Publications

My publications on HAL and Google Scholar

@unpublished{dadi:hal-02929857,
 author = {Dadi, K., Varoquaux, G., Houenou, J., Bzdok, D., Thirion, B. and Engemann, D.},
 doi = {10.1101/2020.08.25.266536},
 hal_id = {hal-02929857},
 hal_version = {v1},
 month = {September},
 note = {working paper or preprint},
 title = {{Beyond brain age: Empirically-derived proxy measures of mental health}},
 url = {https://hal.inria.fr/hal-02929857},
 year = {2020}
}

@article{dadi:hal-02904869,
 author = {Dadi, K., Varoquaux, G., Machlouzarides-Shalit, A., Gorgolewski, K., Wassermann, D., Thirion, B. and Mensch, A.},
 hal_id = {hal-02904869},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {Brain imaging atlases ; Functional networks ; Functional parcellations ; Multi-resolution},
 month = {July},
 number = {221},
 pages = {117126},
 pdf = {https://hal.inria.fr/hal-02904869/file/revised3.pdf},
 publisher = {{Elsevier}},
 title = {{Fine-grain atlases of functional modes for fMRI analysis}},
 url = {https://hal.inria.fr/hal-02904869},
 year = {2020}
}

@inproceedings{nguyen:hal-02888693,
 address = {Vienne, Austria},
 author = {Nguyen, T., Chevalier, J., Thirion, B. and Arlot, S.},
 booktitle = {{37th International Conference on Machine Learning, PMLR 119, 2020}},
 hal_id = {hal-02888693},
 hal_version = {v1},
 month = {July},
 pdf = {https://hal.archives-ouvertes.fr/hal-02888693/file/ako.pdf},
 title = {{Aggregation of Multiple Knockoffs}},
 url = {https://hal.archives-ouvertes.fr/hal-02888693},
 year = {2020}
}

@article{botviniknezer:inserm-02914443,
 author = {Botvinik-Nezer, R., Holzmeister, F., Camerer, C., Dreber, A., Huber, J., Johannesson, M., Kirchler, M., Iwanir, R., Mumford, J., Adcock, R., Avesani, P., Baczkowski, B., Bajracharya, A., Bakst, L., Ball, S., Barilari, M., Bault, N., Beaton, D., Beitner, J., Benoit, R., Berkers, R., Bhanji, J., Biswal, B., Bobadilla-Suarez, S., Bortolini, T., Bottenhorn, K., Bowring, A., Braem, S., Brooks, H., Brudner, E., Calderon, C., Camilleri, J., Castrellon, J., Cecchetti, L., Cieslik, E., Cole, Z., Collignon, O., Cox, R., Cunningham, W., Czoschke, S., Dadi, K., Davis, C., Luca, A., Delgado, M., Demetriou, L., Dennison, J., Di, X., Dickie, E., Dobryakova, E., Donnat, C., Dukart, J., Duncan, N., Durnez, J., Eed, A., Eickhoff, S., Erhart, A., Fontanesi, L., Fricke, G., Fu, S., Galv{\'a}n, A., Gau, R., Genon, S., Glatard, T., Glerean, E., Goeman, J., Golowin, S., Gonz{\'a}lez-Garc{\'i}a, C., Gorgolewski, K., Grady, C., Green, M., Guassi Moreira, J., Guest, O., Hakimi, S., Hamilton, J., Hancock, R., Handjaras, G., Harry, B., Hawco, C., Herholz, P., Herman, G., Heunis, S., Hoffstaedter, F., Hogeveen, J., Holmes, S., Hu, C., Huettel, S., Hughes, M., Iacovella, V., Iordan, A., Isager, P., Isik, A., Jahn, A., Johnson, M., Johnstone, T., Joseph, M., Juliano, A., Kable, J., Kassinopoulos, M., Koba, C., Kong, X., Koscik, T., Kucukboyaci, N., Kuhl, B., Kupek, S., Laird, A., Lamm, C., Langner, R., Lauharatanahirun, N., Lee, H., Lee, S., Leemans, A., Leo, A., Lesage, E., Li, F., Li, M., Lim, P., Lintz, E., Liphardt, S., Losecaat Vermeer, A., Love, B., Mack, M., Malpica, N., Marins, T., Maumet, C., McDonald, K., McGuire, J., Melero, H., M{\'e}ndez Leal, A., Meyer, B., Meyer, K., Mihai, G., Mitsis, G., Moll, J., Nielson, D., Nilsonne, G., Notter, M., Olivetti, E., Onicas, A., Papale, P., Patil, K., Peelle, J., P{\'e}rez, A., Pischedda, D., Poline, J., Prystauka, Y., Ray, S., Reuter-Lorenz, P., Reynolds, R., Ricciardi, E., Rieck, J., Rodriguez-Thompson, A., Romyn, A., Salo, T., Samanez-Larkin, G., Sanz-Morales, E., Schlichting, M., Schultz, D., Shen, Q., Sheridan, M., Silvers, J., Skagerlund, K., Smith, A., Smith, D., Sokol-Hessner, P., Steinkamp, S., Tashjian, S., Thirion, B., Thorp, J., Tingh{\"o}g, G., Tisdall, L., Tompson, S., Toro-Serey, C., Torre Tresols, J., Tozzi, L., Truong, V., Turella, L., van ‘t Veer, A., Verguts, T., Vettel, J., Vijayarajah, S., Vo, K., Wall, M., Weeda, W., Weis, S., White, D., Wisniewski, D., Xifra-Porxas, A., Yearling, E., Yoon, S., Yuan, R., Yuen, K., Zhang, L., Zhang, X., Zosky, J., Nichols, T., Poldrack, R. and Schonberg, T.},
 doi = {10.1038/s41586-020-2314-9},
 hal_id = {inserm-02914443},
 hal_version = {v1},
 journal = {{Nature}},
 month = {June},
 number = {7810},
 pages = {84-88},
 title = {{Variability in the analysis of a single neuroimaging dataset by many teams}},
 url = {https://www.hal.inserm.fr/inserm-02914443},
 volume = {582},
 year = {2020}
}

@article{dockes:hal-02485642,
 author = {Dock{\`e}s, J., Poldrack, R., Primet, R., G{\"o}z{\"u}kan, H., Yarkoni, T., Suchanek, F., Thirion, B. and Varoquaux, G.},
 hal_id = {hal-02485642},
 hal_version = {v2},
 journal = {{eLife}},
 month = {March},
 pdf = {https://hal.archives-ouvertes.fr/hal-02485642/file/main.pdf},
 publisher = {{eLife Sciences Publication}},
 title = {{NeuroQuery, comprehensive meta-analysis of human brain mapping}},
 url = {https://hal.archives-ouvertes.fr/hal-02485642},
 year = {2020}
}

@unpublished{dadi:hal-02496156,
 author = {Dadi, K., Varoquaux, G., Machlouzarides-Shalit, A., Gorgolewski, K., Wassermann, D., Thirion, B. and Mensch, A.},
 hal_id = {hal-02496156},
 hal_version = {v1},
 keywords = {Functional parcellations ; Brain imaging atlases ; Multi-resolution ; Functional networks},
 month = {March},
 note = {working paper or preprint},
 pdf = {https://hal.archives-ouvertes.fr/hal-02496156/file/paper.pdf},
 title = {{Fine-grain atlases of functional modes for fMRI analysis}},
 url = {https://hal.archives-ouvertes.fr/hal-02496156},
 year = {2020}
}

@article{huchuanxia:hal-02523974,
 author = {Huchuan Xia, C., Ma, Z., Cui, Z., Bzdok, D., Thirion, B., Bassett, D., Satterthwaite, T., Shinohara, R. and Witten, D.},
 doi = {10.1002/hbm.24982},
 hal_id = {hal-02523974},
 hal_version = {v1},
 journal = {{Human Brain Mapping}},
 keywords = {Network neuroscience ; Functional connectivity ; Multivariate analysis},
 pdf = {https://hal.archives-ouvertes.fr/hal-02523974/file/Cedric_Witten_2020_HBM_multiscale.pdf},
 publisher = {{Wiley}},
 title = {{Multi-Scale Network Regression for Brain-Phenotype Associations}},
 url = {https://hal.archives-ouvertes.fr/hal-02523974},
 year = {2020}
}

@inproceedings{aydore:hal-02318458,
 address = {Vancouver, Canada},
 author = {Ayd{\"o}re, S., Thirion, B. and Varoquaux, G.},
 booktitle = {{NeurIPS 2019 - 33th Annual Conference on Neural Information Processing Systems}},
 hal_id = {hal-02318458},
 hal_version = {v1},
 month = {December},
 pdf = {https://hal.inria.fr/hal-02318458/file/1807.11718.pdf},
 title = {{Feature Grouping as a Stochastic Regularizer for High-Dimensional Structured Data}},
 url = {https://hal.inria.fr/hal-02318458},
 year = {2019}
}

@unpublished{janati:hal-02304194,
 author = {Janati, H., Bazeille, T., Thirion, B., Cuturi, M. and Gramfort, A.},
 hal_id = {hal-02304194},
 hal_version = {v2},
 keywords = {Brain ; Inverse modeling ; EEG / MEG source imaging},
 month = {October},
 note = {working paper or preprint},
 pdf = {https://hal.inria.fr/hal-02304194/file/main.pdf},
 title = {{Multi-subject MEG/EEG source imaging with sparse multi-task regression}},
 url = {https://hal.inria.fr/hal-02304194},
 year = {2019}
}

@article{karrer:hal-02180311,
 author = {Karrer, T., Bassett, D., Derntl, B., Gruber, O., Aleman, A., Jardri, R., Laird, A., Fox, P., Eickhoff, S., Grisel, O., Varoquaux, G., Thirion, B. and Bzdok, D.},
 doi = {10.1002/hbm.24716},
 hal_id = {hal-02180311},
 hal_version = {v1},
 journal = {{Human Brain Mapping}},
 month = {July},
 pdf = {https://hal.archives-ouvertes.fr/hal-02180311/file/scz_ranking_HBM_r_v4_clean.pdf},
 publisher = {{Wiley}},
 title = {{Brain-based ranking of cognitive domains to predict schizophrenia}},
 url = {https://hal.archives-ouvertes.fr/hal-02180311},
 year = {2019}
}

@article{tomitricot:cea-02141266,
 author = {Tomi-Tricot, R., Gras, V., Thirion, B., Mauconduit, F., Boulant, N., Cherkaoui, H., Zerbib, P., Vignaud, A., Luciani, A. and Amadon, A.},
 doi = {10.1002/mrm.27870},
 hal_id = {cea-02141266},
 hal_version = {v1},
 journal = {{Magnetic Resonance in Medicine}},
 month = {June},
 pages = {2016--2031},
 pdf = {https://hal-cea.archives-ouvertes.fr/cea-02141266/file/Liver_GRE_ML_v5_HAL.pdf},
 publisher = {{Wiley}},
 series = {Magn Reson Med.},
 title = {{SmartPulse, a Machine Learning Approach for Calibration-Free Dynamic RF Shimming: Preliminary Study in a Clinical Environment}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-02141266},
 volume = {82},
 year = {2019}
}

@inproceedings{nguyen:hal-02076510,
 address = {Hong Kong, Hong Kong SAR China},
 author = {Nguyen, T., Chevalier, J. and Thirion, B.},
 booktitle = {{IPMI 2019 - International Conference on Information Processing in Medical Imaging}},
 hal_id = {hal-02076510},
 hal_version = {v1},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-02076510/file/ipmi_2019.pdf},
 title = {{ECKO: Ensemble of Clustered Knockoffs for robust multivariate inference on MRI data}},
 url = {https://hal.archives-ouvertes.fr/hal-02076510},
 year = {2019}
}

@inproceedings{bazeille:hal-02278663,
 address = {Hong Kong, China},
 author = {BAZEILLE, T., Richard, H., Janati, H. and Thirion, B.},
 booktitle = {{IPMI 2019 - 26th International Conference on Information Processing in Medical Imaging}},
 doi = {10.1007/978-3-030-20351-1\_18},
 hal_id = {hal-02278663},
 hal_version = {v1},
 keywords = {Brain ; Atlas Inference ; FMRI ; Functionnal Alignment},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-02278663/file/Local_optimal_transport_for_functional_brain_template_estimation.pdf},
 title = {{Local Optimal Transport for Functional Brain Template Estimation}},
 url = {https://hal.archives-ouvertes.fr/hal-02278663},
 year = {2019}
}

@inproceedings{janati:hal-02013889,
 address = {Hong Kong, Hong Kong SAR China},
 author = {Janati, H., Bazeille, T., Thirion, B., Cuturi, M. and Gramfort, A.},
 booktitle = {{IPMI 2019 - 26th international conference on Information Processing in Medical Imaging}},
 editor = {Springer},
 hal_id = {hal-02013889},
 hal_version = {v4},
 keywords = {Inverse modeling ; Brain ; EEG / MEG source imagin},
 month = {June},
 pdf = {https://hal.inria.fr/hal-02013889/file/main.pdf},
 title = {{Group level MEG/EEG source imaging via optimal transport: minimum Wasserstein estimates}},
 url = {https://hal.inria.fr/hal-02013889},
 volume = {Lecture Notes in Computer Science},
 year = {2019}
}

@article{dadi:hal-01824205,
 author = {Dadi, K., Rahim, M., Abraham, A., Chyzhyk, D., Milham, M., Thirion, B. and Varoquaux, G.},
 doi = {10.1016/j.neuroimage.2019.02.062},
 hal_id = {hal-01824205},
 hal_version = {v3},
 journal = {{NeuroImage}},
 keywords = {Resting-state fMRI ; Predictive modeling ; Functional connectomes ; Population study ; Classification},
 month = {May},
 number = {192},
 pages = {115-134},
 pdf = {https://hal.inria.fr/hal-01824205/file/revised2%20%281%29.pdf},
 publisher = {{Elsevier}},
 title = {{Benchmarking functional connectome-based predictive models for resting-state fMRI}},
 url = {https://hal.inria.fr/hal-01824205},
 year = {2019}
}

@article{rahim:hal-02068389,
 author = {Rahim, M., Thirion, B. and Varoquaux, G.},
 doi = {10.1016/j.media.2019.03.001},
 hal_id = {hal-02068389},
 hal_version = {v1},
 journal = {{Medical Image Analysis}},
 keywords = {Covariance ; population models ; shrinkage ; functional connectivity},
 month = {March},
 pdf = {https://hal.inria.fr/hal-02068389/file/MEDIA_PoSCe_2019.pdf},
 publisher = {{Elsevier}},
 title = {{Population shrinkage of covariance (PoSCE) for better individual brain functional-connectivity estimation}},
 url = {https://hal.inria.fr/hal-02068389},
 year = {2019}
}

