Olivier Colliot - Research Director at CNRS - ARAMIS Lab (CNRS/INRIA/Inserm/UPMC)

Baptiste Couvy-Duchesne, Futao Zhang, Kathryn Kemper, Julia Sidorenko, Naomi Wray, et al.. Parsimonious model for mass-univariate vertexwise analysis. Journal of Medical Imaging, SPIE Digital Library, 2022, 9 (05), ⟨10.1117/1.JMI.9.5.052404⟩. ⟨hal-03675041⟩

Johann Faouzi, Samir Bekadar, Fanny Artaud, Alexis Elbaz, Graziella Mangone, et al.. Machine learning-based prediction of impulse control disorders in Parkinson's disease from clinical and genetic data. IEEE Open Journal of Engineering in Medicine and Biology, IEEE, 2022, 3, pp.96 - 107. ⟨10.1109/OJEMB.2022.3178295⟩. ⟨hal-03680714v2⟩

Elina Thibeau-Sutre, Mauricio Diaz, Ravi Hassanaly, Alexandre M Routier, Didier Dormont, et al.. ClinicaDL: an open-source deep learning software for reproducible neuroimaging processing. Computer Methods and Programs in Biomedicine, Elsevier, 2022, 220, pp.106818. ⟨10.1016/j.cmpb.2022.106818⟩. ⟨hal-03351976v2⟩

Simona Bottani, Ninon Burgos, Aurélien Maire, Adam Wild, Sébastian Ströer, et al.. Automatic quality control of brain T1-weighted magnetic resonance images for a clinical data warehouse. Medical Image Analysis, Elsevier, 2022, 75, ⟨10.1016/j.media.2021.102219⟩. ⟨hal-03154792v4⟩

Pascal Lu, Olivier Colliot. Multilevel Survival Modeling with Structured Penalties for Disease Prediction from Imaging Genetics data. IEEE Journal of Biomedical and Health Informatics, Institute of Electrical and Electronics Engineers, 2022, 26 (2), pp.798-808. ⟨10.1109/JBHI.2021.3100918⟩. ⟨hal-03311509v2⟩

Laura Xicota, Beata Gyorgy, Benjamin Grenier-Boley, Alexandre Lecoeur, Gaelle Fontaine, et al.. Association of APOE-Independent Alzheimer Disease Polygenic Risk Score With Brain Amyloid Deposition in Asymptomatic Older Adults. Neurology, American Academy of Neurology, In press, pp.10.1212/WNL.0000000000200544. ⟨10.1212/WNL.0000000000200544⟩. ⟨hal-03676479⟩

Vincent Henry, Ivan Moszer, Olivier Dameron, Laura Vila Xicota, Bruno Dubois, et al.. Converting disease maps into heavyweight ontologies: general methodology and application to Alzheimer’s disease. Database - The journal of Biological Databases and Curation, Oxford University Press, 2021, pp.1-33. ⟨10.1093/database/baab004⟩. ⟨hal-03144306⟩

Thomas Lartigue, Simona Bottani, Stephanie Baron, Olivier Colliot, Stanley Durrleman, et al.. Gaussian Graphical Model exploration and selection in high dimension low sample size setting. IEEE Transactions on Pattern Analysis and Machine Intelligence, Institute of Electrical and Electronics Engineers, 2021, 43 (9), pp.3196-3213. ⟨10.1109/TPAMI.2020.2980542⟩. ⟨hal-02504034⟩

Junhao Wen, Jorge Samper-González, Simona Bottani, Alexandre Routier, Ninon Burgos, et al.. Reproducible evaluation of diffusion MRI features for automatic classification of patients with Alzheimer's disease. Neuroinformatics, Springer, 2021, 19 (1), pp.57-78. ⟨10.1007/s12021-020-09469-5⟩. ⟨hal-02566361v2⟩

Alexis Guyot, Ana B Graciano Fouquier, Emilie Gerardin, Marie Chupin, Joan Glaunès, et al.. A Diffeomorphic Vector Field Approach to Analyze the Thickness of the Hippocampus from 7T MRI. IEEE Transactions on Biomedical Engineering, Institute of Electrical and Electronics Engineers, 2021, 68 (2), pp.393-403. ⟨10.1109/TBME.2020.2999941⟩. ⟨hal-02359660v2⟩

Ninon Burgos, Jorge M. Cardoso, Jorge Samper-González, Marie-Odile Habert, Stanley Durrleman​, et al.. Anomaly detection for the individual analysis of brain PET images. Journal of Medical Imaging, SPIE Digital Library, 2021, 8 (02), pp.024003. ⟨10.1117/1.JMI.8.2.024003⟩. ⟨hal-03193306⟩

Pierre Chagué, Béatrice Marro, Sarah Fadili, Marion Houot, Alexandre Morin, et al.. Radiological classification of dementia from anatomical MRI assisted by machine learning-derived maps. Journal de Neuroradiologie / Journal of Neuroradiology, Elsevier Masson, 2021, 48 (6), pp.412-418. ⟨10.1016/j.neurad.2020.04.004⟩. ⟨hal-02641005⟩

Igor Koval, Alexandre Bône, Maxime Louis, Thomas Lartigue, Simona Bottani, et al.. AD Course Map charts Alzheimer’s disease progression. Scientific Reports, Nature Publishing Group, 2021, 11 (1), ⟨10.1038/s41598-021-87434-1⟩. ⟨hal-01964821v3⟩

Dario Saracino, Sophie Ferrieux, Marie Nogues-Lassiaille, Marion Houot, Aurélie Funkiewiez, et al.. Primary Progressive Aphasia Associated With GRN Mutations: New Insights Into the Non-amyloid Logopenic Variant. Neurology, American Academy of Neurology, 2021, ⟨10.1212/wnl.0000000000012174⟩. ⟨hal-03281660⟩

Manon Ansart, Stéphane Epelbaum, Giulia Bassignana, Alexandre Bône, Simona Bottani, et al.. Predicting the Progression of Mild Cognitive Impairment Using Machine Learning: A Systematic, Quantitative and Critical Review. Medical Image Analysis, Elsevier, 2021, 67, pp.101848. ⟨10.1016/j.media.2020.101848⟩. ⟨hal-02337815v2⟩

Alexandre Routier, Ninon Burgos, Mauricio Díaz, Michael Bacci, Simona Bottani, et al.. Clinica: an open source software platform for reproducible clinical neuroscience studies. Frontiers in Neuroinformatics, Frontiers, 2021, 15, pp.689675. ⟨10.3389/fninf.2021.689675⟩. ⟨hal-02308126v4⟩

Ninon Burgos, Simona Bottani, Johann Faouzi, Elina Thibeau-Sutre, Olivier Colliot. Deep learning for brain disorders: from data processing to disease treatment. Briefings in Bioinformatics, Oxford University Press (OUP), 2021, 22 (2), pp.1560-1576. ⟨10.1093/bib/bbaa310⟩. ⟨hal-03070554⟩

Johann Faouzi, Baptiste Couvy-Duchesne, Samir Bekadar, Olivier Colliot, Jean-Christophe Corvol. Exploratory analysis of the genetics of impulse control disorders in Parkinson's disease using genetic risk scores. Parkinsonism and Related Disorders, Elsevier, 2021, 86, pp.74 - 77. ⟨10.1016/j.parkreldis.2021.04.003⟩. ⟨hal-03298502⟩

Giulia Bassignana, Jennifer Fransson, Vincent Henry, Olivier Colliot, Violetta Zujovic, et al.. Step-wise target controllability identifies dysregulated pathways of macrophage networks in multiple sclerosis. Network Neuroscience, MIT Press, 2021, 5 (2), pp.337-357. ⟨10.1162/netn_a_00180⟩. ⟨hal-03022314⟩

Dario Saracino, Karim Dorgham, Agnès Camuzat, Daisy Rinaldi, Armelle Rametti-Lacroux, et al.. Plasma NfL levels and longitudinal change rates in C9orf72 and GRN-associated diseases: from tailored references to clinical applications. Journal of Neurology, Neurosurgery and Psychiatry, BMJ Publishing Group, In press, ⟨10.1136/jnnp-2021-326914⟩. ⟨hal-03337055⟩

Wen Wei, Emilie Poirion, Benedetta Bodini, Matteo Tonietto, Stanley Durrleman, et al.. Predicting PET-derived Myelin Content from Multisequence MRI for Individual Longitudinal Analysis in Multiple Sclerosis. NeuroImage, Elsevier, 2020, 223C (117308), ⟨10.1016/j.neuroimage.2020.117308⟩. ⟨hal-02922534⟩

Alexandre Morin, Jorge Samper-González, Anne Bertrand, Sebastian Ströer, Didier Dormont, et al.. Accuracy of MRI Classification Algorithms in a Tertiary Memory Center Clinical Routine Cohort. Journal of Alzheimer's Disease, IOS Press, 2020, pp.1-10. ⟨10.3233/JAD-190594⟩. ⟨hal-02511532⟩

Maxime Montembeault, Sabrina Sayah, Daisy Rinaldi, Benjamin Le Toullec, Anne Bertrand, et al.. Cognitive inhibition impairments in presymptomatic C9orf72 carriers. Journal of Neurology, Neurosurgery and Psychiatry, BMJ Publishing Group, 2020, ⟨10.1136/jnnp-2019-322242⟩. ⟨hal-02484794⟩

Lydia Chougar, Johann Faouzi, Nadya Pyatigorskaya, Lydia yahia‐cherif, Rahul Gaurav, et al.. Automated Categorization of Parkinsonian Syndromes Using Magnetic Resonance Imaging in a Clinical Setting. Movement Disorders, Wiley, 2020, ⟨10.1002/mds.28348⟩. ⟨hal-03046578v2⟩

Quentin Vanderbecq, Eric Xu, Sebastian Stroër, Baptiste Couvy-Duchesne, Mauricio Diaz Melo, et al.. Comparison and validation of seven white matter hyperintensities segmentation software in elderly patients. Neuroimage-Clinical, Elsevier, 2020, 27, pp.102357. ⟨10.1016/j.nicl.2020.102357⟩. ⟨hal-02926474⟩

Claire Cury, Marzia Antonella Scelsi, Roberto Toro, Vincent Frouin, Eric Artiges, et al.. Genome wide association study of incomplete hippocampal inversion in adolescents. PLoS ONE, Public Library of Science, 2020, 15 (1), ⟨10.1371/journal.pone.0227355⟩. ⟨hal-02416654⟩

Ninon Burgos, Olivier Colliot. Machine learning for classification and prediction of brain diseases: recent advances and upcoming challenges. Current Opinion in Neurology, Lippincott, Williams & Wilkins, 2020, 33 (4), pp.439-450. ⟨10.1097/WCO.0000000000000838⟩. ⟨hal-02902586⟩

