Biography

I am ​Associate Professor (​Maître de Conférences) 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.

My research interests lie primarily in the fields of computational anatomy, shape analysis, statistical learning and medical imaging. I participate to the development of the open source software suite deformetrica for the statistical shape analysis of 2D and 3D image and image-derived data (i.e. landmarks, curves, surfaces). I also contributed to the development of the software platform Clinica for clinical neuroimaging studies.

Research Projects

Multi-modal computational functional anatomy

Human organs, such as the brain or the heart, can be seen as intricate complexes composed of inter-connected structures. Diseases might involve dysfunctions in these complexes which could be associated with organisational, morphological, topological and functional alterations of their anatomical components. I work on a unifying computational and statistical framework to jointly analyse these alterations.

Brain white matter tractogram analysis

Explore new geometric representations, metrics and deformation models for fast, robust and reliable processing, comparison and visualization of white matter tractograms.

Multi-modal Data Fusion: learning common and distinctive morphological variations

Investigate new statistical methods to learn common and distinctive morphological 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).

Teaching

IMA205 - Machine learning for images and object recognition

Master's level course for 2nd year students of Télécom Paris about the main machine learning techniques used for image analysis.

IMA204 - Biomedical imaging

Master's level course for 2nd year students of Télécom Paris about medical acquisition techniques, segmentation algorithms, deformation models and statistical shape analysis.

IMA206 - Advanced Image Processing

Master's level course for 2nd year students of Télécom Paris about image registration and advanced image processing algorithms.

SD-TSIA210 : Machine Learning

Master's level course for 2nd year students of Télécom Paris about decision trees and random forests.

BIOMED - Medical image processing

Course of the Computer Science Master (IMA) at UPMC Sorbonne University and Télécom ParisTech about medical acquisition techniques and image processing.

Machine Learning for BioImaging

Course of the BioImaging Master (BIM) at Paris Descartes University and Télécom Paris about the main machine learning techniques used for medical image analysis.

Certificat d’Études Spécialisées (CES) Data Scientist

Formation Certifiante sur l'analyse et gestion de grandes masses de données.

MS Big Data

Mastère Spécialisé sur le Big Data

Supervision experience

Master students

  • Ilaria Battaglia (09/2020 - 02/2021) , Politecnico of Torino
  • Francesco Maso (09/2020 - 02/2021) , Politecnico of Torino
  • Nemo Fournier (09/2020 - 02/2021) , ENS de Lyon

PhD students

  • Benoit Dufumier (since 10/2019) , co-supervised with E. Duchesnay and A. Tenenhaus
  • Matthis Maillard (since 10/2019) , co-supervised with I. Bloch
  • Anton François (since 10/2019) , co-supervised with J. Glaunès
  • Giammarco La Barbera (since 10/2019) , co-supervised with I. Bloch, L. Rouet and S. Sarnacki
  • Mateus Riva (since 02/2019) , co-supervised with I. Bloch, F. Yger, J. Atif and R. Cesar
  • Corentin Mercier (since 10/2017) , co-supervised with I. Bloch, J.M. Thiery, D. Rohmer, T. Boubeker and M.P. Cani

Alumni

  • 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 Postdoc at ENS (Paris)
  • Alessandro Di Girolamo (05/2019 - 10/2019) , Master student Politecnico of Torino , co-supervised with I. Bloch , Now Digital Consultant at Accenture (Milano)
  • Alessandro Delmonte (09/2017 - 02/2018) , Master student Politecnico of Torino , co-supervised with I. Bloch , Now Research Engineer at Necker Hospital (Paris)
  • 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 Computer Vision Engineer at Angus

Publications

PhD Thesis

  • 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

  • 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

  • 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

  • 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
    ISBI, IEEE, 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)  


Abstracts

  • G. La Barbera, I. Bloch, G. Barraza, C. Adamsbaum, P. Gori
    Robust segmentation of Corpus Callosum in multi-scanner pediatric T1-w MRI using Transfer Learning
    OHBM, 2019  

  • E. Olivetti, P. Gori, P. Astolfi, G. Bertó, P. Avesani
    Nonlinear Alignment of Whole Tractograms with the Linear Assignment Problem
    OHBM, 2019  

  • S. Rousseau, C. Mercier, P. Gori, I. Bloch, T. Boubekeur
    QFib: Fast and Accurate Compression of White Matter Tractograms
    OHBM, 2019  

  • M. Fondin, P. Gori, C. Adamsbaum, I. Bloch
    Segmentation automatique des ovaires et des follicules en IRM pour le calcul de la volumétrie ovarienne et le comptage folliculaire
    JFR, 2018  

  • 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 learning approach
    JFR, 2018  

  • A. Delmonte, I. Bloch, D. Hasboun, C. Mercier, J. Pallud, P. Gori
    Segmentation of White Matter Tractograms Using Fuzzy Spatial Relations
    OHBM, 2018   (Poster)  

  • P. Gori, O. Colliot, Y. Worbe, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
    Discriminative approach for Tourette syndrome combining morphometry and structural connectivity
    OHBM, 2016   (Poster)  

  • P. Gori, O. Colliot, L. Marrakchi-Kacem, Y. Worbe, A. Routier, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
    Unified analysis of shape and structural connectivity of neural pathways
    OHBM, 2015   (Poster)  

  • P. Gori, O. Colliot, Y. Worbe, L. Marrakchi-Kacem, S. Lecomte, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman
    Towards joint morphometry of white matter tracts and gray matter surfaces
    OHBM, 2013   (Oral + Trainee Abstract Travel Award)