@article{lebenberg:hal-01966812,
 author = {Lebenberg, J., Mangin, J., Thirion, B., Poupon, C., Hertz-Pannier, L., Leroy, F., Adibpour, P., Dehaene-Lambertz, G. and Dubois, J.},
 doi = {10.1016/j.neuroimage.2018.07.022},
 hal_id = {hal-01966812},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {diffusion  tensor  imaging DTI ; cortical maturation ; Magnetic  resonance  imaging  MRI ; quantitative  T1  and  T2  mapping ; infancy ; clustering ; Human Brain Project (HBP)},
 month = {January},
 pages = {641-653},
 pdf = {https://hal.archives-ouvertes.fr/hal-01966812/file/LebenbergDubois_neuroimage19_vf.pdf},
 publisher = {{Elsevier}},
 title = {{Mapping the asynchrony of cortical maturation in the infant brain: a MRI multi-parametric clustering approach}},
 url = {https://hal.archives-ouvertes.fr/hal-01966812},
 volume = {185},
 year = {2019}
}

@article{varoquaux:inserm-02146700,
 author = {Varoquaux, G., Schwartz, Y., Poldrack, R., Gauthier, B., Bzdok, D., Poline, J. and Thirion, B.},
 doi = {10.1371/journal.pcbi.1006565},
 hal_id = {inserm-02146700},
 hal_version = {v1},
 journal = {{PLoS Computational Biology}},
 month = {November},
 number = {11},
 pages = {e1006565},
 pdf = {https://www.hal.inserm.fr/inserm-02146700/file/journal.pcbi.1006565.pdf},
 publisher = {{Public Library of Science}},
 title = {{Atlases of cognition with large-scale human brain mapping}},
 url = {https://www.hal.inserm.fr/inserm-02146700},
 volume = {14},
 year = {2018}
}

@unpublished{manoel:cea-01932983,
 author = {Manoel, A., Krzakala, F., Thirion, B., Varoquaux, G. and Zdeborov{\'a}, L.},
 hal_id = {cea-01932983},
 hal_local_reference = {t18/141},
 hal_version = {v1},
 month = {November},
 note = {working paper or preprint},
 pdf = {https://hal-cea.archives-ouvertes.fr/cea-01932983/file/approximate_message_passing.pdf},
 title = {{Approximate message-passing for convex optimization with non-separable penalties}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-01932983},
 year = {2018}
}

@article{kernbach:hal-01926796,
 author = {Kernbach, J., Yeo, B., Smallwood, J., Margulies, D., Thiebaut de Schotten, M., Walter, H., Sabuncu, M., Holmes, A., Gramfort, A., Varoquaux, G., Thirion, B. and Bzdok, D.},
 doi = {10.1073/pnas.1804876115},
 hal_id = {hal-01926796},
 hal_version = {v1},
 journal = {{Proceedings of the National Academy of Sciences of the United States of America }},
 keywords = {machine learning ; systems neuroscience ; high-level cognition},
 month = {November},
 pdf = {https://hal.archives-ouvertes.fr/hal-01926796/file/dmn_pop_paper_PNAS_R2.pdf},
 publisher = {{National Academy of Sciences}},
 title = {{Subspecialization within default mode nodes characterized in 10,000 UK Biobank participants}},
 url = {https://hal.archives-ouvertes.fr/hal-01926796},
 year = {2018}
}

@unpublished{mensch:hal-01874713,
 author = {Mensch, A., Mairal, J., Thirion, B. and Varoquaux, G.},
 hal_id = {hal-01874713},
 hal_version = {v2},
 month = {October},
 note = {working paper or preprint},
 pdf = {https://hal.archives-ouvertes.fr/hal-01874713/file/article.pdf},
 title = {{Extracting Universal Representations of Cognition across Brain-Imaging Studies}},
 url = {https://hal.archives-ouvertes.fr/hal-01874713},
 year = {2018}
}

@inproceedings{dockes:hal-01807295,
 address = {Granada, Spain},
 author = {Dock{\`e}s, J., Wassermann, D., Poldrack, R., Suchanek, F., Thirion, B. and Varoquaux, G.},
 booktitle = {{MICCAI 2018 - 21st International Conference on Medical Image Computing and Computer Assisted Intervention}},
 hal_id = {hal-01807295},
 hal_version = {v3},
 month = {September},
 pages = {1-18},
 pdf = {https://hal.archives-ouvertes.fr/hal-01807295/file/main.pdf},
 title = {{Text to brain: predicting the spatial distribution of neuroimaging observations from text reports}},
 url = {https://hal.archives-ouvertes.fr/hal-01807295},
 year = {2018}
}

@inproceedings{richard:hal-01868735,
 address = {Philadelphia, United States},
 author = {Richard, H., Pinho, A., Thirion, B. and Charpiat, G.},
 booktitle = {{CCN 2018 - Conference on Cognitive Computational Neuroscience}},
 hal_id = {hal-01868735},
 hal_version = {v1},
 keywords = {deep learning ; video encoding ; brain mapping},
 month = {September},
 pdf = {https://hal.archives-ouvertes.fr/hal-01868735/file/main.pdf},
 title = {{Optimizing deep video representation to match brain activity}},
 url = {https://hal.archives-ouvertes.fr/hal-01868735},
 year = {2018}
}

@article{kernbach:hal-01790245,
 author = {Kernbach, J., Satterthwaite, T., Bassett, D., Smallwood, J., Margulies, D., Krall, S., Shaw, P., Varoquaux, G., Thirion, B., Konrad, K. and Bzdok, D.},
 hal_id = {hal-01790245},
 hal_version = {v1},
 journal = {{Translational Psychiatry}},
 month = {July},
 pdf = {https://hal.archives-ouvertes.fr/hal-01790245/file/pheno_paper_TP_R1.pdf},
 publisher = {{ Nature Pub. Group}},
 title = {{Shared Endo-phenotypes of Default Mode Dysfunction in Attention Deficit/Hyperactivity Disorder and Autism Spectrum Disorder}},
 url = {https://hal.archives-ouvertes.fr/hal-01790245},
 year = {2018}
}

@inproceedings{maumet:inserm-01828914,
 address = {Singapore, Singapore},
 author = {Maumet, C., Flandin, G., Perez-Guevara, M., Poline, J., Rajendra, J., Reynolds, R., Thirion, B. and Nichols, T.},
 booktitle = {{OHBM 2018 - Annual meeting of the Organization of Human Brain Mapping}},
 hal_id = {inserm-01828914},
 hal_version = {v1},
 month = {June},
 pages = {1-4},
 pdf = {https://www.hal.inserm.fr/inserm-01828914/file/MAUMET_OHBM2018_nonparametricNIDMResults.pdf},
 title = {{A standardised representation for non-parametric fMRI results}},
 url = {https://www.hal.inserm.fr/inserm-01828914},
 year = {2018}
}

@inproceedings{chyzhyk:hal-01831701,
 address = {Singapore, Singapore},
 author = {Chyzhyk, D., Varoquaux, G., Thirion, B. and Milham, M.},
 booktitle = {{PRNI 2018 - 8th International Workshop on Pattern Recognition in Neuroimaging}},
 hal_id = {hal-01831701},
 hal_version = {v1},
 keywords = {confound ; statistical testing ; subsampling ; phenotype ; predictive models ; biomarkers},
 month = {June},
 pages = {1-4},
 pdf = {https://hal.archives-ouvertes.fr/hal-01831701/file/Chyzhyk-PRNI-2018-hal.pdf},
 title = {{Controlling a confound in predictive models with a test set minimizing its effect}},
 url = {https://hal.archives-ouvertes.fr/hal-01831701},
 year = {2018}
}

@article{pinho:hal-01817528,
 author = {Pinho, A., Amadon, A., Ruest, T., Fabre, M., Dohmatob, E., Denghien, I., Ginisty, C., Becuwe-Desmidt, S., Roger, S., Laurier, L., Joly-Testault, V., M{\'e}diouni-Cloarec, G., Doubl{\'e}, C., Martins, B., Pinel, P., Eger, E., Varoquaux, G., Pallier, C., Dehaene, S., Hertz-Pannier, L. and Thirion, B.},
 doi = {10.1038/sdata.2018.105},
 hal_id = {hal-01817528},
 hal_version = {v1},
 journal = {{Scientific Data }},
 month = {June},
 pages = {180105},
 pdf = {https://hal.archives-ouvertes.fr/hal-01817528/file/data_paper.pdf},
 publisher = {{Nature Publishing Group}},
 title = {{Individual Brain Charting, a high-resolution fMRI dataset for cognitive mapping}},
 url = {https://hal.archives-ouvertes.fr/hal-01817528},
 volume = {5},
 year = {2018}
}

@unpublished{bzdok:hal-01848319,
 author = {Bzdok, D., Engemann, D., Grisel, O., Varoquaux, G. and Thirion, B.},
 doi = {10.1101/327437},
 hal_id = {hal-01848319},
 hal_version = {v1},
 month = {April},
 note = {working paper or preprint},
 pdf = {https://hal.archives-ouvertes.fr/hal-01848319/file/327437.full.pdf},
 title = {{Prediction and inference diverge in biomedicine: Simulations and real-world data}},
 url = {https://hal.archives-ouvertes.fr/hal-01848319},
 year = {2018}
}

@article{dohmatob:hal-01701619,
 author = {Dohmatob, E., Varoquaux, G. and Thirion, B.},
 hal_id = {hal-01701619},
 hal_version = {v1},
 journal = {{Frontiers in Neuroscience}},
 keywords = {human brain-mapping ; high-resolution EPI ; inter-subject registration ; functional MRI ; B0 inhomogeneity ; distortions},
 month = {March},
 pdf = {https://hal.archives-ouvertes.fr/hal-01701619/file/frontiers.pdf},
 publisher = {{Frontiers}},
 title = {{Inter-subject registration of functional images: do we need anatomical images ?}},
 url = {https://hal.archives-ouvertes.fr/hal-01701619},
 year = {2018}
}

@inproceedings{chevalier:hal-01815255,
 address = {Grenade, Spain},
 author = {Chevalier, J., Salmon, J. and Thirion, B.},
 booktitle = {{MICCAI}},
 hal_id = {hal-01815255},
 hal_version = {v1},
 pdf = {https://hal.archives-ouvertes.fr/hal-01815255/file/miccai_2018.pdf},
 title = {{Statistical Inference with Ensemble of Clustered Desparsified Lasso}},
 url = {https://hal.archives-ouvertes.fr/hal-01815255},
 year = {2018}
}

@article{mensch:hal-01431618,
 author = {Mensch, A., Mairal, J., Thirion, B. and Varoquaux, G.},
 doi = {10.1109/TSP.2017.2752697},
 hal_id = {hal-01431618},
 hal_version = {v3},
 journal = {{IEEE Transactions on Signal Processing}},
 keywords = {Matrix factorization ;  randomized methods ;  functional MRI ;  majorization minimization ;  stochastic optimization ;  hyperspectral imaging ;  non-negative ;  dictionary learning ;  NMF},
 month = {January},
 number = {1},
 pages = {113-128},
 pdf = {https://hal.archives-ouvertes.fr/hal-01431618/file/modl_tsp.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 title = {{Stochastic Subsampling for Factorizing Huge Matrices}},
 url = {https://hal.archives-ouvertes.fr/hal-01431618},
 volume = {66},
 year = {2018}
}

@article{lefortbesnard:hal-01888918,
 author = {Lefort-Besnard, J., Varoquaux, G., Derntl, B., Gruber, O., Aleman, A., Jardri, R., Sommer, I., Thirion, B. and Bzdok, D.},
 doi = {10.1038/s41398-018-0294-4},
 hal_id = {hal-01888918},
 hal_version = {v1},
 journal = {{Translational Psychiatry}},
 pdf = {https://hal.archives-ouvertes.fr/hal-01888918/file/PANSS_AcceptedVersion_TP.pdf},
 publisher = {{ Nature Pub. Group}},
 title = {{Patterns of Schizophrenia Symptoms: Hidden Structure in the PANSS Questionnaire}},
 url = {https://hal.archives-ouvertes.fr/hal-01888918},
 year = {2018}
}

@article{lefortbesnard:hal-01620441,
 author = {Lefort-Besnard, J., Bassett, D., Smallwood, J., Margulies, D., Derntl, B., Gruber, O., Aleman, A., Jardri, R., Varoquaux, G., Thirion, B., Eickhoff, S. and Bzdok, D.},
 hal_id = {hal-01620441},
 hal_version = {v1},
 journal = {{Human Brain Mapping}},
 keywords = {Schizophrenia ; Machine learning ;  Default mode network ;  Neuroimaging ;  Structural ; covariance ;  Functional connectivity ;  Sparse inverse covariance estimation},
 month = {January},
 pages = {1-52},
 pdf = {https://hal.archives-ouvertes.fr/hal-01620441/file/Shades_HBM_accepted_version.pdf},
 publisher = {{Wiley}},
 title = {{Different shades of default mode disturbance in schizophrenia: Subnodal covariance estimation in structure and function}},
 url = {https://hal.archives-ouvertes.fr/hal-01620441},
 year = {2018}
}

@article{varoquaux:hal-01908189,
 author = {Varoquaux, G., Schwartz, Y., Poldrack, R., Gauthier, B., Bzdok, D., Poline, J. and Thirion, B.},
 hal_id = {hal-01908189},
 hal_version = {v1},
 journal = {{PLoS Computational Biology}},
 pdf = {https://hal.inria.fr/hal-01908189/file/plos_paper.pdf},
 publisher = {{Public Library of Science}},
 title = {{Atlases of cognition with large-scale brain mapping}},
 url = {https://hal.inria.fr/hal-01908189},
 year = {2018}
}

@inproceedings{mensch:hal-01626823,
 address = {Long Beach, United States},
 author = {Mensch, A., Mairal, J., Bzdok, D., Thirion, B. and Varoquaux, G.},
 booktitle = {{Neural Information Processing Systems}},
 hal_id = {hal-01626823},
 hal_version = {v3},
 month = {December},
 pdf = {https://hal.archives-ouvertes.fr/hal-01626823/file/nips.pdf},
 title = {{Learning Neural Representations of Human Cognition across Many fMRI Studies}},
 url = {https://hal.archives-ouvertes.fr/hal-01626823},
 year = {2017}
}

@inproceedings{schulz:hal-01633096,
 address = {Long Beach, United States},
 author = {Schulz, M., Varoquaux, G., Gramfort, A., Thirion, B. and Bzdok, D.},
 booktitle = {{Neural Information Processing Systems, Machine Learning in Health Workshop}},
 hal_id = {hal-01633096},
 hal_version = {v1},
 month = {December},
 title = {{Label scarcity in biomedicine: Data-rich latent factor discovery enhances phenotype prediction}},
 url = {https://hal.archives-ouvertes.fr/hal-01633096},
 year = {2017}
}