Junhao Wen, Elina Thibeau-Sutre, Mauricio Diaz-Melo, Jorge Samper-González, Alexandre Routier, et al.. Convolutional Neural Networks for Classification of Alzheimer's Disease: Overview and Reproducible Evaluation. Medical Image Analysis, Elsevier, 2020, 63, pp.101694. ⟨10.1016/j.media.2020.101694⟩. ⟨hal-02562504v2⟩

Alexandre Bône, Olivier Colliot, Stanley Durrleman. Learning the spatiotemporal variability in longitudinal shape data sets. International Journal of Computer Vision, Springer Verlag, 2020, 128, pp.2873-2896. ⟨10.1007/s11263-020-01343-w⟩. ⟨hal-02091549v5⟩

Virgilio Kmetzsch, Vincent Anquetil, Dario Saracino, Daisy Rinaldi, Agnès Camuzat, et al.. Plasma microRNA signature in presymptomatic and symptomatic subjects with C9orf72-associated frontotemporal dementia and amyotrophic lateral sclerosis. Journal of Neurology, Neurosurgery and Psychiatry, BMJ Publishing Group, 2020, 92 (5), pp.485-493. ⟨10.1136/jnnp-2020-324647⟩. ⟨hal-03046771⟩

Martina Sundqvist, Alexandre Routier, Bruno Dubois, Olivier Colliot, Marc Teichmann. The White Matter Module-Hub Network of Semantics Revealed by Semantic Dementia. Journal of Cognitive Neuroscience, Massachusetts Institute of Technology Press (MIT Press), 2020, pp.1-18. ⟨10.1162/jocn_a_01549⟩. ⟨hal-02554966⟩

Baptiste Couvy-Duchesne, Johann Faouzi, Benoît Martin, Elina Thibeau-Sutre, Adam Wild, et al.. Ensemble Learning of Convolutional Neural Network, Support Vector Machine, and Best Linear Unbiased Predictor for Brain Age Prediction: ARAMIS Contribution to the Predictive Analytics Competition 2019 Challenge. Frontiers in Psychiatry, Frontiers, 2020, 11, ⟨10.3389/fpsyt.2020.593336⟩. ⟨hal-03136463⟩

Baptiste Couvy‐duchesne, Lachlan T Strike, Futao Zhang, yan Holtz, Zhili Zheng, et al.. A unified framework for association and prediction from vertex-wise grey-matter structure. Human Brain Mapping, Wiley, 2020, ⟨10.1002/hbm.25109⟩. ⟨hal-02904458⟩

Maxime Bertoux, Julien Lagarde, Fabian Corlier, Lorraine Hamelin, Jean-François Mangin, et al.. Sulcal morphology in Alzheimer's disease: an effective marker of diagnosis and cognition. Neurobiology of Aging, Elsevier, 2019, Epub ahead of print. ⟨10.1016/j.neurobiolaging.2019.07.015⟩. ⟨inserm-02266990⟩

Olivier Colliot. Interpretable and reliable artificial intelligence systems for brain diseases. ERCIM News, ERCIM, 2019, 118. ⟨hal-02178901⟩

Manon Ansart, Stéphane Epelbaum, Geoffroy Gagliardi, Olivier Colliot, Didier Dormont, et al.. Reduction of recruitment costs in preclinical AD trials. Validation of automatic pre-screening algorithm for brain amyloidosis. Statistical Methods in Medical Research, SAGE Publications, 2019, pp.096228021882303. ⟨10.1177/0962280218823036⟩. ⟨hal-01964942v2⟩

Giorgia Querin, Peter Bede, Mohamed Mounir El Mendili, Menghan Li, Mélanie Pélégrini-Issac, et al.. Presymptomatic spinal cord pathology in c9orf72 mutation carriers: a longitudinal neuroimaging study. Annals of Neurology, Wiley, 2019, 86 (2), pp.158-167. ⟨10.1002/ana.25520⟩. ⟨hal-02265301⟩

Didier Dormont, Noam Ben-Eliezer, Ninon Burgos, Olivier Colliot, Fabrizio de Vico Fallani, et al.. Tribute to Anne Bertrand (1978–2018): Neuroradiologist, scientist, teacher and friend. Journal de Neuroradiologie / Journal of Neuroradiology, Elsevier Masson, 2019, 46 (2), pp.155-159. ⟨10.1016/j.neurad.2019.01.001⟩. ⟨hal-02265305⟩

Jérémy Guillon, Mario Chavez, Federico Battiston, yohan Attal, Valentina La Corte, et al.. Disrupted core-periphery structure of multimodal brain networks in Alzheimer’s disease. Network Neuroscience, MIT Press, 2019, 3 (2), pp.635-652. ⟨10.1162/netn_a_00087⟩. ⟨hal-02265308⟩

Clémence Fournier, Mathieu Barbier, Agnès Camuzat, Vincent Anquetil, Serena Lattante, et al.. Relations between C9orf72 expansion size in blood, age at onset, age at collection and transmission across generations in patients and presymptomatic carriers. Neurobiology of Aging, Elsevier, 2019, 74, pp.234.e1-234.e8. ⟨10.1016/j.neurobiolaging.2018.09.010⟩. ⟨hal-02025976⟩

Wen Wei, Emilie Poirion, Benedetta Bodini, Stanley Durrleman, Olivier Colliot, et al.. Fluid-attenuated inversion recovery MRI synthesis from multisequence MRI using three-dimensional fully convolutional networks for multiple sclerosis. Journal of Medical Imaging, SPIE Digital Library, 2019, 6 (01), ⟨10.1117/1.JMI.6.1.014005⟩. ⟨hal-02042526v2⟩

Junhao Wen, Hui Zhang, Daniel C Alexander, Stanley Durrleman, Alexandre Routier, et al.. Neurite density is reduced in the presymptomatic phase of C9orf72 disease. Journal of Neurology, Neurosurgery and Psychiatry, BMJ Publishing Group, 2019, J Neurol Neurosurg Psychiatry, 90 (4), pp.387-94. ⟨10.1136/jnnp-2018-318994⟩. ⟨hal-01907482⟩

Wen Wei, Emilie Poirion, Benedetta Bodini, Stanley Durrleman, Nicholas Ayache, et al.. Predicting PET-derived Demyelination from Multimodal MRI using Sketcher-Refiner Adversarial Training for Multiple Sclerosis. Medical Image Analysis, Elsevier, 2019, 58 (101546), ⟨10.1016/j.media.2019.101546⟩. ⟨hal-02276634⟩

Michel Thiebaut de Schotten, Hovagim Bakardjian, Habib Benali, Hugo Bertin, Joel Bonheur, et al.. Differential default mode network trajectories in asymptomatic individuals at risk for Alzheimer's disease. Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring, Wiley, 2019, 15 (7), pp.940-950. ⟨10.1016/j.jalz.2019.03.006⟩. ⟨hal-02368904⟩

Claire Cury, Joan Glaunès, Roberto Toro, Marie Chupin, Gunter Schumann, et al.. Statistical Shape Analysis of Large Datasets Based on Diffeomorphic Iterative Centroids. Frontiers in Neuroscience, Frontiers, 2018, 12, pp.803. ⟨10.3389/fnins.2018.00803⟩. ⟨hal-01920263v2⟩

Harald Hampel, Nicola Toschi, Claudio Babiloni, Filippo Baldacci, Keith L Black, et al.. Revolution of Alzheimer Precision Neurology. Passageway of Systems Biology and Neurophysiology. Journal of Alzheimer's Disease, IOS Press, 2018, 64 (s1), pp.S47 - S105. ⟨10.3233/jad-179932⟩. ⟨hal-01910402⟩

Igor Koval, Jean-Baptiste Schiratti, Alexandre M Routier, Michael Bacci, Olivier Colliot, et al.. Spatiotemporal Propagation of the Cortical Atrophy: Population and Individual Patterns. Frontiers in Neurology, Frontiers, 2018, 9, pp.235. ⟨10.3389/fneur.2018.00235⟩. ⟨hal-01910400⟩

Arnaud Marcoux, Ninon Burgos, Anne Bertrand, Marc Teichmann, Alexandre Routier, et al.. An Automated Pipeline for the Analysis of PET Data on the Cortical Surface. Frontiers in Neuroinformatics, Frontiers, 2018, 12, ⟨10.3389/fninf.2018.00094⟩. ⟨hal-01950933⟩

Clara Sanches, Alexandre Routier, Olivier Colliot, Marc Teichmann. The structure of the mental lexicon: what primary progressive aphasias reveal. Neuropsychologia, Elsevier, 2018, 109, pp.107-115. ⟨10.1016/j.neuropsychologia.2017.12.018⟩. ⟨hal-01672932⟩

Anne Bertrand, Junhao Wen, Daisy Rinaldi, Marion Houot, Sabrina Sayah, et al.. Early cognitive, structural and microstructural changes in c9orf72 presymptomatic carriers before 40 years of age. JAMA neurology, American Medical Association, 2018, 75 (2), pp.236-245. ⟨10.1001/jamaneurol.2017.4266⟩. ⟨hal-01654000⟩

Bruno Dubois, Stéphane Epelbaum, Francis Nyasse, Hovagim Bakardjian, Geoffroy Gagliardi, et al.. Cognitive and neuroimaging features and brain β-amyloidosis in individuals at risk of Alzheimer's disease (INSIGHT-preAD): a longitudinal observational study. The Lancet Neurology, Elsevier, 2018, 17 (4), pp.335 - 346. ⟨10.1016/S1474-4422(18)30029-2⟩. ⟨hal-01777834⟩

Alexandre Routier, Marie-Odile Habert, Anne Bertrand, Aurélie Kas, Martina Sundqvist, et al.. Structural, Microstructural, and Metabolic Alterations in Primary Progressive Aphasia Variants. Frontiers in Neurology, Frontiers, 2018, 9, ⟨10.3389/fneur.2018.00766⟩. ⟨hal-01897015⟩

Aline Mendes, Anne Bertrand, Foudil Lamari, Olivier Colliot, Alexandre Routier, et al.. Cerebral microbleeds and CSF Alzheimer biomarkers in primary progressive aphasias. Neurology, American Academy of Neurology, 2018, 90 (12), pp.e1057 - e1065. ⟨10.1212/WNL.0000000000005165⟩. ⟨hal-01820415⟩

Jorge Samper-Gonzalez, Ninon Burgos, Simona Bottani, Sabrina Fontanella, Pascal Lu, et al.. Reproducible evaluation of classification methods in Alzheimer's disease: Framework and application to MRI and PET data. NeuroImage, Elsevier, 2018, 183, pp.504-521. ⟨10.1016/j.neuroimage.2018.08.042⟩. ⟨hal-01858384⟩

Kuldeep Kumar, Laurent Chauvin, Matthew Toews, Olivier Colliot, Christian Desrosiers. Multi-modal brain fingerprinting: a manifold approximation based framework. NeuroImage, Elsevier, 2018, 183, pp.212 - 226. ⟨10.1016/j.neuroimage.2018.08.006⟩. ⟨hal-01910367⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi Kacem, yulia Worbe, Alexandre Routier, et al.. Double diffeomorphism: combining morphometry and structural connectivity analysis. IEEE Transactions on Medical Imaging, Institute of Electrical and Electronics Engineers, 2018, 37 (9), pp.2033-2043. ⟨10.1109/TMI.2018.2813062⟩. ⟨hal-01709847v2⟩

