeup Transfer
AIM (ECCV Workshop), 2020 -
M. Riva, F. Yger, P. Gori, R. Cesar, I. Bloch
Template-Based Graph Clustering
GEM (ECML-PKDD 2020 Workshop), 2020 (Oral) -
E. Olivetti, P. Gori, P. Astolfi, G. Bertò, P. Avesani
Nonlinear Alignment of Whole Tractograms with the Linear Assignment Problem
WBIR, 2020 -
J. Feydy, P. Roussillon, A. Trouvé, P. Gori
Fast and Scalable Optimal Transport for Brain Tractograms
MICCAI, 2019 (Poster) -
P. Roussillon, J.M. Thiery, I. Bloch, P. Gori
Appariement difféomorphique robuste de faisceaux neuronaux
GRETSI, 2019 (Poster) -
A. Delmonte, C. Mercier, J. Pallud, I. Bloch, P. Gori
White matter multi-resolution segmentation using fuzzy set theory
IEEE ISBI, 2019 (Poster) -
C. Mercier, P. Gori, D. Rohmer, M-P. Cani, T. Boubekeur, J-M. Thiery, I. Bloch
Progressive and Efficient Multi-Resolution Representations for Brain Tractograms
EG VCBM, Eurographics Workshop, 2018 (Oral) -
A. Virzi, P. Gori, C. Muller, E. Mille, Q. Peyrot, L. Berteloot, N. Boddaert, S. Sarnacki, I. Bloch
Segmentation of pelvic vessels in pediatric MRI using a patch-based deep learning approach
PIPPI MICCAI Workshop, Springer (LNCS), 2018 (Oral) -
K. Kumar, P. Gori, B. Charlier, S. Durrleman, O. Colliot, C. Desrosiers
White matter fiber segmentation using functional varifolds
MICCAI Workshop, Springer (LNCS), 2017 (Oral) -
E. Olivetti, G. Berto, P. Gori, N. Sharmin, P. Avesani
Comparison of distances for supervised segmentation of white matter tractography
PRNI, IEEE, 2017 (Oral) -
P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, A. Routier, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
Joint Morphometry of Fiber Tracts and Gray Matter Structures Using Double Diffeomorphisms
IPMI, Springer (LNCS), 2015 (Oral - Acceptance rate: ~5%) -
P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, F.D.V. Fallani, M. Chavez, S. Lecomte, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
A Prototype Representation to Approximate White Matter Bundles with Weighted Currents
MICCAI, Springer (LNCS), 2014 (Poster - Acceptance rate: ~30%) -
A. Routier, P. Gori, A.B. Graciano Fouquier, S. Lecomte, O. Colliot, S. Durrleman
Evaluation of morphometric descriptors of deep brain structures for the automatic classification of patients with Alzheimer’s disease...
MICCAI Challenge CADDementia, 2014 (Oral) -
P. Gori, O. Colliot, Y. Worbe, L. Marrakchi-Kacem, S. Lecomte, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
Bayesian Atlas Estimation for the Variability Analysis of Shape Complexes
MICCAI, Springer (LNCS), 2013 (Poster - Acceptance rate: ~32%) -
T. Ingeman-Nielsen, S. Tomaskovicova, S. H. Larsen, S. F. Aparicio, P. Gori
Surface geophysical measurements for locating and mapping ice-wedges
Cold Regions Engineering, 2012 (Poster) -
T. Ingeman-Nielsen, P. Gori, S. Tomaskovicova
An Optimization Algorithm For Interpreting Thermal Parameters For Frozen Soils With Significant Unfrozen Water Content
Conference on Permafrost, 2012 (Poster)