@inproceedings{rahim:hal-01547612,
 address = {Quebec city, Canada},
 author = {Rahim, M., Thirion, B. and Varoquaux, G.},
 booktitle = {{Medical Image Computing and Computer Assisted Interventions}},
 hal_id = {hal-01547612},
 hal_version = {v1},
 month = {September},
 pdf = {https://hal.inria.fr/hal-01547612/file/paper791.pdf},
 title = {{Population-shrinkage of covariance to estimate better brain functional connectivity}},
 url = {https://hal.inria.fr/hal-01547612},
 year = {2017}
}

@misc{dockes:hal-01699045,
 author = {Dock{\`e}s, J., Grisel, O., Massich, J., Suchanek, F., Thirion, B. and Varoquaux, G.},
 doi = {10.1016/j.tics.2005.12.004},
 hal_id = {hal-01699045},
 hal_version = {v1},
 howpublished = {{CCN 2017 - Conference on Cognitive Computational Neuroscience}},
 keywords = {brain mapping ; text mining ; cognition},
 month = {September},
 note = {Poster},
 number = {2},
 pages = {59 - 63},
 pdf = {https://hal-imt.archives-ouvertes.fr/hal-01699045/file/ccn-2017.pdf},
 title = {{Relating Brain Structures To Open-Ended Descriptions Of Cognition}},
 url = {https://hal-imt.archives-ouvertes.fr/hal-01699045},
 volume = {10},
 year = {2017}
}

@article{loula:hal-01576641,
 author = {Loula, J., Varoquaux, G. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2017.08.018},
 hal_id = {hal-01576641},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = { Rapid event-related design ;  Decoding  ;  Classification analysis ;  MVPA  ; Functional magnetic resonance imaging},
 month = {August},
 pdf = {https://hal.inria.fr/hal-01576641/file/main.pdf},
 publisher = {{Elsevier}},
 title = {{Decoding fMRI activity in the time domain improves classification performance}},
 url = {https://hal.inria.fr/hal-01576641},
 year = {2017}
}

@inproceedings{bzdok:hal-01480885,
 address = {Boone, North Carolina, United States},
 author = {Bzdok, D., Eickenberg, M., Varoquaux, G. and Thirion, B.},
 booktitle = {{International conference on Information Processing in Medical Imaging (IPMI) 2017}},
 hal_id = {hal-01480885},
 hal_version = {v1},
 keywords = { parietal ; structured sparsity ;  neuroimaging ;  curse of dimensionality ;  machine learning},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-01480885/file/IPMI_2017_bzdok_camera.pdf},
 title = {{Hierarchical Region-Network Sparsity for High-Dimensional Inference in Brain Imaging}},
 url = {https://hal.archives-ouvertes.fr/hal-01480885},
 year = {2017}
}

@article{rahim:hal-01547524,
 author = {Rahim, M., Thirion, B., Bzdok, D., Buvat, I. and Varoquaux, G.},
 doi = {10.1016/j.neuroimage.2017.06.072},
 hal_id = {hal-01547524},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {June},
 pdf = {https://hal.inria.fr/hal-01547524/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{Joint prediction of multiple scores captures better individual traits from brain images}},
 url = {https://hal.inria.fr/hal-01547524},
 year = {2017}
}

@inproceedings{hoyosidrobo:hal-01552237,
 address = {Toronto, Canada},
 author = {Hoyos-Idrobo, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{PRNI 2017 - 7th International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-01552237},
 hal_version = {v1},
 keywords = {parcellation ; reproducibility ; multiple comparisons ; Group analysis},
 month = {June},
 pdf = {https://hal.inria.fr/hal-01552237/file/paper.pdf},
 title = {{Towards a Faster Randomized Parcellation Based Inference}},
 url = {https://hal.inria.fr/hal-01552237},
 year = {2017}
}

@inproceedings{rahim:hal-01547572,
 address = {Toronto, Canada},
 author = {Rahim, M., Thirion, B. and Varoquaux, G.},
 booktitle = {{PRNI 2017 - The 7th International Workshop on Pattern Recognition in Neuroimaging}},
 doi = {10.1109/PRNI.2017.7981504},
 hal_id = {hal-01547572},
 hal_version = {v2},
 month = {June},
 pages = {1 - 4},
 pdf = {https://hal.inria.fr/hal-01547572/file/paper.pdf},
 title = {{Multi-output predictions from neuroimaging: assessing reduced-rank linear models}},
 url = {https://hal.inria.fr/hal-01547572},
 year = {2017}
}

@article{ng:hal-01614971,
 author = {Ng, B., Varoquaux, G., Baptiste Poline, J., Thirion, B., Greicius, M. and Poston, K.},
 hal_id = {hal-01614971},
 hal_version = {v1},
 journal = {{Neuroimage-Clinical}},
 keywords = {Parkinson's disease ; classification ; functional magnetic resonance imaging ; dopamine ; Riemannian geometry},
 pdf = {https://hal.archives-ouvertes.fr/hal-01614971/file/main.pdf},
 publisher = {{ Elsevier}},
 title = {{Distinct alterations in Parkinson's Medication-state and Disease-state Connectivity Running Title: PD altered connectivity}},
 url = {https://hal.archives-ouvertes.fr/hal-01614971},
 year = {2017}
}

@article{hoyosidrobo:hal-01615015,
 author = {Hoyos-Idrobo, A., Varoquaux, G., Schwartz, Y. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2017.10.005},
 hal_id = {hal-01615015},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {MVPA ; bagging ; fMRI ; supervised learning ; decoding},
 pages = {1-16},
 pdf = {https://hal.archives-ouvertes.fr/hal-01615015/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{FReM -- scalable and stable decoding with fast regularized ensemble of models}},
 url = {https://hal.archives-ouvertes.fr/hal-01615015},
 year = {2017}
}

@inproceedings{mensch:hal-01405058,
 address = {Barcelone, Spain},
 author = {Mensch, A., Mairal, J., Varoquaux, G. and Thirion, B.},
 booktitle = {{NIPS Workshop on Optimization for Machine Learning}},
 hal_id = {hal-01405058},
 hal_version = {v1},
 keywords = {Matrix factorization ; Dictionary learning ; Sparsity ; Randomized methods ; Stochastic optimization ; Majorization-minimization},
 month = {December},
 pdf = {https://hal.archives-ouvertes.fr/hal-01405058/file/modl_opt.pdf},
 title = {{Subsampled online matrix factorization with convergence guarantees}},
 url = {https://hal.archives-ouvertes.fr/hal-01405058},
 year = {2016}
}

@inproceedings{dohmatob:hal-01369134,
 address = {Barcelona, Spain},
 author = {Dohmatob, E., Mensch, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{Neural Information Processing Systems (NIPS)}},
 hal_id = {hal-01369134},
 hal_version = {v3},
 keywords = {Dictionary-learning ;  matrix-factorization ;  online learning ;  multivariate models ;  sparsity ;  structured penalties ; FMRI analysis},
 month = {December},
 pdf = {https://hal.inria.fr/hal-01369134/file/nips%20%281%29.pdf},
 title = {{Learning brain regions via large-scale online structured sparse dictionary-learning}},
 url = {https://hal.inria.fr/hal-01369134},
 year = {2016}
}

@article{abraham:hal-01398867,
 author = {Abraham, A., Milham, M., Di Martino, A., Craddock, R., Samaras, D., Thirion, B. and Varoquaux, G.},
 doi = {10.1016/j.neuroimage.2016.10.045},
 hal_id = {hal-01398867},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {data pipelines ; resting-state fMRI ; data heterogeneity ; connectome ; biomarkers ; autism spectrum disorders},
 month = {November},
 pdf = {https://hal.inria.fr/hal-01398867/file/neuroimage.pdf},
 publisher = {{Elsevier}},
 title = {{Deriving reproducible biomarkers from multi-site resting-state data: An Autism-based example}},
 url = {https://hal.inria.fr/hal-01398867},
 year = {2016}
}

@incollection{thirion:hal-01419347,
 author = {Thirion, B.},
 booktitle = {{Handbook of Neuroimaging Data Analysis}},
 editor = {Hernando Ombao and Martin Lindquist and Wesley Thompson and John Aston},
 hal_id = {hal-01419347},
 hal_version = {v1},
 month = {November},
 pdf = {https://hal.inria.fr/hal-01419347/file/paper.pdf},
 publisher = {{Chapman \& Hall / CRC}},
 series = {Handbook of Modern Statistical methods},
 title = {{Functional Neuroimaging Group Studies}},
 url = {https://hal.inria.fr/hal-01419347},
 year = {2016}
}

@article{rahim:hal-01353728,
 author = {Rahim, M., Thirion, B., Comtat, C. and Varoquaux, G.},
 doi = {10.1109/JSTSP.2016.2600400},
 hal_id = {hal-01353728},
 hal_version = {v1},
 journal = {{IEEE Journal of Selected Topics in Signal Processing}},
 keywords = {Resting-state ; fMRI ; functional connectivity ; FDG-PET ; metabolic activity ; classification ; Alzheimer's Disease},
 month = {October},
 number = {7},
 pages = {1204 - 1213},
 pdf = {https://hal.inria.fr/hal-01353728/file/article.pdf},
 publisher = {{IEEE}},
 title = {{Transmodal Learning of Functional Networks for Alzheimer's Disease Prediction}},
 url = {https://hal.inria.fr/hal-01353728},
 volume = {10},
 year = {2016}
}

@article{hoyosidrobo:hal-01366651,
 author = {Hoyos-Idrobo, A., Varoquaux, G., Kahn, J. and Thirion, B.},
 doi = {10.1109/TPAMI.2018.2815524},
 hal_id = {hal-01366651},
 hal_version = {v2},
 journal = {{IEEE Transactions on Pattern Analysis and Machine Intelligence}},
 keywords = {matrix sketching ; dimensionality reduction ; clustering ; neuroimaging ; classification ; approximation},
 month = {August},
 pdf = {https://hal.inria.fr/hal-01366651/file/paper.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 title = {{Recursive nearest agglomeration (ReNA): fast clustering for approximation of structured signals}},
 url = {https://hal.inria.fr/hal-01366651},
 volume = {XX},
 year = {2016}
}

@article{bzdok:hal-01338313,
 author = {Bzdok, D., Varoquaux, G. and Thirion, B.},
 hal_id = {hal-01338313},
 hal_version = {v1},
 journal = {{Educational and Psychological Measurement}},
 month = {August},
 pdf = {https://hal.archives-ouvertes.fr/hal-01338313/file/bzdok_NHST_versus_GI_accepted.pdf},
 publisher = {{SAGE Publications}},
 title = {{Neuroimaging Research: From Null-Hypothesis Falsification to Out-of-sample Generalization}},
 url = {https://hal.archives-ouvertes.fr/hal-01338313},
 year = {2016}
}

@inproceedings{hoyosidrobo:hal-01313814,
 address = { Trento, Italy},
 author = {Hoyos-Idrobo, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{PRNI 2016: the 6th International Workshop on Pattern Recognition in Neuroimaging}},
 hal_id = {hal-01313814},
 hal_version = {v1},
 keywords = {Index Terms-Nystr{\"o}m ; High-dimensional estimators ; machine learning ; brain imaging},
 month = {June},
 pdf = {https://hal.inria.fr/hal-01313814/file/paper.pdf},
 title = {{Fast brain decoding with random sampling and random projections}},
 url = {https://hal.inria.fr/hal-01313814},
 year = {2016}
}

@inproceedings{dadi:hal-01319131,
 address = {Trento, Italy},
 author = {Dadi, K., Abraham, A., Rahim, M., Thirion, B. and Varoquaux, G.},
 booktitle = {{PRNI 2016: 6th International Workshop on Pattern Recognition in Neuroimaging}},
 hal_id = {hal-01319131},
 hal_version = {v1},
 keywords = {Index Terms-Functional connectivity ; connectome ; resting-state ; predictive model},
 month = {June},
 pdf = {https://hal.inria.fr/hal-01319131/file/paper.pdf},
 title = {{Comparing functional connectivity based predictive models across datasets}},
 url = {https://hal.inria.fr/hal-01319131},
 year = {2016}
}

@inproceedings{varoquaux:hal-01334551,
 address = {Trento, Italy},
 author = {Varoquaux, G., Kowalski, M. and Thirion, B.},
 booktitle = {{Pattern Recognition in NeuroImaging}},
 hal_id = {hal-01334551},
 hal_version = {v1},
 keywords = {brain decoding ; sparsity ; spatial regularization},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-01334551/file/paper.pdf},
 title = {{Social-sparsity brain decoders: faster spatial sparsity}},
 url = {https://hal.archives-ouvertes.fr/hal-01334551},
 year = {2016}
}

@inproceedings{mensch:hal-01308934,
 address = {New York, United States},
 author = {Mensch, A., Mairal, J., Thirion, B. and Varoquaux, G.},
 booktitle = {{International Conference on Machine Learning}},
 hal_id = {hal-01308934},
 hal_version = {v2},
 keywords = { dictionary learning ;  resting-state fMRI ; matrix factorization ;  recommender system ;  sparsity},
 month = {June},
 pages = {1737--1746},
 pdf = {https://hal.archives-ouvertes.fr/hal-01308934/file/icml.pdf},
 publisher = {{PMLR}},
 series = {Proceedings of Machine Learning Research},
 title = {{Dictionary Learning for Massive Matrix Factorization}},
 url = {https://hal.archives-ouvertes.fr/hal-01308934},
 volume = {48},
 year = {2016}
}

@article{bzdok:hal-01338307,
 author = {Bzdok, D., Varoquaux, G., Grisel, O., Eickenberg, M., Poupon, C. and Thirion, B.},
 doi = {10.1371/journal.pcbi.1004994},
 hal_id = {hal-01338307},
 hal_version = {v1},
 journal = {{PLoS Computational Biology}},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-01338307/file/bzdok_pcompbiol_2016.PDF},
 publisher = {{Public Library of Science}},
 title = {{Formal Models of the Network Co-occurrence Underlying Mental Operations}},
 url = {https://hal.archives-ouvertes.fr/hal-01338307},
 year = {2016}
}

@inproceedings{mensch:hal-01271033,
 address = {Prague, Czech Republic},
 author = {Mensch, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{International Symposium on Biomedical Imaging}},
 doi = {10.1109/ISBI.2016.7493501},
 hal_id = {hal-01271033},
 hal_version = {v2},
 keywords = {dictionary learning ; Resting-state fMRI ; online learning ; sparse decomposition ; range finder},
 month = {April},
 organization = {{IEEE}},
 pages = {1282-1285},
 pdf = {https://hal.archives-ouvertes.fr/hal-01271033/file/article.pdf},
 publisher = {{IEEE}},
 series = {13th International Symposium on Biomedical Imaging},
 title = {{Compressed Online Dictionary Learning for Fast Resting-State fMRI Decomposition}},
 url = {https://hal.archives-ouvertes.fr/hal-01271033},
 year = {2016}
}