Claire Cury, Joan Glaunès, Marie Chupin, Olivier Colliot. Analysis of anatomical variability using diffeomorphic iterative centroid in patients with Alzheimer's disease. Computer Methods in Biomechanics and Biomedical Engineering: Imaging & Visualization, Taylor & Francis, 2017, 5 (5), pp.350 - 358. ⟨10.1080/21681163.2015.1035403⟩. ⟨hal-01135304⟩

Enrica Cavedo, Michel J Grothe, Olivier Colliot, Simone Lista, Marie Chupin, et al.. Reduced basal forebrain atrophy progression in a randomized Donepezil trial in prodromal Alzheimer's disease. Scientific Reports, Nature Publishing Group, 2017, 7 (1), pp.11706. ⟨10.1038/s41598-017-09780-3⟩. ⟨hal-01589622⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, yulia Worbe, Cyril Poupon, et al.. A Bayesian Framework for Joint Morphometry of Surface and Curve meshes in Multi-Object Complexes. Medical Image Analysis, Elsevier, 2017, 35, pp.458-474. ⟨10.1016/j.media.2016.08.011⟩. ⟨hal-01359423⟩

Romain Colle, Tomoyuki Segawa, Marie Chupin, Minh Ngoc Thien Kim Tran Dong, Patrick Hardy, et al.. Early life adversity is associated with a smaller hippocampus in male but not female depressed in-patients: a case–control study. BMC Psychiatry, BioMed Central, 2017, 17 (1), pp.71. ⟨10.1186/s12888-017-1233-2⟩. ⟨hal-01474139⟩

Thomas Jacquemont, Fabrizio de Vico Fallani, Anne Bertrand, Stéphane Epelbaum, Alexandre Routier, et al.. Amyloidosis and neurodegeneration result in distinct structural connectivity patterns in mild cognitive impairment. Neurobiology of Aging, Elsevier, 2017, ⟨10.1016/j.neurobiolaging.2017.03.023⟩. ⟨hal-01518785⟩

Jean-Baptiste Schiratti, Stéphanie Allassonniere, Olivier Colliot, Stanley Durrleman. A Bayesian mixed-effects model to learn trajectories of changes from repeated manifold-valued observations. Journal of Machine Learning Research, Microtome Publishing, 2017, 18, pp.1-33. ⟨hal-01540367v3⟩

Kuldeep Kumar, Christian Desrosiers, Kaleem Siddiqi, Olivier Colliot, Matthew Toews. Fiberprint: A subject fingerprint based on sparse code pooling for white matter fiber analysis. NeuroImage, Elsevier, 2017, 158, pp.242 - 259. ⟨10.1016/j.neuroimage.2017.06.083⟩. ⟨hal-01562449⟩

Jérémy Guillon, yohan Attal, Valentina La Corte, Olivier Colliot, Bruno Dubois, et al.. Loss of brain inter-frequency hubs in Alzheimer's disease.. Scientific Reports, Nature Publishing Group, 2017, 7 (1), pp.10879. ⟨10.1038/s41598-017-07846-w⟩. ⟨hal-01578419⟩

Lorraine Hamelin, Julien Lagarde, Guillaume Dorothée, Claire Leroy, Mickael Labit, et al.. Early and protective microglial activation in Alzheimer's disease: a prospective study using 18F-DPA-714 PET imaging. Brain - A Journal of Neurology , Oxford University Press (OUP), 2016, 139 (Pt 4), pp.1252-64. ⟨10.1093/brain/aww017⟩. ⟨hal-01372414⟩

Linda Marrakchi-Kacem, Alexandre Vignaud, Julien Sein, Johanne Germain, Thomas R Henry, et al.. Robust imaging of hippocampal inner structure at 7T: in vivo acquisition protocol and methodological choices. Magnetic Resonance Materials in Physics, Biology and Medicine, Springer Verlag, 2016. ⟨hal-01321870v2⟩

Enrica Cavedo, Bruno Dubois, Olivier Colliot, Simone Lista, Bernard Croisile, et al.. Reduced Regional Cortical Thickness Rate of Change in Donepezil-Treated Subjects With Suspected Prodromal Alzheimer’s Disease. Journal of Clinical Psychiatry, the American Society of Clinical Psychopharmacology, 2016, ⟨10.4088/JCP.15m10413⟩. ⟨hal-01388951⟩

Romain Colle, Irène Dupong, Olivier Colliot, Eric Deflesselle, Patrick Hardy, et al.. Smaller hippocampal volumes predict lower antidepressant response/remission rates in depressed patients: A meta-analysis. World Journal of Biological Psychiatry, Taylor & Francis, 2016, pp.1-23. ⟨10.1080/15622975.2016.1208840⟩. ⟨hal-01372398⟩

Stefan J Teipel, Enrica Cavedo, Michel J Grothe, Simone Lista, Samantha Galluzzi, et al.. Predictors of cognitive decline and treatment response in a clinical trial on suspected prodromal Alzheimer's disease. Neuropharmacology, Elsevier, 2016, 108, pp.128-35. ⟨hal-01372417⟩

Romain Colle, Claire Cury, Marie Chupin, Eric Deflesselle, Patrick Hardy, et al.. Hippocampal volume predicts antidepressant efficacy in depressed patients without incomplete hippocampal inversion. Neuroimage-Clinical, Elsevier, 2016, ⟨10.1016/j.nicl.2016.04.009⟩. ⟨hal-01310464⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, yulia Worbe, Fabrizio de Vico Fallani, et al.. Parsimonious Approximation of Streamline Trajectories in White Matter Fiber Bundles. IEEE Transactions on Medical Imaging, Institute of Electrical and Electronics Engineers, 2016, PP (99), ⟨10.1109/TMI.2016.2591080⟩. ⟨hal-01346067⟩

Fatima Ameur, Olivier Colliot, Paola Caroppo, Sebastian Stroer, Didier Dormont, et al.. White matter lesions in FTLD: distinct phenotypes characterize GRN and C9ORF72 mutations. Neurology Genetics, American Academy of Neurology, 2016, 2 (1), ⟨10.1212/NXG.0000000000000047⟩. ⟨hal-01266596⟩

Grégory Operto, Marie Chupin, Bénédicte Batrancourt, Marie-Odile Habert, Olivier Colliot, et al.. CATI: A Large Distributed Infrastructure for the Neuroimaging of Cohorts. Neuroinformatics, Springer, 2016, pp.1-12. ⟨10.1007/s12021-016-9295-8⟩. ⟨hal-01303094⟩

Paola Caroppo, Marie-Odile Habert, Stanley Durrleman, Aurélie Funkiewiez, Vincent Perlbarg, et al.. Lateral Temporal Lobe: An Early Imaging Marker of the Presymptomatic GRN Disease?. Journal of Alzheimer's Disease, IOS Press, 2015, 47 (3), pp.751-9. ⟨10.3233/JAD-150270⟩. ⟨hal-01220380⟩

Lorraine Hamelin, Maxime Bertoux, Michel Bottlaender, Helene Corne, Julien Lagarde, et al.. Sulcal morphology as a new imaging marker for the diagnosis of early onset Alzheimer's disease. Neurobiology of Aging, Elsevier, 2015, 36 (11), pp.2932-9. ⟨10.1016/j.neurobiolaging.2015.04.019⟩. ⟨hal-01254276⟩

Bruno Dubois, Marie Chupin, Harald Hampel, Simone Lista, Enrica Cavedo, et al.. Donepezil decreases annual rate of hippocampal atrophy in suspected prodromal Alzheimer's disease. Alzheimer's and Dementia, Elsevier, 2015, 11 (9), pp.1041-1049. ⟨10.1016/j.jalz.2014.10.003⟩. ⟨hal-01249861⟩

Claire Cury, Roberto Toro, Fanny Cohen, Clara Fischer, Amel Mhaya, et al.. Incomplete Hippocampal Inversion: A Comprehensive MRI Study of Over 2000 Subjects. Frontiers in Neuroanatomy, Frontiers, 2015, 9, pp.160. ⟨10.3389/fnana.2015.00160⟩. ⟨hal-01251239⟩

Romain Colle, Marie Chupin, Claire Cury, Christophe Vandendrie, Florence Gressier, et al.. Depressed suicide attempters have smaller hippocampus than depressed patients without suicide attempts. Journal of Psychiatric Research, Elsevier, 2015, 61, pp.6. ⟨10.1016/j.jpsychires.2014.12.010⟩. ⟨hal-01108928⟩

Pierre Besson, Vera Dinkelacker, Romain Valabregue, Lionel Thivard, Xavier Leclerc, et al.. Structural connectivity differences in left and right temporal lobe epilepsy. NeuroImage, Elsevier, 2014, pp.135-44. ⟨hal-01098831⟩

Paola Caroppo, Isabelle Le Ber, Agnès Camuzat, Fabienne Clot, Lionel Naccache, et al.. Extensive white matter involvement in patients with frontotemporal lobar degeneration: think progranulin. JAMA neurology, American Medical Association, 2014, 71 (12), pp.1562-6. ⟨hal-01439037⟩

Claire Boutet, Marie Chupin, Stéphane Lehéricy, Linda Marrakchi-Kacem, Stéphane Epelbaum, et al.. Detection of volume loss in hippocampal layers in Alzheimer's disease using 7 T MRI: a feasibility study. Neuroimage-Clinical, Elsevier, 2014, 5, pp.341-8. ⟨hal-01099185⟩

Harald Hampel, Simone Lista, Stefan J Teipel, Francesco Garaci, Robert Nisticò, et al.. Perspective on future role of biological markers in clinical therapy trials of Alzheimer's disease: a long-range point of view beyond 2020. Biochemical Pharmacology, Elsevier, 2014, pp.426-49. ⟨hal-01098832⟩

Enrica Cavedo, Simone Lista, Zaven S Khachaturian, Paul S Aisen, Philippe Amouyel, et al.. The road ahead to cure Alzheimer’s disease: development of biological markers and neuroimaging methods for prevention trials across all stages and target populations. The Journal of prevention of Alzheimer's disease, SERDI éd, 2014, 1 (3), pp.181-202. ⟨10.14283/jpad.2014.32⟩. ⟨hal-01098836⟩

Olivier Colliot, Lorraine Hamelin, Marie Sarazin. Magnetic resonance imaging for diagnosis of early Alzheimer's disease. Revue Neurologique, Elsevier Masson, 2013, 169 (10), pp.724-8. ⟨10.1016/j.neurol.2013.07.013⟩. ⟨hal-00867481⟩