@article{dubois:hal-02436257,
 author = {Dubois, J., Poupon, C., Thirion, B., Simonnet, H., Kulikova, S., Leroy, F., Hertz-Pannier, L. and Dehaene-Lambertz, G.},
 doi = {10.1093/cercor/bhv082},
 hal_id = {hal-02436257},
 hal_version = {v1},
 journal = {{Cerebral Cortex}},
 keywords = {Diffusion imaging ; Brain development ; White matter maturation and myelination ; Language network ; Inter-hemispheric asymmetry},
 month = {April},
 number = {5},
 pages = {2283-2298},
 pdf = {https://hal.archives-ouvertes.fr/hal-02436257/file/DuboisDehaeneLambertz_bundlesLanguage_cercor16_HAL.pdf},
 publisher = {{Oxford University Press (OUP)}},
 title = {{Exploring the early organization and maturation of linguistic pathways in the human infant brain}},
 url = {https://hal.archives-ouvertes.fr/hal-02436257},
 volume = {26},
 year = {2016}
}

@inproceedings{dohmatob:hal-01265372,
 address = {http://icassp2016.org/default.asp, China},
 author = {Dohmatob, E., Eickenberg, M., Thirion, B. and Varoquaux, G.},
 booktitle = {{ICASSP, International Conference on Acoustics, Speach, and Signal Processing}},
 hal_id = {hal-01265372},
 hal_version = {v1},
 keywords = {ADMM ; activity identification ; linear conver-gence ; structured sparsity ; convex optimization},
 month = {March},
 pdf = {https://hal.archives-ouvertes.fr/hal-01265372/file/paper.pdf},
 series = {ICASSP, International Conference on Acoustics, Speach, and Signal Processing},
 title = {{Local Q-Linear Convergence and Finite-time Active Set Identification of ADMM on a Class of Penalized Regression Problems}},
 url = {https://hal.archives-ouvertes.fr/hal-01265372},
 year = {2016}
}

@article{varoquaux:hal-01332785,
 author = {Varoquaux, G., Reddy Raamana, P., Engemann, D., Hoyos-Idrobo, A., Schwartz, Y. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2016.10.038},
 hal_id = {hal-01332785},
 hal_version = {v2},
 journal = {{NeuroImage}},
 keywords = {model selection ; sparse ; MVPA ; bagging ; fMRI ; cross-validation ; decoding},
 pdf = {https://hal.archives-ouvertes.fr/hal-01332785/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{Assessing and tuning brain decoders: cross-validation, caveats, and guidelines}},
 url = {https://hal.archives-ouvertes.fr/hal-01332785},
 year = {2016}
}

@article{eickenberg:hal-01389809,
 author = {Eickenberg, M., Gramfort, A., Varoquaux, G. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2016.10.001},
 hal_id = {hal-01389809},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {convolutional networks ;  fmri ;  vision ;  machine learning},
 pdf = {https://hal.inria.fr/hal-01389809/file/neuroimage.pdf},
 publisher = {{Elsevier}},
 title = {{Seeing it all: Convolutional network layers map the function of the human visual system}},
 url = {https://hal.inria.fr/hal-01389809},
 year = {2016}
}

@article{eickhoff:hal-01184563,
 author = {Eickhoff, S., Thirion, B., Varoquaux, G. and Bzdok, D.},
 doi = {10.1002/hbm.22933},
 hal_id = {hal-01184563},
 hal_version = {v1},
 journal = {{Human Brain Mapping}},
 keywords = {data-driven ; diffusion MRI ; brain parcellation ; clustering ; resting-state correlations ; statistical inference ; double dipping ; statistical learning},
 month = {January},
 pages = {22},
 pdf = {https://hal.archives-ouvertes.fr/hal-01184563/file/cbp_critique_subm.pdf},
 publisher = {{Wiley}},
 title = {{Connectivity-Based Parcellation: Critique and Implications}},
 url = {https://hal.archives-ouvertes.fr/hal-01184563},
 year = {2016}
}

@inproceedings{bzdok:hal-01211248,
 address = {Montreal, Canada},
 author = {Bzdok, D., Eickenberg, M., Grisel, O., Thirion, B. and Varoquaux, G.},
 booktitle = {{NIPS'15: 28th International Conference on Neural Information Processing Systems}},
 hal_id = {hal-01211248},
 hal_version = {v1},
 keywords = {Semi-Supervised Learning ; Brain Imaging ; Cognitive Science ; Systems Biology},
 month = {December},
 pdf = {https://hal.archives-ouvertes.fr/hal-01211248/file/paper.pdf},
 title = {{Semi-Supervised Factored Logistic Regression for High-Dimensional Neuroimaging Data}},
 url = {https://hal.archives-ouvertes.fr/hal-01211248},
 year = {2015}
}

@inproceedings{rahim:hal-01174636,
 address = {Munich, Germany},
 author = {Rahim, M., Thirion, B., Abraham, A., Eickenberg, M., Dohmatob, E., Comtat, C. and Varoquaux, G.},
 booktitle = {{Medical Image Computing and Computer Assisted Intervention}},
 doi = {10.1007/978-3-319-24553-9\_26},
 hal_id = {hal-01174636},
 hal_version = {v1},
 keywords = {FDG-PET ; Alzheimer's disease ; Classification ; prior ; connectivity ; metabolism ; resting-state fMRI},
 month = {October},
 pdf = {https://hal.archives-ouvertes.fr/hal-01174636/file/paper983.pdf},
 title = {{Integrating Multimodal Priors in Predictive Models for the Functional Characterization of Alzheimer's Disease}},
 url = {https://hal.archives-ouvertes.fr/hal-01174636},
 year = {2015}
}

@inproceedings{eickenberg:hal-01170619,
 address = {M{\"u}nchen, Germany},
 author = {Eickenberg, M., Dohmatob, E., Thirion, B. and Varoquaux, G.},
 booktitle = {{Medical Image Computing and Computer Aided Intervention (MICCAI)}},
 hal_id = {hal-01170619},
 hal_version = {v1},
 keywords = {Regularization ; Fmri ; Segmentation ; Machine Learning ; Convex Optimization},
 month = {October},
 pdf = {https://hal.inria.fr/hal-01170619/file/paper.pdf},
 series = {Proceedings of MICCAI 2015},
 title = {{Total Variation meets Sparsity: statistical learning with segmenting penalties}},
 url = {https://hal.inria.fr/hal-01170619},
 year = {2015}
}

@inproceedings{thirion:hal-01229023,
 address = {Lille, France},
 author = {Thirion, B., Hoyos-Idrobo, A., Kahn, J. and Varoquaux, G.},
 booktitle = {{ICML Workshop on Statistics, Machine Learning and Neuroscience (Stamlins 2015)}},
 hal_id = {hal-01229023},
 hal_version = {v2},
 month = {July},
 organization = {{Bertrand Thirion, Lars Kai Hansen, Sanmi Koyejo}},
 pdf = {https://hal.inria.fr/hal-01229023/file/paper.pdf},
 title = {{Fast clustering for scalable statistical analysis on structured images}},
 url = {https://hal.inria.fr/hal-01229023},
 year = {2015}
}

@inproceedings{thirion:hal-01187297,
 address = {Lille, France},
 author = {Thirion, B., Pedregosa, F., Eickenberg, M. and Varoquaux, G.},
 booktitle = {{ICML Workshop on Statistics, Machine Learning and Neuroscience (Stamlins 2015)}},
 hal_id = {hal-01187297},
 hal_version = {v1},
 keywords = {machine learning ; statistics ; functional neuroimaging ; inference ; pattern analysis},
 month = {July},
 organization = {{Bertrand Thirion, Lars Kai Hansen, Sanmi Koyejo}},
 pdf = {https://hal.inria.fr/hal-01187297/file/paper_stamlins.pdf},
 title = {{Correlations of correlations are not reliable statistics: implications for multivariate pattern analysis.}},
 url = {https://hal.inria.fr/hal-01187297},
 year = {2015}
}

@inproceedings{ng:hal-01185206,
 address = {Sabhal Mor Ostaig, Isle of Skye, United Kingdom},
 author = {Ng, B., Baptiste Poline, J., Thirion, B. and Greicius, M.},
 booktitle = {{Information Processing in Medical Imaging 2015}},
 editor = {Sebastien Ourselin and Daniel C. Alexander and Carl-Fredrik Westin and M. Jorge Cardoso},
 hal_id = {hal-01185206},
 hal_version = {v1},
 keywords = {Bootstrapping ; brain behavior associations ; connectivity ; fMRI ; multiresponse regression ; permutation test ; statistical inference},
 month = {June},
 organization = {{Sebastien Ourselin, University College London, UK and Daniel Alexander, University College London, UK and Carl-Fredrik Westin, Harvard University, USA}},
 pages = {12},
 pdf = {https://hal.inria.fr/hal-01185206/file/camReady.pdf},
 publisher = {{Springer}},
 series = {Lecture Notes in Computer Science},
 title = {{Bootstrapped Permutation Test for Multiresponse Inference on Brain Behavior Associations}},
 url = {https://hal.inria.fr/hal-01185206},
 volume = {9123},
 year = {2015}
}

@misc{dohmatob:hal-01187230,
 author = {Dohmatob, E., Eickenberg, M., Thirion, B. and Varoquaux, G.},
 hal_id = {hal-01187230},
 hal_version = {v1},
 howpublished = {{OHBM}},
 month = {June},
 note = {Poster},
 pdf = {https://hal.inria.fr/hal-01187230/file/ohbm_poster.pdf},
 title = {{SpaceNet: Multivariate brain decoding and segmentation}},
 url = {https://hal.inria.fr/hal-01187230},
 year = {2015}
}

@inproceedings{dohmatob:hal-01147731,
 address = {Stanford, United States},
 author = {Dohmatob, E., Eickenberg, M., Thirion, B. and Varoquaux, G.},
 booktitle = {{PRNI}},
 hal_id = {hal-01147731},
 hal_version = {v1},
 keywords = {univariate feature-screening ; model-selection ; cross-validation ; MRI ; supervised learning ; pattern-recognition ; sparsity ; GraphNet ; S-Lasso ; TV-L1 ; spatial priors},
 month = {June},
 pdf = {https://hal.inria.fr/hal-01147731/file/paper.pdf},
 title = {{Speeding-up model-selection in GraphNet via early-stopping and univariate feature-screening}},
 url = {https://hal.inria.fr/hal-01147731},
 year = {2015}
}

@inproceedings{hoyosidrobo:hal-01174335,
 address = {Palo alto, United States},
 author = {Hoyos-Idrobo, A., Schwartz, Y., Varoquaux, G. and Thirion, B.},
 booktitle = {{International Workshop On Pattern Recognition In Neuroimaging (PRNI), 2015}},
 hal_id = {hal-01174335},
 hal_version = {v1},
 keywords = {Stability ; High-dimensional estimators ; machine learning ; brain imaging ; clustering},
 month = {June},
 pdf = {https://hal.archives-ouvertes.fr/hal-01174335/file/paper.pdf},
 title = {{Improving sparse recovery on structured images with bagged clustering}},
 url = {https://hal.archives-ouvertes.fr/hal-01174335},
 year = {2015}
}

@article{pedregosa:hal-00952554,
 author = {Pedregosa, F., Eickenberg, M., Ciuciu, P., Thirion, B. and Gramfort, A.},
 doi = {10.1016/j.neuroimage.2014.09.060},
 hal_id = {hal-00952554},
 hal_version = {v4},
 journal = {{NeuroImage}},
 keywords = {Functional MRI (fMRI) ; Hemodynamic Response Function (HRF) ; Machine Learning ; Optimization ; BOLD ; Finite Impulse Response (FIR) ; Decoding ; Encoding},
 month = {January},
 pages = {209--220},
 pdf = {https://hal.inria.fr/hal-00952554/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{Data-driven HRF estimation for encoding and decoding models}},
 url = {https://hal.inria.fr/hal-00952554},
 year = {2015}
}

@article{ng:hal-01185200,
 author = {Ng, B., Varoquaux, G., Poline, J., Greicius, M. and Thirion, B.},
 doi = {10.1109/TMI.2015.2463723},
 hal_id = {hal-01185200},
 hal_version = {v1},
 journal = {{IEEE Transactions on Medical Imaging}},
 keywords = {transport on manifolds ; brain decoding ; connectivity ; fMRI ; Riemannian geometry},
 number = {99},
 pages = {9},
 pdf = {https://hal.inria.fr/hal-01185200/file/final.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 title = {{Transport on Riemannian Manifold for Connectivity-based Brain Decoding}},
 url = {https://hal.inria.fr/hal-01185200},
 volume = {PP},
 year = {2015}
}

@article{milazzo:hal-01094759,
 author = {Milazzo, A., Ng, B., Jiang, H., Shirer, W., Varoquaux, G., Poline, J., Thirion, B. and Greicius, M.},
 hal_id = {hal-01094759},
 hal_version = {v1},
 journal = {{Cerebral Cortex}},
 month = {October},
 pages = {12},
 publisher = {{Oxford University Press (OUP)}},
 title = {{Identification of Mood-Relevant Brain Connections Using a Continuous, Subject-Driven Rumination Paradigm.}},
 url = {https://hal.inria.fr/hal-01094759},
 year = {2014}
}

@misc{abraham:hal-01093944,
 author = {Abraham, A., Dohmatob, E., Thirion, B., Samaras, D. and Varoquaux, G.},
 hal_id = {hal-01093944},
 hal_version = {v1},
 howpublished = {{Sparsity Techniques in Medical Imaging}},
 keywords = {resting state fMRI ; region extraction ; brain networks ; clustering},
 month = {September},
 pages = {8},
 pdf = {https://hal.inria.fr/hal-01093944/file/paper16.pdf},
 title = {{Region segmentation for sparse decompositions: better brain parcellations from rest fMRI}},
 url = {https://hal.inria.fr/hal-01093944},
 year = {2014}
}

@inproceedings{thirion:hal-01015173,
 address = {Boston, United States},
 author = {Thirion, B., Varoquaux, G., Grisel, O., Poupon, C. and Pinel, P.},
 booktitle = {{MICCAI}},
 hal_id = {hal-01015173},
 hal_version = {v1},
 keywords = {fMRI ; principal components regression ; random effects},
 month = {September},
 pdf = {https://hal.inria.fr/hal-01015173/file/paper_869.pdf},
 publisher = {{Springer}},
 title = {{Principal Component Regression predicts functional responses across individuals}},
 url = {https://hal.inria.fr/hal-01015173},
 year = {2014}
}

@inproceedings{phlypo:hal-00991124,
 address = {Boston, United States},
 author = {Phlypo, R., Thirion, B. and Varoquaux, G.},
 booktitle = {{Medical Image Computing and Computer-Assisted Intervention}},
 doi = {10.1007/978-3-319-10443-0\_24},
 editor = {Golland, Polina and Hata, Nobuhiko and Barillot, Christian and Hornegger, Joachim and Howe, Robert},
 hal_id = {hal-00991124},
 hal_version = {v4},
 keywords = {functional connectivity ; sparse Gaussian graphical models},
 month = {September},
 note = {MICCAI 2014 preprint},
 pages = {185-192},
 pdf = {https://hal.inria.fr/hal-00991124/file/paper1144.pdf},
 publisher = {{Springer International Publishing}},
 title = {{Deriving a multi-subject functional-connectivity atlas to inform connectome estimation}},
 url = {https://hal.inria.fr/hal-00991124},
 volume = {8675},
 year = {2014}
}

@inproceedings{ng:hal-01058521,
 address = {Boston, United States},
 author = {Ng, B., Dressler, M., Varoquaux, G., Poline, J., Greicius, M. and Thirion, B.},
 booktitle = {{MICCAI - 17th International Conference on Medical Image Computing and Computer Assisted Intervention}},
 hal_id = {hal-01058521},
 hal_version = {v1},
 keywords = {Classification ; Connectivity ; fMRI ; Riemannian manifold},
 month = {September},
 organization = {{Polina Golland}},
 pdf = {https://hal.inria.fr/hal-01058521/file/camReady.pdf},
 publisher = {{Springer}},
 title = {{Transport on Riemannian Manifold for Functional Connectivity-based Classification}},
 url = {https://hal.inria.fr/hal-01058521},
 year = {2014}
}

@article{takerkart:hal-01027769,
 author = {Takerkart, S., Auzias, G., Thirion, B. and Ralaivola, L.},
 doi = {10.1371/journal.pone.0104586},
 hal_id = {hal-01027769},
 hal_version = {v1},
 journal = {{PLoS ONE}},
 month = {July},
 pages = {10.1371/journal.pone.0104586},
 pdf = {https://hal.archives-ouvertes.fr/hal-01027769/file/takerkart_plosone2014_gsvc_halversion.pdf},
 publisher = {{Public Library of Science}},
 title = {{Graph-based inter-subject pattern analysis of fMRI data}},
 url = {https://hal.archives-ouvertes.fr/hal-01027769},
 year = {2014}
}

@article{amunts:hal-01094749,
 author = {Amunts, K., Hawrylycz, M., Van Essen, D., van Horn., J., Harel, N., Poline, J., De Martino, F., Bjaalie, J., Dehaene-Lambertz, G., Dehaene, S., Valdes-Sosa, P., Thirion, B., Zilles, K., Hill, S., Abrams, M., Tass, P., Vanduffel, W., Evans, A. and Eickhoff, S.},
 doi = {10.1016/j.neuroimage.2014.06.010},
 hal_id = {hal-01094749},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {June},
 number = {1},
 pages = {8},
 pdf = {https://hal.inria.fr/hal-01094749/file/Amunts14.pdf},
 publisher = {{Elsevier}},
 title = {{Interoperable atlases of the human brain}},
 url = {https://hal.inria.fr/hal-01094749},
 volume = {99},
 year = {2014}
}

@inproceedings{dohmatob:hal-00991743,
 address = {T{\"u}bingen, Germany},
 author = {Dohmatob, E., Gramfort, A., Thirion, B. and Varoquaux, G.},
 booktitle = {{PRNI 2014 - 4th International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00991743},
 hal_version = {v1},
 keywords = {sparse models ; fMRI ; non-smooth convex optimization ; regression ; classification ; Total Variation},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00991743/file/PRNI2014_TVl1.pdf},
 publisher = {{IEEE}},
 title = {{Benchmarking solvers for TV-l1 least-squares and logistic regression in brain imaging}},
 url = {https://hal.inria.fr/hal-00991743},
 year = {2014}
}

@article{thirion:hal-01015172,
 author = {Thirion, B., Varoquaux, G., Dohmatob, E. and Poline, J.},
 doi = {10.3389/fnins.2014.00167},
 hal_id = {hal-01015172},
 hal_version = {v1},
 journal = {{Frontiers in Neuroscience}},
 keywords = {Functional Neuroimaging ; Brain Atlas ; clustering ; Model selection ; Cross-validation ; group studies},
 month = {May},
 number = {167},
 pages = {13},
 pdf = {https://hal.inria.fr/hal-01015172/file/frontiers_paper.pdf},
 publisher = {{Frontiers}},
 title = {{Which fMRI clustering gives good brain parcellations?}},
 url = {https://hal.inria.fr/hal-01015172},
 volume = {8},
 year = {2014}
}

@article{damota:hal-01057325,
 author = {Da Mota, B., Tudoran, R., Costan, A., Varoquaux, G., Brasche, G., Conrod, P., Lemaitre, H., Paus, T., Rietschel, M., Frouin, V., Poline, J., Antoniu, G. and Thirion, B.},
 doi = {10.3389/fninf.2014.00031},
 hal_id = {hal-01057325},
 hal_version = {v1},
 journal = {{Frontiers in Neuroinformatics}},
 keywords = {heritability ; machine learning ; neuroimaging-genetic ; cloud computing ; fMRI ; heritability.},
 month = {April},
 pdf = {https://hal.inria.fr/hal-01057325/file/frontiers.pdf},
 publisher = {{Frontiers}},
 series = {Recent advances and the future generation of neuroinformatics infrastructure},
 title = {{Machine Learning Patterns for Neuroimaging-Genetic Studies in the Cloud}},
 url = {https://hal.inria.fr/hal-01057325},
 volume = {8},
 year = {2014}
}

@article{xu:hal-01094739,
 author = {Xu, H., Thirion, B. and Allassonni{\`e}re, S.},
 doi = {10.1002/sim.6156},
 hal_id = {hal-01094739},
 hal_version = {v1},
 journal = {{Statistics in Medicine}},
 keywords = {atlas-based segmentation ; stochastic algorithm ; Probabilistic atlas ; statistical estimation ; geometric variability ; neuro-segmentation coupled with registration},
 month = {April},
 number = {20},
 pages = {24},
 pdf = {https://hal.inria.fr/hal-01094739/file/simdoc.pdf},
 publisher = {{Wiley-Blackwell}},
 title = {{Probabilistic Atlas and Geometric Variability Estimation to Drive Tissue Segmentation}},
 url = {https://hal.inria.fr/hal-01094739},
 volume = {33},
 year = {2014}
}

@inproceedings{yepes:hal-00975872,
 address = {San Diego, United States},
 author = {Yepes, F., Pedregosa, F., Thirion, B., Wang, Y. and Lepore, N.},
 booktitle = {{SPIE Medical Imaging 2014}},
 doi = {10.1117/12.2043943},
 hal_id = {hal-00975872},
 hal_version = {v1},
 keywords = {Machine learning ; Pathology Diseases and disorders ; Magnetic resonance imaging ; Medical diagnostics ; Neuroimaging Algorithms ; Brain Databases Diagnostics},
 month = {February},
 number = {1},
 pages = {24},
 pdf = {https://hal.archives-ouvertes.fr/hal-00975872/file/Spie2014_Extension.pdf},
 title = {{Automatic pathology classification using a single feature machine learning - support vector machines}},
 url = {https://hal.archives-ouvertes.fr/hal-00975872},
 volume = {9035},
 year = {2014}
}

@article{varoquaux:hal-01094737,
 author = {Varoquaux, G. and Thirion, B.},
 doi = {10.1186/2047-217X-3-28},
 hal_id = {hal-01094737},
 hal_version = {v1},
 journal = {{GigaScience}},
 keywords = {cognition ; neuroimaging ; machine learning ; fMRI ; encoding ; decoding},
 pages = {28},
 pdf = {https://hal.inria.fr/hal-01094737/file/paper.pdf},
 publisher = {{BioMed Central}},
 title = {{How machine learning is shaping cognitive neuroimaging}},
 url = {https://hal.inria.fr/hal-01094737},
 volume = {3},
 year = {2014}
}

@inproceedings{schwartz:hal-00904763,
 address = {United States},
 author = {Schwartz, Y., Thirion, B. and Varoquaux, G.},
 booktitle = {{NIPS (Neural Information Processing Systems)}},
 hal_id = {hal-00904763},
 hal_version = {v2},
 keywords = {fMRI ; meta-analyses ; multilabel learning ; forward inference ; reverse inference},
 month = {December},
 pdf = {https://hal.archives-ouvertes.fr/hal-00904763/file/paper.pdf},
 title = {{Mapping cognitive ontologies to and from the brain}},
 url = {https://hal.archives-ouvertes.fr/hal-00904763},
 year = {2013}
}

@article{abraham:hal-01093971,
 author = {Abraham, A., Pedregosa, F., Eickenberg, M., Gervais, P., Muller, A., Kossaifi, J., Gramfort, A., Thirion, B. and Varoquaux, G.},
 doi = {10.3389/fninf.2014.00014},
 hal_id = {hal-01093971},
 hal_version = {v1},
 journal = {{Frontiers in Neuroscience}},
 keywords = {scikit-learn ; neuroimaging ; statistical learning ; machine learning ; Python},
 month = {December},
 pages = {15},
 pdf = {https://hal.inria.fr/hal-01093971/file/frontiers.pdf},
 publisher = {{Frontiers}},
 title = {{Machine Learning for Neuroimaging with Scikit-Learn}},
 url = {https://hal.inria.fr/hal-01093971},
 year = {2013}
}

@article{damota:hal-00915243,
 author = {Da Mota, B., Fritsch, V., Varoquaux, G., Banaschewski, T., Barker, G., Bokde, A., Bromberg, U., Conrod, P., Gallinat, J., Garavan, H., Martinot, J., Nees, F., Paus, T., Pausova, Z., Rietschel, M., Smolka, M., Str{\"o}hle, A., Frouin, V., Poline, J. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2013.11.012},
 hal_id = {hal-00915243},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {group analysis ; parcellation ; reproducibility ; multiple comparisons ; permutations},
 month = {November},
 pages = {epub ahead of print},
 pdf = {https://hal.inria.fr/hal-00915243/file/persistence.pdf},
 publisher = {{Elsevier}},
 title = {{Randomized parcellation based inference.}},
 url = {https://hal.inria.fr/hal-00915243},
 year = {2013}
}

@inproceedings{damota:hal-00832616,
 address = {Nagoya, Japan},
 author = {Da Mota, B., Fritsch, V., Varoquaux, G., Frouin, V., Poline, J. and Thirion, B.},
 booktitle = {{MICCAI - 16th International Conference on Medical Image Computing and Computer Assisted Intervention - 2013}},
 hal_id = {hal-00832616},
 hal_version = {v1},
 month = {September},
 pdf = {https://hal.inria.fr/hal-00832616/file/paper397.pdf},
 title = {{Enhancing the Reproducibility of Group Analysis with Randomized Brain Parcellations}},
 url = {https://hal.inria.fr/hal-00832616},
 year = {2013}
}

@inproceedings{siless:hal-00853582,
 address = {Nagoya, Japan},
 author = {Siless, V., Medina, S., Fillard, P. and Thirion, B.},
 booktitle = {{Workshop on Multi Modal Brain Image Analysis}},
 hal_id = {hal-00853582},
 hal_version = {v1},
 month = {September},
 organization = {{Li Shen - Tianming Liu - Pew-Thian Yap - Heng Huang - Dinggang Shen -Carl-Fredrik Westin}},
 pdf = {https://hal.inria.fr/hal-00853582/file/GeometricMeassuresLogDemons.pdf},
 publisher = {{Springer Lecture Notes in Computer Science}},
 title = {{Unsupervised Fiber Bundles Registration using Weighted Measures Geometric Demons}},
 url = {https://hal.inria.fr/hal-00853582},
 year = {2013}
}

@inproceedings{xu:hal-00853097,
 address = {Nagoya, Japan},
 author = {Xu, H., Thirion, B. and Allassonni{\`e}re, S.},
 booktitle = {{MICCAI - 16th International Conference on Medical Image Computing and Computer Assisted Intervention - 2013}},
 editor = {Yoshinobu Sato and Christian Barillot and Nassir Navab},
 hal_id = {hal-00853097},
 hal_version = {v1},
 keywords = {joint registration ; segmentation ; Probabilistic atlas ; geometric variability ; atlas-based segmentation ; multi-modal ; T1 MRI and fMRI},
 month = {September},
 pdf = {https://hal.inria.fr/hal-00853097/file/paper226.pdf},
 publisher = {{Springer}},
 title = {{Bayesian Estimation of Probabilistic Atlas for Anatomically-Informed Functional MRI Group Analyses}},
 url = {https://hal.inria.fr/hal-00853097},
 year = {2013}
}

@inproceedings{ng:hal-00853108,
 address = {Nagoya, Japan},
 author = {Ng, B., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{MICCAI - 16th International Conference on Medical Image Computing and Computer Assisted Intervention - 2013}},
 editor = {Yoshinobu Sato and Christian Barillot and Nassir Navab},
 hal_id = {hal-00853108},
 hal_version = {v1},
 keywords = {brain activation ; connectivity ; dMRI ; fMRI ; multimodal integration},
 month = {September},
 organization = {{Kensaku Mori}},
 pdf = {https://hal.inria.fr/hal-00853108/file/camReady.pdf},
 publisher = {{Springer}},
 title = {{Implications of Inconsistencies between fMRI and dMRI on Multimodal Connectivity Estimation}},
 url = {https://hal.inria.fr/hal-00853108},
 year = {2013}
}

@inproceedings{abraham:hal-00853242,
 address = {Nagoya, Japan},
 author = {Abraham, A., Dohmatob, E., Thirion, B., Samaras, D. and Varoquaux, G.},
 booktitle = {{MICCAI - 16th International Conference on Medical Image Computing and Computer Assisted Intervention - 2013}},
 hal_id = {hal-00853242},
 hal_version = {v1},
 keywords = {dictionary learning ; clustering ; resting state fMRI},
 month = {September},
 pdf = {https://hal.inria.fr/hal-00853242/file/paper598.pdf},
 publisher = {{Springer}},
 title = {{Extracting brain regions from rest fMRI with Total-Variation constrained dictionary learning}},
 url = {https://hal.inria.fr/hal-00853242},
 year = {2013}
}