Rémi Cuingnet, Joan Alexis Glaunès, Marie Chupin, Habib Benali, Olivier Colliot. Spatial and Anatomical Regularization of SVM: A General Framework for Neuroimaging Data. IEEE Transactions on Pattern Analysis and Machine Intelligence, Institute of Electrical and Electronics Engineers, 2013, 35 (3), pp.682 - 696. ⟨10.1109/TPAMI.2012.142⟩. ⟨hal-00790079⟩

Julien Lagarde, Romain Valabrègue, Jean-Christophe Corvol, Isabelle Le Ber, Olivier Colliot, et al.. The clinical and anatomical heterogeneity of environmental dependency phenomena. Journal of Neurology, Springer Verlag, 2013, 260 (9), pp.2262-70. ⟨10.1007/s00415-013-6976-1⟩. ⟨hal-00867487⟩

Leonardo Cruz de Souza, Marie Chupin, Maxime Bertoux, Stéphane Lehéricy, Bruno Dubois, et al.. Is Hippocampal Volume a Good Marker to Differentiate Alzheimer's Disease from Frontotemporal Dementia?. Journal of Alzheimer's Disease, IOS Press, 2013, 36 (1), pp.57-66. ⟨10.3233/JAD-122293⟩. ⟨hal-00815740⟩

Guillaume Dorothée, Michel Bottlaender, Edmond Moukari, Leonardo C de Souza, Renaud Maroy, et al.. Distinct patterns of antiamyloid-β antibodies in typical and atypical Alzheimer disease. Archives of Neurology -Chigago-, American Medical Association, 2012, 69 (9), pp.1181-1185. ⟨10.1001/archneurol.2012.604⟩. ⟨hal-00790083⟩

Claire Boutet, Marie Chupin, Olivier Colliot, Marie Sarazin, Gurkan Mutlu, et al.. Is radiological evaluation as good as computer-based volumetry to assess hippocampal atrophy in Alzheimer's disease?. Neuroradiology, Springer Verlag, 2012, 54 (12), pp.1321-1330. ⟨10.1007/s00234-012-1058-0⟩. ⟨hal-00790081⟩

Hosung Kim, Marie Chupin, Olivier Colliot, Boris C Bernhardt, Neda Bernasconi, et al.. Automatic hippocampal segmentation in temporal lobe epilepsy: impact of developmental abnormalities. NeuroImage, Elsevier, 2012, 59 (4), pp.3178-3186. ⟨10.1016/j.neuroimage.2011.11.040⟩. ⟨hal-00790810⟩

Thomas Samaille, Ludovic Fillon, Rémi Cuingnet, Eric Jouvent, Hugues Chabriat, et al.. Contrast-based fully automatic segmentation of white matter hyperintensities: method and validation. PLoS ONE, Public Library of Science, 2012, 7 (11), pp.e48953. ⟨10.1371/journal.pone.0048953⟩. ⟨hal-00789657⟩

Leonardo C de Souza, Marie Chupin, Foudil Lamari, Claude Jardel, Delphine Leclercq, et al.. CSF tau markers are correlated with hippocampal volume in Alzheimer's disease. Neurobiology of Aging, Elsevier, 2012, 33 (7), pp.1253-7. ⟨10.1016/j.neurobiolaging.2011.02.022⟩. ⟨hal-00795742⟩

Charlotte Rosso, Olivier Colliot, Romain Valabrègue, Sophie Crozier, Didier Dormont, et al.. Tissue at risk in the deep middle cerebral artery territory is critical to stroke outcome.. Neuroradiology, Springer Verlag, 2011, 53 (10), pp.763-71. ⟨10.1007/s00234-011-0916-5⟩. ⟨hal-00795756⟩

Rémi Cuingnet, Charlotte Rosso, Marie Chupin, Stéphane Lehéricy, Didier Dormont, et al.. Spatial regularization of SVM for the detection of diffusion alterations associated with stroke outcome. Medical Image Analysis, Elsevier, 2011, 15 (5), pp.729-37. ⟨10.1016/j.media.2011.05.007⟩. ⟨hal-00795741⟩

Leonardo Cruz de Souza, Fabian Corlier, Marie-Odile Habert, Olga Uspenskaya, Renaud Maroy, et al.. Similar amyloid-β burden in posterior cortical atrophy and Alzheimer's disease. Brain - A Journal of Neurology , Oxford University Press (OUP), 2011, 134 (Pt 7), pp.2036-43. ⟨10.1093/brain/awr130⟩. ⟨hal-00795743⟩

Guillaume Auzias, Olivier Colliot, Joan Alexis Glaunès, Matthieu Perrot, Jean-François Mangin, et al.. Diffeomorphic brain registration under exhaustive sulcal constraints.. IEEE Transactions on Medical Imaging, Institute of Electrical and Electronics Engineers, 2011, 30 (6), pp.1214-1227. ⟨10.1109/TMI.2011.2108665⟩. ⟨hal-00793675⟩

Charlotte Rosso, Olivier Colliot, Christian Pires, Christine Delmaire, Romain Valabrègue, et al.. Early ADC changes in motor structures predict outcome of acute stroke better than lesion volume. Journal de Neuroradiologie / Journal of Neuroradiology, Elsevier Masson, 2011, 38 (2), pp.105-12. ⟨10.1016/j.neurad.2010.05.001⟩. ⟨hal-00805381⟩

Marie Chupin, Emilie Gérardin, Rémi Cuingnet, Eric Bardinet, Didier Dormont, et al.. Segmentation ciblée d’images IRM et maladie d’Alzheimer. Innovation and Research in BioMedical engineering, Elsevier Masson, 2011. ⟨hal-01413898⟩

Rémi Cuingnet, Emilie Gerardin, Jérôme Tessieras, Guillaume Auzias, Stéphane Lehéricy, et al.. Automatic classification of patients with Alzheimer's disease from structural MRI: a comparison of ten methods using the ADNI database. NeuroImage, Elsevier, 2011, 56 (2), pp.766-81. ⟨10.1016/j.neuroimage.2010.06.013⟩. ⟨hal-00795739⟩

Sylvain Baillet, Jean Brunol, Pierre Chavel, Olivier Colliot, Mireille Cuniot-Ponsard, et al.. Line Garnero (1955-2009): pluridisciplinarity at the heart. Tribute to Line Garnero, director of research at CNRS.. Innovation and Research in BioMedical engineering, Elsevier Masson, 2011, 32 (1), pp.1-7. ⟨hal-00671399⟩

yulia Worbe, Emilie Gerardin, Andreas Hartmann, Romain Valabrégue, Marie Chupin, et al.. Distinct structural changes underpin clinical phenotypes in patients with Gilles de la Tourette syndrome. Brain - A Journal of Neurology , Oxford University Press (OUP), 2010, 133 (Pt 12), pp.3649-60. ⟨10.1093/brain/awq293⟩. ⟨hal-00805386⟩

Marie Sarazin, Valérie Chauviré, Emilie Gerardin, Olivier Colliot, Serge Kinkingnéhun, et al.. The amnestic syndrome of hippocampal type in Alzheimer's disease: an MRI study. Journal of Alzheimer's Disease, IOS Press, 2010, 22 (1), pp.285-94. ⟨10.3233/JAD-2010-091150⟩. ⟨hal-00805385⟩

Marie Chupin, Emilie Gérardin, Rémi Cuingnet, Claire Boutet, Louis Lemieux, et al.. Fully automatic hippocampus segmentation and classification in Alzheimer's disease and mild cognitive impairment applied on data from ADNI. Hippocampus, Wiley, 2009, 19 (6), pp.579-87. ⟨10.1002/hipo.20626⟩. ⟨hal-00805428⟩

Marie Chupin, A. Hammers, R. S. N. Liu, Olivier Colliot, J. Burdett, et al.. Automatic segmentation of the hippocampus and the amygdala driven by hybrid constraints: method and validation. NeuroImage, Elsevier, 2009, 46 (3), pp.749-61. ⟨10.1016/j.neuroimage.2009.02.013⟩. ⟨hal-00805390⟩

Loretxu Bergouignan, Marie Chupin, yvonne Czechowska, Serge Kinkingnéhun, Cédric Lemogne, et al.. Can voxel based morphometry, manual segmentation and automated segmentation equally detect hippocampal volume differences in acute depression?. NeuroImage, Elsevier, 2009, 45 (1), pp.29-37. ⟨10.1016/j.neuroimage.2008.11.006⟩. ⟨hal-00805422⟩

Benoît Magnin, Lilia Mesrob, Serge Kinkingnéhun, Mélanie Pélégrini-Issac, Olivier Colliot, et al.. Support vector machine-based classification of Alzheimer's disease from whole-brain anatomical MRI. Neuroradiology, Springer Verlag, 2009, 51 (2), pp.73-83. ⟨10.1007/s00234-008-0463-x⟩. ⟨hal-00805439⟩

Emilie Gerardin, Gaël Chételat, Marie Chupin, Rémi Cuingnet, Béatrice Desgranges, et al.. Multidimensional classification of hippocampal shape features discriminates Alzheimer's disease and mild cognitive impairment from normal aging. NeuroImage, Elsevier, 2009, 47 (4), pp.1476-86. ⟨10.1016/j.neuroimage.2009.05.036⟩. ⟨hal-00805434⟩

Hassan Khotanlou, Olivier Colliot, Jamal Atif, Isabelle Bloch. 3D brain tumor segmentation in MRI using fuzzy classification, symmetry analysis and spatially constrained deformable models. Fuzzy Sets and Systems, Elsevier, 2009, 160 (10), ⟨10.1016/j.fss.2008.11.016⟩. ⟨hal-01251278⟩

H. Kim, N. Bernasconi, B. Bernhardt, Olivier Colliot, A. Bernasconi. Basal temporal sulcal morphology in healthy controls and patients with temporal lobe epilepsy. Neurology, American Academy of Neurology, 2008, 70 (22 Pt 2), pp.2159-65. ⟨10.1212/01.wnl.0000313150.62832.79⟩. ⟨hal-00805437⟩

Olivier Colliot, Gaël Chételat, Marie Chupin, Béatrice Desgranges, Benoît Magnin, et al.. Discrimination between Alzheimer disease, mild cognitive impairment, and normal aging by using automated segmentation of the hippocampus.. Radiology, Radiological Society of North America, 2008, 248 (1), pp.194-201. ⟨10.1148/radiol.2481070876⟩. ⟨inserm-00383265⟩

Olivier Colliot, Marie Chupin, Marie Sarazin, Marie-Odile Habert, Didier Dormont, et al.. L'apport de la neuroimagerie dans la maladie d'Alzheimer. PSN - psychiatrie, sciences humaines, neurosciences, Springer Verlag - Editions matériologiques 2008. ⟨hal-01413895⟩

A. Moreno, C.M. Takemura, Olivier Colliot, O. Camara, Isabelle Bloch. Using anatomical knowledge expressed as fuzzy constraints to segment the heart in CT images. Pattern Recognition, Elsevier, 2008, 41 (8), ⟨10.1016/j.patcog.2008.01.020⟩. ⟨hal-01251275⟩

Oscar Camara, Gaspar Delso, Olivier Colliot, Antonio Moreno-Ingelmo, Isabelle Bloch. Explicit incorporation of prior anatomical information into a nonrigid registration of thoracic and abdominal CT and 18-FDG whole-body emission PET images.. IEEE Transactions on Medical Imaging, Institute of Electrical and Electronics Engineers, 2007, 26 (2), pp.164-78. ⟨hal-01366555⟩

Olivier Colliot, Neda Bernasconi, Najmeh Khalili, Samson B Antel, Véronique Naessens, et al.. Individual voxel-based analysis of gray matter in focal cortical dysplasia.. NeuroImage, Elsevier, 2006, 29 (1), pp.162-71. ⟨10.1016/j.neuroimage.2005.07.021⟩. ⟨hal-01259130⟩

Isabelle Bloch, Olivier Colliot, Roberto M. Cesar. On the ternary spatial relation "Between". IEEE Transactions on Systems, Man, and Cybernetics, Part B: Cybernetics, Institute of Electrical and Electronics Engineers, 2006, 36 (2), pp.312-327. ⟨10.1109/TSMCB.2005.857095⟩. ⟨hal-01251251⟩

Olivier Colliot, Samson B Antel, Veronique B Naessens, Neda Bernasconi, Andrea Bernasconi. In vivo profiling of focal cortical dysplasia on high-resolution MRI with computational models.. Epilepsia, Wiley, 2006, 47 (1), pp.134-42. ⟨hal-01259128⟩

Olivier Colliot, Tommaso Mansi, N. Bernasconi, V. Naessens, D. Klironomos, et al.. Segmentation of focal cortical dysplasia lesions on MRI using level set evolution. NeuroImage, Elsevier, 2006, 32 (4), pp.1621-1630. ⟨10.1016/j.neuroimage.2006.04.225⟩. ⟨inria-00614998⟩

Olivier Colliot, Oscar Camara, Isabelle Bloch. Integration of fuzzy spatial relations in deformable models - application to brain MRI segmentation. Pattern Recognition, Elsevier, 2006, 39 (8), pp.1401-1414. ⟨10.1016/j.patcog.2006.02.022⟩. ⟨hal-00878443⟩

Isabelle Bloch, Olivier Colliot, Oscar Camara, Thierry Géraud. Fusion of spatial relationships for guiding recognition, example of brain structure recognition in 3D MRI. Pattern Recognition Letters, Elsevier, 2005, 26 (4), pp.449-457. ⟨10.1016/j.patrec.2004.08.009⟩. ⟨hal-01251245⟩

Olivier Colliot, Oscar Camara, Isabelle Bloch. Un modèle déformable intégrant des relations spatiales pour la segmentation de structures cérébrales. Revue I3 - Information Interaction Intelligence, Cépaduès, 2005, 5 (1), pp.29-58. ⟨hal-01413894⟩

Olivier Colliot, Alexander V. Tuzikov, Roberto M. Cesar, Isabelle Bloch. Approximate reflectional symmetries of fuzzy objects with an application in model-based object recognition. Fuzzy Sets and Systems, Elsevier, 2004, 147 (1), pp.141-163. ⟨10.1016/j.fss.2003.07.003⟩. ⟨hal-01251244⟩

Oscar Camara, Olivier Colliot, Isabelle Bloch. Computational modeling of thoracic and abdominal anatomy using spatial relationships for image segmentation. Real Time Imaging, Elsevier, 2004, 10 (4), pp.263-273. ⟨10.1016/j.rti.2004.05.005⟩. ⟨hal-01251241⟩

Alexander V. Tuzikov, Olivier Colliot, Isabelle Bloch. Evaluation of the symmetry plane in 3D MR brain images. Pattern Recognition Letters, Elsevier, 2003, 24 (14), pp.2219-2233. ⟨10.1016/S0167-8655(03)00049-7⟩. ⟨hal-01227827⟩

Elina Thibeau-Sutre, Baptiste Couvy-Duchesne, Didier Dormont, Olivier Colliot, Ninon Burgos. MRI field strength predicts Alzheimer's disease: a case example of bias in the ADNI data set. ISBI 2022 - International Symposium on Biomedical Imaging, Mar 2022, Kolkata, India. ⟨10.1109/ISBI52829.2022.9761504⟩. ⟨hal-03542213⟩

Marius Schmidt-Mengin, Vito A. G. Ricigliano, Benedetta Bodini, Emanuele Morena, Annalisa Colombi, et al.. Axial multi-layer perceptron architecture for automatic segmentation of choroid plexus in multiple sclerosis. SPIE Medical Imaging 2022, Feb 2022, San Diego, United States. ⟨10.1117/12.2612912⟩. ⟨hal-03343735⟩

Simona Bottani, Elina Thibeau-Sutre, Aurélien Maire, Sebastian Ströer, Didier Dormont, et al.. Homogenization of brain MRI from a clinical data warehouse using contrast-enhanced to non-contrast-enhanced image translation with U-Net derived models. SPIE Medical Imaging 2022: Image Processing, Feb 2022, San Diego, United States. pp.576-582, ⟨10.1117/12.2608565⟩. ⟨hal-03478798⟩

Virgilio Kmetzsch, Emmanuelle Becker, Dario Saracino, Vincent Anquetil, Daisy Rinaldi, et al.. A multimodal variational autoencoder for estimating progression scores from imaging and microRNA data in rare neurodegenerative diseases. SPIE Medical Imaging 2022: Image Processing, Feb 2022, San Diego, California, United States. pp.376-382, ⟨10.1117/12.2607250⟩. ⟨hal-03576117⟩

Baptiste Couvy-Duchesne, Futao Zhang, Kathryn E Kemper, Julia Sidorenko, Naomi R Wray, et al.. Association and prediction of phenotypic traits from neuroimaging data using a multi-component mixed model excluding the target vertex. SPIE Medical Imaging 2021, Feb 2021, Virtual, United States. pp.10, ⟨10.1117/12.2581022⟩. ⟨hal-03174495⟩

Omar El-Rifai, Mauricio Diaz Melo, Ravi Hassanaly, Matthieu Joulot, Alexandre M Routier, et al.. Clinica: an open-source software platform for reproducible clinical neuroscience studies. MRI Together 2021 - A global workshop on Open Science and Reproducible MR Research, Dec 2021, Online, France. ⟨hal-03513920⟩

Alexandre Routier, Arnaud Marcoux, Mauricio Diaz Melo, Jorge Samper-González, Adam Wild, et al.. New longitudinal and deep learning pipelines in the Clinica software platform. OHBM 2020 - Annual meeting of the Organization for Human Brain Mapping, Jun 2020, Montreal / Virtual, Canada. ⟨hal-02549242⟩

Pascal Lu, Olivier Colliot. Multilevel Survival Analysis with Structured Penalties for Imaging Genetics data. SPIE Medical Imaging Conference, Feb 2020, Houston, United States. ⟨hal-02473825⟩

Alexandre Bône, Paul Vernhet, Olivier Colliot, Stanley Durrleman​. Learning joint shape and appearance representations with metamorphic auto-encoders. MICCAI 2020 - 23rd International Conference on Image Computing and Computer Assisted Interventions, Oct 2020, Lima / Virtual, Peru. ⟨hal-03136537⟩

Baptiste Couvy-Duchesne, Futao Zhang, Kathryn E Kemper, Julia Sidorenko, Naomi R. Wray, et al.. Linear Mixed Models Minimise False Positive Rate and Enhance Precision of Mass Univariate Vertex-Wise Analyse of Grey-Matter. ISBI 2020 - International Symposium on Biomedical Imaging, Apr 2020, Iowa City / Virtual, United States. ⟨hal-02477130⟩

Elina Thibeau-Sutre, Olivier Colliot, Didier Dormont, Ninon Burgos. Visualization approach to assess the robustness of neural networks for medical image classification. SPIE Medical Imaging 2020, Feb 2020, Houston, United States. ⟨10.1117/12.2548952⟩. ⟨hal-02370532v3⟩

Alexandre Bône, Benoît Martin, Maxime Louis, Olivier Colliot, Stanley Durrleman. Hierarchical modeling of Alzheimer's disease progression from a large longitudinal MRI data set. VPH 2020 - Virtual Physiological Human 2020, Aug 2020, Paris / Virtual, France. ⟨hal-02979176⟩

Giulia Bassignana, Olivier Colliot, Fabrizio de Vico Fallani. A step-wise criterion to determine target control centrality in the aging brain network. NetSci 2020 - International School and Conference on Network Science, Sep 2020, Rome / Virtual, Italy. ⟨hal-03022301⟩

Alexandre Bône, Olivier Colliot, Stanley Durrleman. Auto-encoding meshes of any topology with the current-splatting and exponentiation layers. Geometry Meets Deep Learning @ ICCV 2019, Oct 2019, Séoul, South Korea. ⟨hal-02087586v2⟩

Igor Koval, Arnaud Marcoux, Ninon Burgos, Stéphanie Allassonnière, Olivier Colliot, et al.. Deciphering the progression of PET alterations using surface-based spatiotemporal modeling. OHBM 2019 - Annual meeting of the Organization for Human Brain Mapping, Jun 2019, Rome, Italy. ⟨hal-02134909⟩

Alexandre Bône, Maxime Louis, Olivier Colliot, Stanley Durrleman. Learning low-dimensional representations of shape data sets with diffeomorphic autoencoders. IPMI 2019 : Information Processing in Medical Imaging, Jun 2019, Hong-Kong, China. ⟨hal-01963736v2⟩

Junhao Wen​, Jorge Samper-González​, Alexandre M Routier, Simona Bottani​, Stanley Durrleman​, et al.. Beware of feature selection bias! Example on Alzheimer's disease classification from diffusion MRI. 2019 OHBM Annual Meeting - Organization for Human Brain Mapping, Jun 2019, Rome, Italy. ⟨hal-02105134v2⟩

Junhao Wen​, Elina Thibeau--Sutre​, Jorge Samper-González​, Alexandre M Routier, Simona Bottani​, et al.. How serious is data leakage in deep learning studies on Alzheimer's disease classification?. 2019 OHBM Annual meeting - Organization for Human Brain Mapping, Jun 2019, Rome, Italy. ⟨hal-02105133v2⟩

Manon Ansart, Ninon Burgos, Olivier Colliot, Didier Dormont, Stanley Durrleman. Prediction of future cognitive scores and dementia onset in Mild Cognitive Impairment patients. OHBM 2019 - Organization for Human Brain Mapping Conference, Jun 2019, Rome, Italy. ⟨hal-02098427v2⟩

Jorge Samper-Gonzalez, Ninon Burgos, Simona Bottani, Marie-Odile Habert, Theodoros Evgeniou, et al.. Reproducible evaluation of methods for predicting progression to Alzheimer's disease from clinical and neuroimaging data. SPIE Medical Imaging 2019, Feb 2019, San Diego, United States. ⟨10.1117/12.2512430⟩. ⟨hal-02025880v2⟩