@article{deligianni:hal-00852072,
 author = {Deligianni, F., Varoquaux, G., Thirion, B., Sharp, D., Ledig, C., Leech, R. and Rueckert, D.},
 doi = {10.1109/TMI.2013.2276916},
 hal_id = {hal-00852072},
 hal_version = {v1},
 journal = {{IEEE Transactions on Medical Imaging}},
 keywords = {structural brain connectivity ; functional brain connectivity ; statistical associations ; predictive modeling},
 month = {August},
 pdf = {https://hal.inria.fr/hal-00852072/file/paper.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 series = {epub ahead of print},
 title = {{A framework for inter-subject prediction of functional connectivity from structural networks}},
 url = {https://hal.inria.fr/hal-00852072},
 year = {2013}
}

@inproceedings{ng:hal-00842607,
 address = {Asilomar, United States},
 author = {Ng, B., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{Information Processing in Medical Imaging}},
 hal_id = {hal-00842607},
 hal_version = {v1},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00842607/file/camReadyA4.pdf},
 title = {{A Novel Sparse Group Gaussian Graphical Model for Functional Connectivity Estimation}},
 url = {https://hal.inria.fr/hal-00842607},
 year = {2013}
}

@inproceedings{varoquaux:hal-00841502,
 address = {Asilomar, United States},
 author = {Varoquaux, G., Schwartz, Y., Pinel, P. and Thirion, B.},
 booktitle = {{IPMI - Information Processing in Medical Imaging - 2013}},
 doi = {10.1007/978-3-642-38868-2\_37},
 editor = {William M. Wells and Sarang Joshi and Kilian M. Pohl},
 hal_id = {hal-00841502},
 hal_version = {v1},
 keywords = {fMRI ; brain parcellations ; cognitive domains},
 month = {June},
 organization = {{William M. Wells, Sarang Joshi, Kilian M. Pohl}},
 pages = {438-449},
 pdf = {https://hal.inria.fr/hal-00841502/file/paper.pdf},
 publisher = {{Springer}},
 series = {LNCS},
 title = {{Cohort-level brain mapping: learning cognitive atoms to single out specialized regions}},
 url = {https://hal.inria.fr/hal-00841502},
 volume = {7917},
 year = {2013}
}

@inproceedings{siless:hal-00858115,
 address = {Philadelphia, United States},
 author = {Siless, V., Medina, S., Varoquaux, G. and Thirion, B.},
 booktitle = {{Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00858115},
 hal_version = {v1},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00858115/file/FiberClusteringPRNI.pdf},
 title = {{A Comparison of Metrics and Algorithms for Fiber Clustering}},
 url = {https://hal.inria.fr/hal-00858115},
 year = {2013}
}

@inproceedings{fritsch:hal-00833953,
 address = {Philadelphie, United States},
 author = {Fritsch, V., Da Mota, B., Varoquaux, G., Frouin, V., Loth, E., Poline, J. and Thirion, B.},
 booktitle = {{Pattern Recognition in Neuroimaging}},
 hal_id = {hal-00833953},
 hal_version = {v1},
 keywords = {Robust regression ; fMRI ; neuroimaging},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00833953/file/rlm.pdf},
 title = {{Robust Group-Level Inference in Neuroimaging Genetic Studies}},
 url = {https://hal.inria.fr/hal-00833953},
 year = {2013}
}

@inproceedings{gramfort:hal-00839984,
 address = {Philadelphia, United States},
 author = {Gramfort, A., Thirion, B. and Varoquaux, G.},
 booktitle = {{Pattern Recognition in Neuroimaging (PRNI)}},
 hal_id = {hal-00839984},
 hal_version = {v1},
 keywords = {fMRI ; supervised learning ; total-variation ; sparse ; decoding ; primal-dual optimization ; support recovery},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00839984/file/paper.pdf},
 publisher = {{IEEE}},
 title = {{Identifying predictive regions from fMRI with TV-L1 prior}},
 url = {https://hal.inria.fr/hal-00839984},
 year = {2013}
}

@inproceedings{pedregosa:hal-00821946,
 address = {Philadelphia, United States},
 author = {Pedregosa, F., Eickenberg, M., Thirion, B. and Gramfort, A.},
 booktitle = {{3nd International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00821946},
 hal_version = {v1},
 keywords = {fMRI ; hemodynamic ; HRF ; GLM ; BOLD ; encoding ; decoding},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00821946/file/paper.pdf},
 title = {{HRF estimation improves sensitivity of fMRI encoding and decoding models}},
 url = {https://hal.inria.fr/hal-00821946},
 year = {2013}
}

@inproceedings{eickenberg:hal-00834928,
 address = {Philadelphia, United States},
 author = {Eickenberg, M., Pedregosa, F., Mehdi, S., Gramfort, A. and Thirion, B.},
 booktitle = {{PRNI 2013 - 3nd International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00834928},
 hal_version = {v1},
 month = {June},
 pdf = {https://hal.inria.fr/hal-00834928/file/prni_2013.pdf},
 publisher = {{Conference Publishing Services}},
 title = {{Second order scattering descriptors predict fMRI activity due to visual textures}},
 url = {https://hal.inria.fr/hal-00834928},
 year = {2013}
}

@article{tucholka:hal-00723437,
 author = {Tucholka, A., Fritsch, V., Poline, J. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2012.06.019},
 hal_id = {hal-00723437},
 hal_version = {v3},
 journal = {{NeuroImage}},
 keywords = {between-subject variability ; Cortical surface mapping ; fMRI ; statistical inference ; cluster-level tests ; random effects analysis ; mixed effects analysis ; between-subject variability.},
 month = {November},
 number = {3},
 pages = {1443-53},
 pdf = {https://hal.archives-ouvertes.fr/hal-00723437/file/surface_volume.pdf},
 publisher = {{Elsevier}},
 title = {{An empirical comparison of surface-based and volume-based group studies in neuroimaging}},
 url = {https://hal.archives-ouvertes.fr/hal-00723437},
 volume = {63},
 year = {2012}
}

@article{grillon:hal-00753225,
 author = {Grillon, M., Oppenheim, C., Varoquaux, G., Charbonneau, F., Devauchelle, A., Krebs, M., Bayle, F., Thirion, B. and Huron, C.},
 doi = {10.1016/j.pscychresns.2012.09.001},
 hal_id = {hal-00753225},
 hal_version = {v1},
 journal = {{Psychiatry Research: Neuroimaging}},
 month = {November},
 number = {3},
 pages = {226--233},
 pdf = {https://hal.inria.fr/hal-00753225/file/Grillon_2012_preprint.pdf},
 publisher = {{Elsevier}},
 title = {{Hyperfrontality and hypoconnectivity during refreshing in schizophrenia.}},
 url = {https://hal.inria.fr/hal-00753225},
 volume = { 211},
 year = {2012}
}

@article{guillemot:hal-00750902,
 author = {Guillemot, V., Frouin, V., Pinel, P., Lalanne, C., Trinchera, L., Tenenhaus, A., Moreno, A., Zilbovicius, M., Bourgeron, T., Dehaene, S., Thirion, B. and Poline, J.},
 doi = {10.1016/j.neuroimage.2012.06.061},
 hal_id = {hal-00750902},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {Multivariate genetic analysis ; Partial least squares regression ; Canonical correlation analysis ; Feature selection ; Regularisation},
 month = {October},
 number = {1},
 pages = {11-24},
 publisher = {{Elsevier}},
 title = {{Significant correlation between a set of genetic polymorphisms and a functional brain network revealed by feature selection and sparse Partial Least Squares.}},
 url = {https://hal-supelec.archives-ouvertes.fr/hal-00750902},
 volume = {63},
 year = {2012}
}

@inproceedings{takerkart:hal-00818815,
 address = {Nice, France},
 author = {Takerkart, S., Auzias, G., Thirion, B., Sch{\"o}n, D. and Ralaivola, L.},
 booktitle = {{Third International Workshop Machine Learning in Medical Imaging - MLMI 2012 (Held in Conjunction with MICCAI 2012)}},
 doi = {10.1007/978-3-642-35428-1\_23},
 hal_id = {hal-00818815},
 hal_version = {v1},
 keywords = {fMRI ; classification ; graph ; kernels ; inter-individual ; variability},
 month = {October},
 number = {0302-9743},
 pages = {pp 184-192},
 pdf = {https://hal.archives-ouvertes.fr/hal-00818815/file/mlmi2012_takerkart_camera_ready.pdf},
 publisher = {{Springer Berlin Heidelberg}},
 series = {Lecture Notes in Computer Science},
 title = {{Graph-based inter-subject classification of local fMRI patterns}},
 url = {https://hal.archives-ouvertes.fr/hal-00818815},
 volume = {7588},
 year = {2012}
}

@inproceedings{damota:hal-00730385,
 address = {Nice, France},
 author = {Da Mota, B., Eickenberg, M., Laguitton, S., Frouin, V., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{DCICTIA-MICCAI - Data- and Compute-Intensive Clinical and Translational Imaging Applications in conjonction with the 15th International Conference on Medical Image Computing and Computer Assisted Intervention - 2012}},
 hal_id = {hal-00730385},
 hal_version = {v1},
 month = {October},
 pdf = {https://hal.inria.fr/hal-00730385/file/article.pdf},
 title = {{A MapReduce Approach for Ridge Regression in Neuroimaging-Genetic Studies}},
 url = {https://hal.inria.fr/hal-00730385},
 year = {2012}
}

@inproceedings{fritsch:hal-00738438,
 address = {Nice, France},
 author = {Fritsch, V., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{Machine Learning in Medical Imaging - Miccai 2012 workshop}},
 editor = {Fei Wang and Dinggang Shen and Pingkun Yan and Kenji Suzuki},
 hal_id = {hal-00738438},
 hal_version = {v1},
 keywords = {Outlier detection ; non-parametric density estimation ; One-Class SVM ; Parzen ; Local Component Analysis ; neuroimaging ; fMRI},
 month = {October},
 pages = {207-214},
 pdf = {https://hal.inria.fr/hal-00738438/file/camera_ready.pdf},
 title = {{Non-parametric Density Modeling and Outlier Detection in Medical Imaging Datasets}},
 url = {https://hal.inria.fr/hal-00738438},
 year = {2012}
}

@inproceedings{schwartz:hal-00734911,
 address = {Nice, France},
 author = {Schwartz, Y., Varoquaux, G., Pallier, C., Pinel, P., Poline, J. and Thirion, B.},
 booktitle = {{MICCAI}},
 hal_id = {hal-00734911},
 hal_version = {v2},
 keywords = {Meta-analysis ; fMRI ; multiple comparison ; machine learning},
 month = {October},
 pages = {1-8},
 pdf = {https://hal.archives-ouvertes.fr/hal-00734911/file/paper.pdf},
 title = {{Improving accuracy and power with transfer learning using a meta-analytic database}},
 url = {https://hal.archives-ouvertes.fr/hal-00734911},
 year = {2012}
}

@inproceedings{ng:hal-00741631,
 address = {Nice, France},
 author = {Ng, B., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{Medical Image Computing and Computer Assisted Intervention}},
 hal_id = {hal-00741631},
 hal_version = {v1},
 month = {October},
 pdf = {https://hal.inria.fr/hal-00741631/file/camReady.pdf},
 title = {{A Novel Sparse Graphical Approach for Multimodal Brain Connectivity Inference}},
 url = {https://hal.inria.fr/hal-00741631},
 year = {2012}
}

@inproceedings{pedregosa:hal-00717990,
 address = {Nice, France},
 author = {Pedregosa, F., Cauvet, E., Varoquaux, G., Pallier, C., Thirion, B. and Gramfort, A.},
 booktitle = {{Third International Workshop on Machine Learning in Medical Imaging - MLMI 2012}},
 hal_id = {hal-00717990},
 hal_version = {v2},
 keywords = {fMRI ; supervised learning ; decoding ; ranking},
 month = {October},
 organization = {{INRIA}},
 pdf = {https://hal.inria.fr/hal-00717990/file/paper.pdf},
 title = {{Learning to rank from medical imaging data}},
 url = {https://hal.inria.fr/hal-00717990},
 year = {2012}
}

@inproceedings{siless:hal-00723367,
 address = {Nice, France, France},
 author = {Siless, V., Glaun{\`e}s, J., Guevara, P., Mangin, J., Poupon, C., Le Bihan, D., Thirion, B. and Fillard, P.},
 booktitle = {{MICCAI}},
 hal_id = {hal-00723367},
 hal_version = {v1},
 month = {October},
 pdf = {https://hal.inria.fr/hal-00723367/file/75110057.pdf},
 title = {{Joint T1 and Brain Fiber Log-Demons Registration Using Currents to Model Geometry}},
 url = {https://hal.inria.fr/hal-00723367},
 year = {2012}
}

@inproceedings{damota:hal-00720265,
 address = {Limassol, Cyprus},
 author = {Da Mota, B., Frouin, V., Duchesnay, E., Laguitton, S., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{20th International Conference on Computational Statistics (COMPSTAT 2012)}},
 hal_id = {hal-00720265},
 hal_version = {v1},
 month = {August},
 pdf = {https://hal.inria.fr/hal-00720265/file/article.pdf},
 title = {{A fast computational framework for genome-wide association studies with neuroimaging data}},
 url = {https://hal.inria.fr/hal-00720265},
 year = {2012}
}

@article{jenatton:inria-00589785,
 author = {Jenatton, R., Gramfort, A., Michel, V., Obozinski, G., Eger, E., Bach, F. and Thirion, B.},
 doi = {10.1137/110832380},
 hal_id = {inria-00589785},
 hal_version = {v2},
 journal = {{SIAM Journal on Imaging Sciences}},
 keywords = {brain reading ; structured sparsity ; convex optimization ; sparse hierarchical models ; inter-subject validation ; proximal methods},
 month = {July},
 number = {3},
 pages = {835-856},
 pdf = {https://hal.inria.fr/inria-00589785/file/sparse_hierarchical_fmri_mining_hal.pdf},
 publisher = {{Society for Industrial and Applied Mathematics}},
 title = {{Multi-scale Mining of fMRI data with Hierarchical Structured Sparsity}},
 type = {Research Report},
 url = {https://hal.inria.fr/inria-00589785},
 volume = {5},
 year = {2012}
}

@inproceedings{eickenberg:hal-00704528,
 address = {London, United Kingdom},
 author = {Eickenberg, M., Gramfort, A. and Thirion, B.},
 booktitle = {{International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00704528},
 hal_version = {v1},
 keywords = {scattering transform ; fMRI encoding models ; visual cortex},
 month = {July},
 pdf = {https://hal.inria.fr/hal-00704528/file/example_paper.pdf},
 title = {{Multilayer Scattering Image Analysis Fits fMRI Activity in Visual Areas}},
 url = {https://hal.inria.fr/hal-00704528},
 year = {2012}
}