Johann Faouzi, Samir Bekadar, Olivier Colliot, Jean-Christophe Corvol. Predicting Impulse Control Disorders in Parkinson's Disease: A Challenging Task. International Congress of Parkinson's Disease and Movement Disorders, Sep 2019, Nice, France. ⟨hal-02315533⟩

Alexandre Bône, Benoît Martin, Maxime Louis, Olivier Colliot, Stanley Durrleman. Hierarchical modeling of Alzheimer's disease progression from a large longitudinal MRI data set. OHBM 2019 - 25th Annual Meeting of the Organization for Human Brain Mapping, Jun 2019, Roma, Italy. ⟨hal-02090275⟩

Jorge Samper-Gonzalez, Ninon Burgos, Simona Bottani, Marie-Odile Habert, Theodoros Evgeniou, et al.. Predicting progression to Alzheimer’s disease from clinical and imaging data: a reproducible study. OHBM 2019 - Organization for Human Brain Mapping Annual Meeting 2019, Jun 2019, Rome, Italy. ⟨hal-02142315⟩

Alexandre Routier, Arnaud Marcoux, Mauricio Diaz Melo, Jérémy Guillon, Jorge Samper-González, et al.. New advances in the Clinica software platform for clinical neuroimaging studies. OHBM 2019 - Annual Meeting on Organization for Human Brain Mapping, Jun 2019, Roma, Italy. ⟨10.1016/j.neuroimage.2011.09.015⟩. ⟨hal-02132147v2⟩

Vincent J. Henry, Giulia Bassignana, Violetta Zujovic, Fabrizio de Vico Fallani, Olivier Dameron, et al.. Conciliation of process description and molecular interaction networks using logical properties of ontology. JOBIM 2019 - Journées Ouvertes Biologie, Informatique et Mathématiques, Jul 2019, Nantes, France. ⟨hal-02301702⟩

Giulia Bassignana, Jennifer Fransson, Olivier Colliot, Violetta Zujovic, Fabrizio de Vico Fallani. Target controllability in genetic networks of macrophage activation. Netsci 2019, May 2019, Burlington, United States. ⟨hal-02314001⟩

Junhao Wen, Jorge Samper-Gonzalez, Simona Bottani, Alexandre Routier, Ninon Burgos, et al.. Using diffusion MRI for classification and prediction of Alzheimer's Disease: a reproducible study. AAIC 2018 - Alzheimer's Association International Conference, Jul 2018, Chicago, United States. ⟨hal-01758167v2⟩

Giulia Bassignana, Jennifer Fransson, Olivier Colliot, Violetta Zujovic, Fabrizio de Vico Fallani. Identification of Driver Nodes in Genetic Networks Regulating Macrophage Activation. Conference on Complex Systems - CSS, Sep 2018, Thessaloniki, Greece. ⟨hal-01967797⟩

Alexandre Bône, Olivier Colliot, Stanley Durrleman. Learning distributions of shape trajectories from longitudinal datasets: a hierarchical model on a manifold of diffeomorphisms. CVPR 2018 - Computer Vision and Pattern Recognition 2018, Jun 2018, Salt Lake City, United States. ⟨hal-01744538v3⟩

Jorge Samper-Gonzalez, Simona Bottani, Ninon Burgos, Sabrina Fontanella, Pascal Lu, et al.. Reproducible evaluation of Alzheimer's Disease classification from MRI and PET data. Annual meeting of the Organization for Human Brain Mapping - OHBM 2018, Jun 2018, Singapour, Singapore. ⟨hal-01761666⟩

Vincent J. Henry, Ivan Moszer, Olivier Dameron, Marie-Claude Potier, Martin Hofmann-Apitius, et al.. Integrating ontological representation and reasoning into a disease map: application to Alzheimer's disease. DMCM 2018 - 3rd Disease Maps Community Meeting, Jun 2018, Paris, France. pp.1-2. ⟨hal-01873474⟩

Alexandre Routier, Jérémy Guillon, Ninon Burgos, Jorge Samper-Gonzalez, Junhao Wen, et al.. Clinica: an open source software platform for reproducible clinical neuroscience studies. Annual meeting of the Organization for Human Brain Mapping - OHBM 2018, Jun 2018, Singapore, Singapore. ⟨hal-01760658⟩

Vincent J. Henry, Ivan Moszer, Olivier Dameron, Marie-Claude Potier, Martin Hofmann-Apitius, et al.. Converting Alzheimer's disease map into a heavyweight ontology: a formal network to integrate data. DILS 2018 - 13th International Conference on Data Integration in the Life Sciences, Nov 2018, Hannover, Germany. pp.1-9. ⟨hal-01917742⟩

Giulia Bassignana, Jennifer Fransson, Olivier Colliot, Violetta Zujovic, Fabrizio de Vico Fallani. Identification of driver nodes in genetic networks regulating macrophage activation. International School and Conference on Network Science (Netsci) 2018, Jun 2018, Paris, France. ⟨hal-02315609⟩

Arnaud Marcoux, Ninon Burgos, Anne Bertrand, Alexandre Routier, Junhao Wen, et al.. A pipeline for the analysis of 18F-FDG PET data on the cortical surface and its evaluation on ADNI. Annual meeting of the Organization for Human Brain Mapping - OHBM 2018, Jun 2018, Singapour, Singapore. ⟨hal-01757646⟩

Wen Wei, Emilie Poirion, Benedetta Bodini, Stanley Durrleman, Olivier Colliot, et al.. FLAIR MR Image Synthesis By Using 3D Fully Convolutional Networks for Multiple Sclerosis. ISMRM-ESMRMB 2018 - Joint Annual Meeting, Jun 2018, Paris, France. pp.1-6. ⟨hal-01723070⟩

Junhao Wen, Jorge Samper-Gonzalez, Simona Bottani, Alexandre Routier, Ninon Burgos, et al.. Comparison of DTI Features for the Classification of Alzheimer's Disease: A Reproducible Study. OHBM 2018 - Organization for Human Brain Mapping Annual Meeting, Jun 2018, Singapour, Singapore. ⟨hal-01758206v3⟩

Vincent J. Henry, Giulia Bassignana, Violetta Zujovic, Fabrizio de Vico Fallani, Olivier Dameron, et al.. Conciliation of medicine systems disease maps and other molecular interaction networks using logical properties of ontology. Data Integration in the Life Sciences 5DILS 2018), Nov 2018, Hannover, Germany. ⟨hal-02301626⟩

Wen Wei, Emilie Poirion, Benedetta Bodini, Stanley Durrleman, Nicholas Ayache, et al.. Learning Myelin Content in Multiple Sclerosis from Multimodal MRI through Adversarial Training. MICCAI 2018 – 21st International Conference On Medical Image Computing & Computer Assisted Intervention, Sep 2018, Granada, Spain. ⟨10.1007/978-3-030-00931-1_59⟩. ⟨hal-01810822⟩

Junhao Wen, Hui Zhang, Daniel Alexander, Stanley Durrleman, Alexandre Routier, et al.. NODDI Highlights Promising New Markers In Presymptomatic C9orf72 Carriers. OHBM 2018 - Organization for Human Brain Mapping Annual Meeting, Jun 2018, Singapour, Singapore. ⟨hal-01758137⟩

Jorge Samper-Gonzalez, Ninon Burgos, Simona Bottani, Marie-Odile Habert, Theodoros Evgeniou, et al.. Three simple ideas for predicting progression to Alzheimer's disease. 8th International Workshop on Pattern Recognition in Neuroimaging, Jun 2018, Singapour, Singapore. ⟨hal-01891996⟩

Alexandre Routier, Marie-Odile Habert, Anne Bertrand, Aurélie Kas, Pierre-Maxime David, et al.. Structural, microstructural and metabolic alterations in Primary Progressive Aphasia variants. Annual meeting of the Organization for Human Brain Mapping - OHBM 2018, Jun 2018, Singapore, Singapore. ⟨hal-01764289⟩

Kuldeep Kumar, Pietro Gori, Benjamin Charlier, Stanley Durrleman, Olivier Colliot, et al.. White Matter Fiber Segmentation Using Functional Varifolds. MFCA 2017 - 6th MICCAI workshop on Mathematical Foundations of Computational Anatomy, Sep 2017, Québec, Canada. pp.92-100. ⟨hal-01589649⟩

Alexandre Morin, Jorge Samper-Gonzales, Anne Bertrand, Enrica Cavedo, Simone Lista, et al.. Accuracy of MRI classification algorithms in a tertiary memory center clinical routine cohort. AAIC 2017 - Alzheimer's Association International Conference, Jul 2017, London, United Kingdom. pp.P772-P774, ⟨10.1016/j.jalz.2017.06.1034⟩. ⟨hal-02192444⟩

Jorge Samper-Gonzalez, Ninon Burgos, Sabrina Fontanella, Hugo Bertin, Marie-Odile Habert, et al.. Yet Another ADNI Machine Learning Paper? Paving The Way Towards Fully-reproducible Research on Classification of Alzheimer's Disease. Machine Learning in Medical Imaging 2017, Sep 2017, Quebec City, Canada. pp.8. ⟨hal-01578479⟩

Igor Koval, Jean-Baptiste Schiratti, Alexandre Routier, Michael Bacci, Olivier Colliot, et al.. Statistical learning of spatiotemporal patterns from longitudinal manifold-valued networks. Medical Image Computing and Computer Assisted Intervention, Sep 2017, Quebec City, Canada. ⟨hal-01540828⟩

Sébastian Ströer, Ludovic Fillon, Stéphane Epelbaum, Marc Teichmann, Agnès Michon, et al.. Étude quantitative des anomalies de signal flair de la substance blanche dans les pathologies neurodégénératives. SFNR 2017 - 44ème Congrès de la Société Française de Neuroradiologie, Mar 2017, Paris, France. pp.1, ⟨10.1016/j.neurad.2017.01.011⟩. ⟨hal-01562645⟩

Ninon Burgos, Jorge Samper-González, Jorge M. Cardoso, Stanley Durrleman, Sébastien Ourselin, et al.. Early Diagnosis of Alzheimer’s Disease Using Subject-Specific Models of FDG-PET Data. AAIC 2017 - Alzheimer's Association International Conference, Jul 2017, London, United Kingdom. pp.1-2, ⟨10.1016/j.jalz.2017.06.1618⟩. ⟨hal-01621383⟩

Ninon Burgos, Jorge Samper-González, Anne Bertrand, Marie-Odile Habert, Sébastien Ourselin, et al.. Individual Analysis of Molecular Brain Imaging Data Through Automatic Identification of Abnormality Patterns. Computational Methods for Molecular Imaging - [MICCAI 2017 Satellite Workshop], Sep 2017, Quebec City, Canada. ⟨hal-01567343⟩