@inproceedings{gramfort:hal-00730768,
 address = {Londres, United Kingdom},
 author = {Gramfort, A., Pallier, C., Varoquaux, G. and Thirion, B.},
 booktitle = {{Pattern Recognition in NeuroImaging (PRNI), 2012 International Workshop on}},
 doi = {10.1109/PRNI.2012.20},
 hal_id = {hal-00730768},
 hal_version = {v1},
 keywords = {fMRI ; classification ; machine learning ; brain reading ; decoding},
 month = {July},
 pages = {13-16},
 pdf = {https://hal.inria.fr/hal-00730768/file/paper.pdf},
 title = {{Decoding Visual Percepts Induced by Word Reading with fMRI}},
 url = {https://hal.inria.fr/hal-00730768},
 year = {2012}
}

@inproceedings{schwartz:hal-00728765,
 address = {London, United Kingdom},
 author = {Schwartz, Y., Varoquaux, G. and Thirion, B.},
 booktitle = {{PRNI 2012 : 2nd International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00728765},
 hal_version = {v1},
 keywords = {Machine learning ; fMRI ; feature selection ; regions},
 month = {July},
 pages = {53-56},
 pdf = {https://hal.archives-ouvertes.fr/hal-00728765/file/paper.pdf},
 title = {{On spatial selectivity and prediction across conditions with fMRI}},
 url = {https://hal.archives-ouvertes.fr/hal-00728765},
 year = {2012}
}

@inproceedings{ng:hal-00726656,
 address = {London, United Kingdom},
 author = {Ng, B., Siless, V., Varoquaux, G., Poline, J., Thirion, B. and Abugharbieh, R.},
 booktitle = {{Pattern Recognition in Neuroimaging}},
 hal_id = {hal-00726656},
 hal_version = {v1},
 keywords = {connectivity ; DWI ; fMRI ; sparse classifiers},
 month = {July},
 organization = {{Christos Davatzikos, Moritz Grosse-Wentrup, Janaina Mourao-Miranda, Dimitri Van De Ville}},
 pdf = {https://hal.inria.fr/hal-00726656/file/connClassifierPRNI2012.pdf},
 title = {{Connectivity-informed Sparse Classifiers for fMRI Brain Decoding}},
 url = {https://hal.inria.fr/hal-00726656},
 year = {2012}
}

@inproceedings{pedregosa:hal-00717954,
 address = {London, United Kingdom},
 author = {Pedregosa, F., Cauvet, E., Varoquaux, G., Pallier, C., Thirion, B. and Gramfort, A.},
 booktitle = {{PRNI 2012 : 2nd International Workshop on Pattern Recognition in NeuroImaging}},
 hal_id = {hal-00717954},
 hal_version = {v1},
 keywords = {fMRI ; supervised learning ; decoding ; ranking},
 month = {July},
 pdf = {https://hal.inria.fr/hal-00717954/file/paper.pdf},
 title = {{Improved brain pattern recovery through ranking approaches}},
 url = {https://hal.inria.fr/hal-00717954},
 year = {2012}
}

@inproceedings{varoquaux:hal-00705192,
 address = {Edimbourg, United Kingdom},
 author = {Varoquaux, G., Gramfort, A. and Thirion, B.},
 booktitle = {{International Conference on Machine Learning}},
 editor = {John and Langford and Joelle and Pineau},
 hal_id = {hal-00705192},
 hal_version = {v1},
 keywords = {Sparse recovery ; correlated design ; clustering ; randomization ; brain imaging ; fMRI},
 month = {June},
 organization = {{Andrew McCallum}},
 pdf = {https://hal.inria.fr/hal-00705192/file/paper.pdf},
 title = {{Small-sample brain mapping: sparse recovery on spatially correlated designs with randomization and clustering}},
 url = {https://hal.inria.fr/hal-00705192},
 year = {2012}
}

@misc{siless:hal-00828387,
 author = {Siless, V., Guevara, P., Pennec, X., Thirion, B. and Fillard, P.},
 hal_id = {hal-00828387},
 hal_version = {v1},
 howpublished = {{Organization for the Human Brain Mapping}},
 month = {June},
 note = {Poster},
 pdf = {https://hal.inria.fr/hal-00828387/file/ohbm2012.pdf},
 title = {{Joint T1 and brain fiber diffeomorphic registration using the demons}},
 url = {https://hal.inria.fr/hal-00828387},
 year = {2012}
}

@article{fritsch:hal-00701225,
 author = {Fritsch, V., Varoquaux, G., Thyreau, B., Poline, J. and Thirion, B.},
 doi = {10.1016/j.media.2012.05.002},
 hal_id = {hal-00701225},
 hal_version = {v1},
 journal = {{Medical Image Analysis}},
 keywords = {outlier detection ; minimum covariance determinant ; regularization ; robust estimation ; neuroimaging ; fMRI ; high-dimension},
 month = {May},
 pages = {1359-1370},
 pdf = {https://hal.inria.fr/hal-00701225/file/media_outliers.pdf},
 publisher = {{Elsevier}},
 title = {{Detecting Outliers in High-Dimensional Neuroimaging Datasets with Robust Covariance Estimators}},
 url = {https://hal.inria.fr/hal-00701225},
 volume = {16},
 year = {2012}
}

@inproceedings{tudoran:hal-00781571,
 address = {Berkeley, United States},
 author = {Tudoran, R., Costan, A., Da Mota, B., Antoniu, G. and Thirion, B.},
 booktitle = {{CloudFutures 2012}},
 hal_id = {hal-00781571},
 hal_version = {v1},
 month = {May},
 pdf = {https://hal.inria.fr/hal-00781571/file/abstract.pdf},
 publisher = {{Microsoft}},
 title = {{A-Brain: Using the Cloud to Understand the Impact of Genetic Variability on the Brain}},
 url = {https://hal.inria.fr/hal-00781571},
 year = {2012}
}

@article{antoniu:hal-00684384,
 author = {Antoniu, G., Costan, A., Da Mota, B., Thirion, B. and Tudoran, R.},
 hal_id = {hal-00684384},
 hal_version = {v1},
 journal = {{ERCIM News}},
 month = {April},
 pages = {21-22},
 publisher = {{ERCIM}},
 title = {{A-Brain: Using the Cloud to Understand the Impact of Genetic Variability on the Brain}},
 url = {https://hal.inria.fr/hal-00684384},
 year = {2012}
}

@article{varoquaux:hal-00665340,
 author = {Varoquaux, G., Gramfort, A., Poline, J. and Thirion, B.},
 doi = {10.1016/j.jphysparis.2012.01.001},
 hal_id = {hal-00665340},
 hal_version = {v2},
 journal = {{Journal of Physiology - Paris}},
 keywords = {fMRI ; brain networks ; small-world ; functional connectivity ; Markov models ; decomposable graphs},
 month = {January},
 pages = {212-221},
 pdf = {https://hal.inria.fr/hal-00665340/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{Markov models for fMRI correlation structure: is brain functional connectivity small world, or decomposable into networks?}},
 url = {https://hal.inria.fr/hal-00665340},
 volume = {106},
 year = {2012}
}

@inproceedings{michel:hal-00753142,
 address = {Sierra Nevada, Spain},
 author = {Michel, V., Gramfort, A., Eger, E., Varoquaux, G. and Thirion, B.},
 booktitle = {{MLINI - Machine Learning and Interpretation in Neuroimaging - 2011}},
 doi = {10.1007/978-3-642-34713-9\_1},
 editor = {Georg Langs and Irina Rish and Moritz Grosse-Wentrup and Brain Murphy},
 hal_id = {hal-00753142},
 hal_version = {v1},
 keywords = {fMRI ; decoding ; machine learning ; brain mapping},
 month = {December},
 pages = {1-8},
 pdf = {https://hal.inria.fr/hal-00753142/file/michel_mlini_2011.pdf},
 publisher = {{Springer}},
 series = {Lecture Notes in Computer Science},
 title = {{A Comparative Study of Algorithms for Intra- and Inter-subjects fMRI Decoding}},
 url = {https://hal.inria.fr/hal-00753142},
 year = {2011}
}

@inproceedings{varoquaux:hal-00753132,
 address = {Sierra Nevada, Spain},
 author = {Varoquaux, G. and Thirion, B.},
 booktitle = {{Machine Learning and Interpretation in Neuroimaging, NIPS workshop}},
 doi = {10.1007/978-3-642-34713-9\_22},
 editor = {Gearg Langs and Irina Rish and Moritz Grosse-Wentrup and Brain Murphy},
 hal_id = {hal-00753132},
 hal_version = {v1},
 keywords = {fMRI ; statistical learning ; resting-state ; graphical models ; decomposition models ; sparsity},
 month = {December},
 pages = {172-177},
 pdf = {https://hal.archives-ouvertes.fr/hal-00753132/file/paper.pdf},
 publisher = {{Springer}},
 title = {{Statistical Learning for Resting-State fMRI: Successes and Challenges}},
 url = {https://hal.archives-ouvertes.fr/hal-00753132},
 year = {2011}
}

@inproceedings{gramfort:hal-00704875,
 address = {Granada, Spain},
 author = {Gramfort, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{NIPS 2011 MLINI Workshop}},
 doi = {10.1007/978-3-642-34713-9\_2},
 editor = {Springer},
 hal_id = {hal-00704875},
 hal_version = {v1},
 keywords = {neuroimaging ; sparse ; recovery ; feature identification ; statistics},
 month = {December},
 pages = {9-16},
 pdf = {https://hal.inria.fr/hal-00704875/file/paper.pdf},
 series = {Machine Learning and Interpretation in Neuroimaging},
 title = {{Beyond brain reading: randomized sparsity and clustering to simultaneously predict and identify}},
 url = {https://hal.inria.fr/hal-00704875},
 year = {2011}
}

@article{pedregosa:hal-00650905,
 author = {Pedregosa, F., Varoquaux, G., Gramfort, A., Michel, V., Thirion, B., Grisel, O., Blondel, M., Prettenhofer, P., Weiss, R., Dubourg, V., Vanderplas, J., Passos, A., Cournapeau, D., Brucher, M., Perrot, M. and Duchesnay, {.},
 hal_id = {hal-00650905},
 hal_version = {v2},
 journal = {{Journal of Machine Learning Research}},
 keywords = {Python ; supervised learning ; unsupervised learning ; model selection},
 month = {October},
 pdf = {https://hal.inria.fr/hal-00650905/file/pedregosa11a.pdf},
 publisher = {{Microtome Publishing}},
 title = {{Scikit-learn: Machine Learning in Python}},
 url = {https://hal.inria.fr/hal-00650905},
 year = {2011}
}

@inproceedings{fritsch:inria-00626857,
 address = {Toronto, Canada},
 author = {Fritsch, V., Varoquaux, G., Benjamin, T., Poline, J. and Thirion, B.},
 booktitle = {{Medical Image Computing and Computer Assisted Intervention}},
 doi = {10.1007/978-3-642-23626-6\_33},
 hal_id = {inria-00626857},
 hal_version = {v1},
 keywords = {fMRI ; Outlier detection ; Minimum Covariance Determinant ; regularization ; robust estimation ; neuroimaging ; fMRI.},
 month = {September},
 number = {LNCS 6893},
 pages = {pp. 264-271},
 pdf = {https://hal.inria.fr/inria-00626857/file/outliers.pdf},
 publisher = {{Springer-Verlag}},
 series = {14th International Conference, Toronto, Canada, September 18-22, 2011},
 title = {{Detecting Outlying Subjects in High-Dimensional Neuroimaging Datasets with Regularized Minimum Covariance Determinant}},
 url = {https://hal.inria.fr/inria-00626857},
 volume = {Part III},
 year = {2011}
}

@inproceedings{ng:inria-00627523,
 address = {Toronto, Canada},
 author = {Ng, B., Rafeef, A., Varoquaux, G., Poline, J. and Thirion, B.},
 booktitle = {{Medical Image Computing and Computed Aided Intervention}},
 doi = {10.1007/978-3-642-23629-7\_35},
 editor = {Gabor Fichtinger and Anne Martel and Terry Peters},
 hal_id = {inria-00627523},
 hal_version = {v1},
 month = {September},
 pages = {285-292},
 pdf = {https://hal.inria.fr/inria-00627523/file/camera_ready.pdf},
 publisher = {{Springer-Verlag}},
 series = {2011},
 title = {{Connectivity-informed fMRI Activation Detection}},
 url = {https://hal.inria.fr/inria-00627523},
 volume = {6892},
 year = {2011}
}

@inproceedings{deligianni:inria-00627914,
 address = {Kaufbeuren, Germany},
 author = {Deligianni, F., Varoquaux, G., Thirion, B., Robinson, E., Sharp, D., Edwards, D. and Rueckert, D.},
 booktitle = {{Information Processing in Medical Imaging}},
 doi = {10.1007/978-3-642-22092-0\_25},
 hal_id = {inria-00627914},
 hal_version = {v1},
 keywords = {brain ; functional connectivity ; anatomical connectivity ; learning},
 month = {July},
 organization = {{G{\'a}bor Sz{\'e}kely, Horst Hahn}},
 pages = {296-307},
 pdf = {https://hal.inria.fr/inria-00627914/file/paper.pdf},
 publisher = {{Springer}},
 series = {Information Processing in Medical Imaging},
 title = {{A probabilistic framework to infer brain functional connectivity from anatomical connections}},
 url = {https://hal.inria.fr/inria-00627914},
 volume = {6801},
 year = {2011}
}

@inproceedings{varoquaux:inria-00588898,
 address = {Kaufbeuren, Germany},
 author = {Varoquaux, G., Gramfort, A., Pedregosa, F., Michel, V. and Thirion, B.},
 booktitle = {{Information Processing in Medical Imaging}},
 doi = {10.1007/978-3-642-22092-0\_46},
 hal_id = {inria-00588898},
 hal_version = {v2},
 keywords = {sparse models ; atlas ; resting state ; segmentation},
 month = {July},
 organization = {{G{\'a}bor Sz{\'e}kely, Horst Hahn}},
 pages = {562-573},
 pdf = {https://hal.inria.fr/inria-00588898/file/paper.pdf},
 publisher = {{Springer}},
 series = {Lecture Notes in Computer Science},
 title = {{Multi-subject dictionary learning to segment an atlas of brain spontaneous activity}},
 url = {https://hal.inria.fr/inria-00588898},
 volume = {6801},
 year = {2011}
}