Manon Ansart, Stéphane Epelbaum, Geoffroy Gagliardi, Olivier Colliot, Didier Dormont, et al.. Prediction of amyloidosis from neuropsychological and MRI data for cost effective inclusion of pre-symptomatic subjects in clinical trials. Multimodal Learning for Clinical Decision Support, Sep 2017, Quebec City, Canada. ⟨hal-01578422⟩

Pascal Lu, Olivier Colliot. Multilevel Modeling with Structured Penalties for Classification from Imaging Genetics data. 3rd MICCAI Workshop on Imaging Genetics (MICGen 2017), Sep 2017, Québec City, Canada. pp.230-240. ⟨hal-01578441⟩

Manon Ansart, Stéphane Epelbaum, Olivier Colliot, Didier Dormont, Bruno Dubois, et al.. Selection of amyloid positive pre-symptomatic subjects using automatic analysis of neuropsychological and MRI data for cost effective inclusion procedures in clinical trials. Clinical Trials for Alzheimer's Disease, Nov 2017, Boston, United States. pp.295. ⟨hal-02098434v2⟩

Ninon Burgos, Jorge Samper-González, Anne Bertrand, Marie-Odile Habert, Sébastien Ourselin, et al.. Diagnosis of Alzheimer’s Disease Through Identification of Abnormality Patterns in FDG PET Data. 30th Annual Congress of the European Association of Nuclear Medicine (EANM), Oct 2017, Vienna, Austria. pp.253 - 254, ⟨10.1007/s00259-017-3822-1⟩. ⟨hal-01632509⟩

Kuldeep Kumar, Laurent Chauvin, Mathew Toews, Olivier Colliot, Christian Desrosiers. Multi-modal analysis of genetically-related subjects using SIFT descriptors in brain MRI. Workshop on Computational Diffusion MRI, CDMRI 2017, MICCAI Workshop, Sep 2017, Quebec, Canada. ⟨hal-01589647⟩

Alexandre Bône, Maxime Louis, Alexandre Routier, Jorge Samper, Michael Bacci, et al.. Prediction of the progression of subcortical brain structures in Alzheimer's disease from baseline. 6th MICCAI Workshop on Mathematical Foundations of Computational Anatomy, Sep 2017, Quebec City, Canada. ⟨hal-01563587v2⟩

Anne Bertrand, Stephane Epelbaum, Marie-Odile Habert, Harald Hampel, Hovagim Bakardjian, et al.. The INSIGHT cohort: baseline analysis of structural MR imaging in asymptomatic subjects at risk for Alzheimer's disease. AAIC, Jul 2016, Toronto, Canada. ⟨10.1016/j.jalz.2016.06.612⟩. ⟨hal-01439571⟩

Stephane Epelbaum, Anne Bertrand, Aline Mendes, Marcel Levy, Geoffroy Gagliardi, et al.. Suspected non-alzheimer disease pathophysiology (SNAP) categorization in the insight cohort. AAIC, 2016, Toronto, Canada. pp.P1073 - P1074, ⟨10.1016/j.jalz.2016.06.2246⟩. ⟨hal-01562646⟩

Ludovic Fillon, Olivier Colliot, Dominique Hasboun, Bruno Dubois, Didier Dormont, et al.. Multi-template approaches for segmenting the hippocampus: the case of the SACHA software. Organization for Human Brain Mapping (OHBM), Jun 2015, Honolulu, United States. pp.5. ⟨hal-01188794⟩

Marie Chupin, Johanne Germain, Linda Marrakchi-Kacem, Emilie Gerardin, Claire Boutet, et al.. Segmentation of hippocampal inner structure using 7T in-vivo MRI: a robust anatomical protocol. Annual Meeting of the Organization for Human Brain Mapping, OHBM 2015, 2015, Honolulu, United States. ⟨hal-01188838⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, yulia Worbe, Alexandre Routier, et al.. Unified analysis of shape and structural connectivity of neural pathways. Organisation for Human Brain Mapping, 2015, Honolulu, United States. ⟨hal-01187461⟩

Claire Cury, Joan Glaunés, Roberto Toro, Gunter D Schumann, Vincent Frouin, et al.. Statistical shape analysis of large datasets using diffeomorphic iterative centroids. Human Brain Mapping - 2015, Jun 2015, Honolulu, United States. ⟨hal-01212226⟩

Jean-Baptiste Schiratti, Stéphanie Allassonniere, Alexandre Routier, Olivier Colliot, Stanley Durrleman. A mixed-effects model with time reparametrization for longitudinal univariate manifold-valued data. IPMI - Information Processing in Medical Imaging , Sebastien Ourselin, Daniel C. Alexander, Carl-Fredrik Westin, M. Jorge Cardoso, Jun 2015, Sleat, Isle of Skye, United Kingdom. pp.564-575. ⟨hal-01163213⟩

Jean-Baptiste Schiratti, Stéphanie Allassonnière, Olivier Colliot, Stanley Durrleman. Mixed-effects model for the spatiotemporal analysis of longitudinal manifold-valued data. 5th MICCAI Workshop on Mathematical Foundations of Computational Anatomy, Oct 2015, Munich, Germany. ⟨hal-01245905⟩

Jean-Baptiste Schiratti, Stéphanie Allassonniere, Olivier Colliot, Stanley Durrleman. Learning spatiotemporal trajectories from manifold-valued longitudinal data. Neural Information Processing Systems, Dec 2015, Montréal, Canada. ⟨hal-01163373v3⟩

Linda Marrakchi-Kacem, Alexandre Vignaud, Julien Sein, Johanne Germain, Stéphane Epelbaum, et al.. Imaging of hippocampal inner structure at 7T: robust in-vivo acquisition protocol. Annual Meeting of the Organization for Human Brain Mapping, OHBM 2015, 2015, Honolulu, United States. ⟨hal-01188843⟩

Emilie Gérardin, Joan Alexis Glaunès, Marie Chupin, Ana B. Graciano Fouquier, Kevin Roussel, et al.. Measuring the thickness of the hippocampal pyramidal layer using in vivo 7T MRI. Annual Meeting of the Organization for Human Brain Mapping, OHBM 2015, 2015, Honolulu, United States. ⟨hal-01188833⟩

Claire Cury, Roberto Toro, Fanny Cohen, Amel Mhaya, Dominique Hasboun, et al.. Characterization of Incomplete Hippocampal Inversions in a large dataset of young healthy subjects. Human Brain Mapping - 2015, Jun 2015, Honolulu, United States. ⟨hal-01212219⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, yulia Worbe, Alexandre Routier, et al.. Joint Morphometry of Fiber Tracts and Gray Matter structures using Double Diffeomorphisms. IPMI - Information Processing in Medical Imaging, Jun 2015, Isle of Skye, United Kingdom. pp.275-287, ⟨10.1007/978-3-319-19992-4_21⟩. ⟨hal-01142628⟩

Alexandre Routier, Pietro Gori, Ana B. Graciano Fouquier, Sophie Lecomte, Olivier Colliot, et al.. Evaluation of morphometric descriptors of deep brain structures for the automatic classification of patients with Alzheimer’s disease, mild cognitive impairment and elderly controls. MICCAI Workshop, Sep 2014, Cambridge, United States. pp.8. ⟨hal-01099081⟩

Anne Bertrand, Fatima Ameur, Paola Caroppo, Didier Dormont, Alexis Brice, et al.. Genetic Frontotemporal Dementia with TDP-43 Inclusions:Distinct Radiological Phenotypes between Patients with PGRN and C9ORF72 Mutations. RSNA, Nov 2014, Chicago, United States. ⟨hal-01439623⟩

Anne Bertrand, Fatima Ameur, Paola Caroppo, Didier Dormont, Alexis Brice, et al.. Incidence and characterization of supratentorial FLAIR hyperintenstities in patients with sporadic and genetic frontotemporal dementia. AAIC 2014 - Alzheimer’s Association International Conference, Jul 2014, Copenhagen, Denmark. ⟨hal-01114135⟩

Lorraine Hamelin, Leonardo Cruz de Souza, Fabian Corlier, Hélène Corne, Marie Chupin, et al.. Improved accuracy of the diagnosis of early Alzheimer’s disease using combined measures of hippocampal volume and sulcal morphology. AAN 2014 - Annual Meeting of the American Academy of Neurology, Apr 2014, Philadelphia, United States. ⟨hal-01114138⟩

Paola Caroppo, Marie-Odile Habert, Stanley Durrleman, Hugo Bertin, Alexandre Routier, et al.. Multimodal neuroimaging study in presymptomatic GRN mutations carriers. 9th International Conference on Frontotemporal Dementias (ICFTD), Oct 2014, Vancouver, Canada. ⟨hal-01114134⟩

Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, yulia Worbe, Fabrizio de Vico Fallani, et al.. A Prototype Representation to Approximate White Matter Bundles with Weighted Currents. MICCAI 2014 - 17th International Conference on Medical Image Computing and Computer Assisted Intervention, Sep 2014, Boston, United States. ⟨hal-01010702⟩

Claire Cury, Joan Alexis Glaunès, Marie Chupin, Olivier Colliot. Fast Template-based Shape Analysis using Diffeomorphic Iterative Centroid. MIUA 2014 - Medical Image Understanding and Analysis 2014, Jul 2014, Egham, United Kingdom. pp.39-44. ⟨hal-01050590⟩

Linda Marrakchi-Kacem, Alexandre Vignaud, Johanne Germain, Julien Sein, Thomas R Henry, et al.. Slab registration as a first step towards hippocampus subparts high resolution imaging at 7T. ISMRM 2014 - Annual Meeting of the International Society for Magnetic Resonance in Medicine, May 2014, Milan, Italy. ⟨hal-01114137⟩

Claire Cury, Joan Alexis Glaunès, Olivier Colliot. Template Estimation for Large Database: A Diffeomorphic Iterative Centroid Method Using Currents. GSI 2013 - First International Conference Geometric Science of Information, Aug 2013, Paris, France. pp.103-111, ⟨10.1007/978-3-642-40020-9_10⟩. ⟨hal-00857440⟩

Pietro Gori, Olivier Colliot, yulia Worbe, Linda Marrakchi-Kacem, Sophie Lecomte, et al.. Towards joint morphometry of white matter tracts and gray matter surfaces. Human Brain Mapping, 2013, Seattle, United States. ⟨hal-00816138⟩

Pietro Gori, Olivier Colliot, yulia Worbe, Linda Marrakchi-Kacem, Sophie Lecomte, et al.. Bayesian Atlas Estimation for the Variability Analysis of Shape Complexes. MICCAI 2013 : Medical Image Computing and Computer Assisted Intervention, Sep 2013, Nagoya, Japan. pp.267-274, ⟨10.1007/978-3-642-40811-3_34⟩. ⟨hal-01188791⟩

Ludovic Fillon, Thomas Samaille, Eric Jouvent, Hugues Chabriat, Didier Dormont, et al.. Segmentation of white matter hyperintensities: a comparison of automatic methods on multicentre data. OHBM 2012 - 18th Annual Meeting of the Organization for Human Brain Mapping, Jun 2012, Beijing, China. ⟨hal-00817392⟩

Thomas Samaille, Olivier Colliot, Rémi Cuingnet, Eric Jouvent, Hugues Chabriat, et al.. Automatic segmentation of white matter hyperintensities robust to multicentre acquisition and pathological variability. SPIE 2012 - Symposium on Medical Imaging, Feb 2012, San Diego, United States. pp.1-9, ⟨10.1117/12.910268⟩. ⟨hal-00817381⟩

Claire Cury, Joan Glaunès, Emilie Gerardin, Marie Chupin, Olivier Colliot. Modelling morphological variability of the hippocampus using manifold learning and large deformations. OHBM 2012 - 18th Annual Meeting of the Organization for Human Brain Mapping, Jun 2012, Pekin, China. ⟨hal-00816100⟩

Gilad Liberman, yoram Louzoun, Olivier Colliot, Dafna Ben Bashat. T 1 mapping, AIF and Pharmacokinetic Parameter Extraction from Dynamic Contrast Enhancement MRI Data. MICCAI Workshop on Multimodal Brain Image Analysis MBIA 2011, 2011, Toronto, Canada. pp.76 - 83, ⟨10.1007/978-3-642-24446-9_10⟩. ⟨hal-01439120⟩

Thomas Samaille, Olivier Colliot, Didier Dormont, Marie Chupin. Automatic segmentation of age-related white matter changes on flair images: method and multicentre validation. ISBI 2011 - 8th IEEE International Symposium on Biomedical Imaging: from Nano to Macro, Mar 2011, Chicago, United States. pp.2014 - 2017, ⟨10.1109/ISBI.2011.5872807⟩. ⟨hal-00817386⟩

R. Cuingnet, Joan Alexis Glaunès, Marie Chupin, Habib Benali, Olivier Colliot, et al.. Anatomical Regularization on Statistical Manifolds for the Classification of Patients with Alzheimer's Disease. MICCAI Workshop on Machine Learning in Medical Imaging, Sep 2011, Toronto, Canada. pp.201-208, ⟨10.1007/978-3-642-24319-6_25⟩. ⟨hal-00712091⟩

Thomas Samaille, Olivier Colliot, Didier Dormont, Marie Chupin. Automated segmentation of white matter lesions using FLAIR images.. OHBM 2010 - 16th International Conference on Functional Mapping of the Human Brain, Jun 2010, Barcelona, Spain. ⟨hal-00817395⟩

Rémi Cuingnet, Charlotte Rosso, Stéphane Lehéricy, Didier Dormont, Habib Benali, et al.. Spatially Regularized SVM for the Detection of Brain Areas Associated with Stroke Outcome. Medical Image Computing and Computer-Assisted Intervention, MICCAI 2010, 2010, Beijing, China. pp.316 - 323, ⟨10.1007/978-3-642-15705-9_39⟩. ⟨hal-01439126⟩

Rémi Cuingnet, Marie Chupin, Habib Benali, Olivier Colliot. Spatial and anatomical regularization of SVM for brain image analysis. Neural Information Processing Systems NIPS 2010, 2010, Vancouver, Canada. ⟨hal-01439123⟩

Guillaume Auzias, Joan Alexis Glaunès, Olivier Colliot, Perrot Matthieu, Jean-François Mangin, et al.. DISCO: a coherent diffeomorphic framework for brain registration under exhaustive sulcal constraints. Medical Image Computing and Computer-Assisted Intervention - MICCAI 2009, Sep 2009, United Kingdom. pp.730-738. ⟨hal-00534432⟩

Guillaume Auzias, Joan Alexis Glaunès, Arnaud Cachia, Pascal Cathier, Eric Bardinet, et al.. Multi-Scale Diffeomorphic Cortical Registration Under Manifold Sulcal Constraints. 2008 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, May 2008, France. pp.1127-1130. ⟨hal-00534433⟩

Olivier Colliot, Tommaso Mansi, P. Besson, N. Bernasconi, A. Bernasconi. Improved segmentation of focal cortical dysplasia lesions on MRI using expansion towards cortical boundaries. 3rd IEEE International Symposium on Biomedical Imaging: Nano to Macro (ISBI), 2006, Arlington, VA, USA, United States. pp.323-326. ⟨inria-00615584⟩

Olivier Colliot, Tommaso Mansi, N. Bernasconi, V. Naessens, D. Klironomos, et al.. Segmentation of Focal Cortical Dysplasia Lesions Using a Feature-Based Level Set. Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'05), 2005, Palm Springs (CA), USA, United States. pp.375-382, ⟨10.1007/11566465₄7⟩. ⟨inria-00616015⟩

Olivier Colliot, Tommaso Mansi, N. Bernasconi, V. Naessens, D. Klironomos, et al.. A level set driven by MR features of focal cortical dysplasia for lesion segmentation. Medical Image Understanding and Analysis (MIUA), 2005, no address, United States. pp.239-242. ⟨inria-00616016⟩

Olivier Colliot, Oscar Camara-Rey, Isabelle Bloch. Integration of fuzzy structural information in deformable models. Information Processing and Management of Uncertainty IPMU 2004, 2004, Perugia, Italy. ⟨hal-01930357⟩

Oscar Camara, Olivier Colliot, Gaspar Delso, Isabelle Bloch. 3D nonlinear PET-CT image registration algorithm with constrained Free-Form Deformations. 3rd IASTED International Conference on Visualization, Imaging, and Image Processing (VIIP 2003), 2003, Benalmadena, Spain. ⟨hal-01930355⟩

Olivier Colliot, Isabelle Bloch, Alexander V Tuzikov. Characterization of approximate plane symmetries for 3D fuzzy objects. 9th International Conference on Information Processing and Management of Uncertainty IPMU 2002), Jul 2002, Annecy, France. pp.1749-1756. ⟨hal-01930352⟩

Alexander V Tuzikov, Olivier Colliot, Isabelle Bloch. Brain symmetry plane computation in MR images using inertia axes and optimization. 16th International Conference on Pattern Recognition, Aug 2002, Québec, Canada. ⟨10.1109/ICPR.2002.1044783⟩. ⟨hal-01930349⟩

Elina Thibeau-Sutre, Mauricio Diaz, Ravi Hassanaly, Alexandre M Routier, Didier Dormont, et al.. ClinicaDL: an open-source deep learning software for reproducible neuroimaging processing. 3IA Doctoral Workshop, Nov 2021, Toulouse, France. ⟨hal-03423072v2⟩

Elina Thibeau-Sutre, Olivier Colliot, Didier Dormont, Ninon Burgos. Identification of unlabeled latent subtypes with saliency maps. ICM welcome days, Oct 2020, Paris (online), France. ⟨hal-03365788⟩

Elina Thibeau-Sutre, Olivier Colliot, Didier Dormont, Ninon Burgos. Visualization approach to assess the robustness of neural networks for medical image classification. ICM days 2019, Jan 2020, Louan, France. ⟨hal-03365775⟩

Claire Cury, Marzia A Scelzi, Roberto Toro, Vincent Frouin, Eric Artiges, et al.. On the genetic bases of incomplete hippocampal inversion: a genome-wide association study. OHBM 2019 - Annual Meeting on Organization for Human Brain Mapping, Jun 2019, Rome, Italy. pp.1. ⟨inserm-02074616⟩

Junhao Wen, Elina Thibeau-Sutre, Jorge Samper-Gonzalez, Alexandre M Routier, Simona Bottani, et al.. How serious is data leakage in deep learning studies on Alzheimer’s disease classification?. Organization for Human Brain Mapping (OHBM), Jun 2019, Roma, Italy. ⟨hal-03365742⟩

Pascal Lu, Olivier Colliot. A log-logistic survival model from multimodal data for prediction of Alzheimer's Disease. SAfJR 2019 - Survival Analysis for Junior Researchers, Apr 2019, Copenhague, Denmark. ⟨hal-02430943⟩

Clémentine Fourrier, Igor Koval, Simona Bottani, Olivier Colliot, Stanley M Durrleman. Building disease progression models from longitudinal biomarkers. 5th Annual Human Brain Project Summit, Oct 2017, Glasgow, United Kingdom. ⟨hal-02466386⟩

Jean-Baptiste Schiratti, Stéphanie Allassonniere, Olivier Colliot, Stanley Durrleman. Learning spatio-temporal trajectories from manifold-valued longitudinal data. Neural Information Processing Systems, Dec 2015, Montréal, Canada. Advances in Neural Information Processing Systems. ⟨hal-01245909⟩

Gaël Varoquaux, Olivier Colliot. Evaluating machine learning models and their diagnostic value. Machine Learning for Brain Disorders, In press. ⟨hal-03682454v3⟩

Elina Thibeau-Sutre, Sasha Collin, Ninon Burgos, Olivier Colliot. Interpretability of Machine Learning Methods Applied to Neuroimaging. Olivier Colliot. Machine Learning for Brain Disorders, Springer, In press. ⟨hal-03615163⟩

Olivier Colliot. Biomarqueurs IRM de la maladie d’Alzheimer : apport du traitement des images. Tillement Jean-Paul; Hauw Jean-Jacques; Papadopoulos Vassilios. Vieillissement et démences : un défi médical, scientifique et socio-économique, Lavoisier, pp.25-37, 2014, Rapports de l’Académie Nationale de Médecine. ⟨hal-01098841⟩

Claire Cury, Joan Alexis Glaunès, Olivier Colliot. Diffeomorphic Iterative Centroid Methods for Template Estimation on Large Datasets. Frank Nielsen. Geometric Theory of Information, Chapter 10, Springer, pp.273-299, 2014, ⟨10.1007/978-3-319-05317-2_10⟩. ⟨hal-00939326⟩

Simona Bottani, Ninon Burgos, Aurélien Maire, Dario Saracino, Sebastian Ströer, et al.. Evaluation of MRI-based machine learning approaches for computer-aided diagnosis of dementia in a clinical data warehouse. 2022. ⟨hal-03656136⟩

Baptiste Couvy-Duchesne, Futao Zhang, Kathryn E Kemper, Julia Sidorenko, Naomi R Wray, et al.. A parsimonious model for mass-univariate vertex-wise analysis. 2022. ⟨hal-03118366v2⟩

Simona Bottani, Elina Thibeau-Sutre, Aurelien Maire, Sebastian Stroër, Didier Dormont, et al.. Homogenization of brain MRI from a clinical data warehouse using contrast-enhanced to non-contrast-enhanced image translation. 2021. ⟨hal-03497645⟩

Olivier Colliot. Représentation, évaluation et utilisation de relations spatiales pour l'interprétation d'images. Application à la reconnaissance de structures anatomiques en imagerie médicale. Interface homme-machine [cs.HC]. Télécom ParisTech, 2003. Français. ⟨tel-00005764⟩