@inproceedings{jenatton:hal-00643901,
 address = {Seoul, South Korea},
 author = {Jenatton, R., Gramfort, A., Michel, V., Obozinski, G., Bach, F. and Thirion, B.},
 booktitle = {{PRNI 2011 - IEEE International Workshop on Pattern Recognition in NeuroImaging}},
 doi = {10.1109/PRNI.2011.15},
 hal_id = {hal-00643901},
 hal_version = {v1},
 keywords = {brain reading ; structured sparsity ; convex optimization ; hierarchical models ; inter-subject validation},
 month = {May},
 publisher = {{IEEE}},
 title = {{Multi-scale Mining of fMRI Data with Hierarchical Structured Sparsity}},
 url = {https://hal.inria.fr/hal-00643901},
 year = {2011}
}

@article{michel:inria-00589201,
 author = {Michel, V., Gramfort, A., Varoquaux, G., Eger, E., Keribin, C. and Thirion, B.},
 doi = {10.1016/j.patcog.2011.04.006},
 hal_id = {inria-00589201},
 hal_version = {v1},
 journal = {{Pattern Recognition}},
 keywords = {fMRI ; brain reading ; prediction ; hierarchical clustering ; dimension reduction ; multi-scale analysis ; feature agglomeration},
 month = {April},
 pages = {epub ahead of print},
 pdf = {https://hal.inria.fr/inria-00589201/file/supervised_clustering_vm_review.pdf},
 publisher = {{Elsevier}},
 title = {{A supervised clustering approach for fMRI-based inference of brain states}},
 url = {https://hal.inria.fr/inria-00589201},
 year = {2011}
}

@article{michel:inria-00609365,
 author = {Michel, V., Eger, E., Keribin, C. and Thirion, B.},
 doi = {10.1155/2011/350838},
 hal_id = {inria-00609365},
 hal_version = {v1},
 journal = {{International Journal of Biomedical Imaging}},
 month = {April},
 pages = {epub},
 pdf = {https://hal.inria.fr/inria-00609365/file/vm_mlmi_mcbr.pdf},
 publisher = {{Hindawi Publishing Corporation}},
 title = {{Multiclass Sparse Bayesian Regression for fMRI-Based Prediction}},
 url = {https://hal.inria.fr/inria-00609365},
 volume = {2011},
 year = {2011}
}

@article{michel:inria-00563468,
 author = {Michel, V., Gramfort, A., Varoquaux, G., Eger, E. and Thirion, B.},
 doi = {10.1109/TMI.2011.2113378},
 hal_id = {inria-00563468},
 hal_version = {v1},
 journal = {{IEEE Transactions on Medical Imaging}},
 month = {February},
 number = {7},
 pages = {1328 - 1340},
 pdf = {https://hal.inria.fr/inria-00563468/file/arxiv_version.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 title = {{Total variation regularization for fMRI-based prediction of behaviour.}},
 url = {https://hal.inria.fr/inria-00563468},
 volume = {30},
 year = {2011}
}

@inproceedings{varoquaux:inria-00512451,
 address = {Vancouver, Canada},
 author = {Varoquaux, G., Gramfort, A., Poline, J. and Thirion, B.},
 booktitle = {{Advances in Neural Information Processing Systems}},
 editor = {Richard Zemel and John Shawe-Taylor},
 hal_id = {inria-00512451},
 hal_version = {v4},
 keywords = {functional connectivity ; covariance selection ; neuroscience},
 month = {December},
 organization = {{John Lafferty}},
 pdf = {https://hal.inria.fr/inria-00512451/file/paper.pdf},
 series = {Advances in Neural Information Processing Systems},
 title = {{Brain covariance selection: better individual functional connectivity models using population prior}},
 url = {https://hal.inria.fr/inria-00512451},
 year = {2010}
}

@article{cottereau:inria-00526019,
 author = {Cottereau, B., Lorenceau, J., Gramfort, A., Clerc, M., Thirion, B. and Baillet, S.},
 doi = {10.1016/j.neuroimage.2010.10.004},
 hal_id = {inria-00526019},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {October},
 number = {3},
 pages = {1919--1929},
 publisher = {{Elsevier}},
 title = {{Phase delays within visual cortex shape the response to steady-state visual stimulation.}},
 url = {https://hal.inria.fr/inria-00526019},
 volume = {54},
 year = {2010}
}

@inproceedings{michel:hal-00505057,
 address = {Beijing, China},
 author = {Michel, V., Eger, E., Keribin, C. and Thirion, B.},
 booktitle = {{International Workshop on Machine Learning in Medical Imaging (MLMI) In conjunction with MICCAI 2010}},
 doi = {10.1007/978-3-642-15948-0},
 hal_id = {hal-00505057},
 hal_version = {v1},
 month = {September},
 pages = {50-58},
 pdf = {https://hal.archives-ouvertes.fr/hal-00505057/file/vm_mlmi.pdf},
 series = {LNCS},
 title = {{Multi-Class Sparse Bayesian Regression for Neuroimaging data analysis}},
 url = {https://hal.archives-ouvertes.fr/hal-00505057},
 volume = {6357},
 year = {2010}
}

@inproceedings{varoquaux:inria-00512417,
 address = {Beijing, China},
 author = {Varoquaux, G., Baronnet, F., Kleinschmidt, A., Fillard, P. and Thirion, B.},
 booktitle = {{Medical Image Computing and Computer Added Intervention}},
 doi = {10.1007/978-3-642-15705-9\_25},
 editor = {Dinggang Shen and Alejandro Frangi and Gabor Szekely},
 hal_id = {inria-00512417},
 hal_version = {v1},
 keywords = {functional connectivity ; covariance matrix ; group inference ; fmri ; statistics},
 month = {September},
 organization = {{Tianzi Jiang}},
 pdf = {https://hal.inria.fr/inria-00512417/file/paper.pdf},
 publisher = {{Springer}},
 series = {Lecture Notes in Computer Science},
 title = {{Detection of brain functional-connectivity difference in post-stroke patients using group-level covariance modeling}},
 url = {https://hal.inria.fr/inria-00512417},
 year = {2010}
}

@inproceedings{thirion:inria-00521909,
 address = {Beijing, China},
 author = {Thirion, B., Varoquaux, G. and Poline, J.},
 booktitle = {{13th International Conference on Medical Image Computing and Computer Assisted Intervention}},
 hal_id = {inria-00521909},
 hal_version = {v1},
 month = {September},
 pdf = {https://hal.inria.fr/inria-00521909/file/bsa_miccai.pdf},
 title = {{Accurate Definition of Brain Regions Position Through the Functional Landmark Approach}},
 url = {https://hal.inria.fr/inria-00521909},
 year = {2010}
}

@inproceedings{poline:inria-00523236,
 address = {Paris, France},
 author = {Poline, J., Lalanne, C., Tenenhaus, A., Duchesnay, E., Thirion, B. and Frouin, V.},
 booktitle = {{19th International Conference on Computational Statistics}},
 editor = {Lechevallier and Yves and Saporta and Gilbert},
 hal_id = {inria-00523236},
 hal_version = {v1},
 month = {August},
 pdf = {https://hal.inria.fr/inria-00523236/file/229_paper.pdf},
 series = {Proceedings of COMPSTAT'2010},
 title = {{Imaging genetics: bio-informatics and bio-statistics challenges}},
 url = {https://hal.inria.fr/inria-00523236},
 year = {2010}
}

@inproceedings{thirion:inria-00521908,
 address = {Paris, France},
 author = {Thirion, B., Tucholka, A. and Poline, J.},
 booktitle = {{19th International Conference on Computational Statistics}},
 editor = {Lechevallier and Yves and Saporta and Gilbert},
 hal_id = {inria-00521908},
 hal_version = {v1},
 keywords = {Functional neuroimaging ; parcellation ; statistical inference ; non-parametric methods ; random-effects ; cortical surface},
 month = {August},
 pages = {565--572},
 pdf = {https://hal.inria.fr/inria-00521908/file/PAPER285.pdf},
 publisher = {{Spinger Verlag}},
 series = {Proceedings of COMPSTAT'2010},
 title = {{Parcellation Schemes and Statistical Tests to Detect Active Regions on the Cortical Surface}},
 url = {https://hal.inria.fr/inria-00521908},
 year = {2010}
}

@inproceedings{genuer:hal-00944114,
 address = {Paris, France},
 author = {Genuer, R., Michel, V., Eger, E. and Thirion, B.},
 booktitle = {{COMPSTAT 2010 - 19th International Conference on Computational Statistics}},
 hal_id = {hal-00944114},
 hal_version = {v1},
 month = {August},
 pages = {1071-1078},
 title = {{Random Forests based feature selection for decoding fMRI data}},
 url = {https://hal.inria.fr/hal-00944114},
 year = {2010}
}

@inproceedings{michel:hal-00504095,
 address = {Istanbul, Turkey},
 author = {Michel, V., Gramfort, A., Varoquaux, G. and Thirion, B.},
 booktitle = {{1st ICPR Workshop on Brain Decoding - Pattern recognition challenges in neuroimaging - 20th International Conference on Pattern Recognition}},
 doi = {10.1109/WBD.2010.13},
 hal_id = {hal-00504095},
 hal_version = {v1},
 keywords = {fMRI ; regression ; regularization ; Total Variation ; spatial structure},
 month = {August},
 pages = {9-12},
 pdf = {https://hal.archives-ouvertes.fr/hal-00504095/file/icpr_2010_tv.pdf},
 publisher = {{IEEE Computer Society}},
 title = {{Total Variation regularization enhances regression-based brain activity prediction}},
 url = {https://hal.archives-ouvertes.fr/hal-00504095},
 volume = {0},
 year = {2010}
}

@inproceedings{michel:hal-00504094,
 address = {San Francisco, United States},
 author = {Michel, V., Eger, E., Keribin, C., Poline, J. and Thirion, B.},
 booktitle = {{Workshop on Mathematical Methods in Biomedical Image Analysis - IEEE Conference on Computer Vision and Pattern Recognition}},
 hal_id = {hal-00504094},
 hal_version = {v1},
 keywords = {fMRI ; clustering ; classification ; brain-reading ; statistical learning},
 month = {June},
 pages = {08},
 pdf = {https://hal.archives-ouvertes.fr/hal-00504094/file/mmbia.pdf},
 title = {{A supervised clustering approach for extracting predictive information from brain activation images}},
 url = {https://hal.archives-ouvertes.fr/hal-00504094},
 year = {2010}
}

@article{varoquaux:hal-00489507,
 author = {Varoquaux, G., Sadaghiani, S., Pinel, P., Kleinschmidt, A., Poline, J. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2010.02.010},
 hal_id = {hal-00489507},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {fMRI ; ICA ; CCA ; group analysis ; resting-state},
 month = {May},
 number = {1},
 pages = {288-99},
 pdf = {https://hal.archives-ouvertes.fr/hal-00489507/file/paper.pdf},
 publisher = {{Elsevier}},
 title = {{A group model for stable multi-subject ICA on fMRI datasets.}},
 url = {https://hal.archives-ouvertes.fr/hal-00489507},
 volume = {51},
 year = {2010}
}

@inproceedings{varoquaux:hal-00489506,
 address = {Rotterdam, Netherlands},
 author = {Varoquaux, G., Keller, M., Poline, J., Ciuciu, P. and Thirion, B.},
 booktitle = {{Biomedical Imaging, IEEE International Symposium on}},
 hal_id = {hal-00489506},
 hal_version = {v1},
 keywords = {ICA ; fMRI ; ROC ; sparse models},
 month = {April},
 pages = {1177},
 pdf = {https://hal.archives-ouvertes.fr/hal-00489506/file/paper.pdf},
 publisher = {{IEEE}},
 title = {{ICA-based sparse feature recovery from fMRI datasets}},
 url = {https://hal.archives-ouvertes.fr/hal-00489506},
 year = {2010}
}

@article{guevara:inria-00541944,
 author = {Guevara, P., Poupon, C., Rivi{\`e}re, D., Cointepas, Y., Marrakchi, L., Descoteaux, M., Fillard, P., Thirion, B. and Mangin, J.},
 hal_id = {inria-00541944},
 hal_version = {v1},
 journal = {{Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention}},
 number = {Pt 1},
 pages = {550-7},
 publisher = {{Springer}},
 title = {{Inference of a HARDI fiber bundle atlas using a two-level clustering strategy.}},
 url = {https://hal.inria.fr/inria-00541944},
 volume = {13},
 year = {2010}
}

@inproceedings{cecchi:hal-00776664,
 address = {Vancouver, Canada},
 author = {Cecchi, G., Rish, I., Thyreau, B., Thirion, B., Plaze, M., Martinot, J., Palli{\`e}re-Martinot, M. and Poline, J.},
 booktitle = {{Neural Information processing Systems}},
 hal_id = {hal-00776664},
 hal_version = {v1},
 month = {December},
 title = {{Discriminative Network Models of Schizophrenia}},
 url = {https://hal.inria.fr/hal-00776664},
 year = {2009}
}

@article{lebreton:hal-00504100,
 author = {Lebreton, M., Jorge, S., Michel, V., Thirion, B. and Pessiglione, M.},
 doi = {10.1016/j.neuron.2009.09.040},
 hal_id = {hal-00504100},
 hal_version = {v1},
 journal = {{Neuron}},
 month = {November},
 number = {3},
 pages = {431-9},
 publisher = {{Elsevier}},
 title = {{An automatic valuation system in the human brain: evidence from functional neuroimaging.}},
 url = {https://hal.archives-ouvertes.fr/hal-00504100},
 volume = {64},
 year = {2009}
}

@article{eger:hal-00504099,
 author = {Eger, E., Michel, V., Thirion, B., Amadon, A., Dehaene, S. and Kleinschmidt, A.},
 doi = {10.1016/j.cub.2009.08.047},
 hal_id = {hal-00504099},
 hal_version = {v1},
 journal = {{Current Biology - CB}},
 month = {October},
 number = {19},
 pages = {1608-15},
 publisher = {{Elsevier}},
 title = {{Deciphering cortical number coding from human brain activity patterns.}},
 url = {https://hal.archives-ouvertes.fr/hal-00504099},
 volume = {19},
 year = {2009}
}

@inproceedings{tucholka:hal-00776637,
 address = {Londres, United Kingdom},
 author = {Tucholka, A., Keller, M., Poline, J., Roche, A. and Thirion, B.},
 booktitle = {{MICCAI 2009 Functional NeuroImaging Workshop}},
 hal_id = {hal-00776637},
 hal_version = {v1},
 month = {September},
 organization = {{Bertrand Thirion, Alexis Roche, Philippe Ciuciu}},
 pdf = {https://hal.inria.fr/hal-00776637/file/tucholkaMICCAI09.pdf},
 title = {{Surface-based versus volume-based fMRI group analysis: a case study}},
 url = {https://hal.inria.fr/hal-00776637},
 year = {2009}
}

@inproceedings{varoquaux:hal-00435262,
 address = {London, United Kingdom},
 author = {Varoquaux, G., Sadaghiani, S., Poline, J. and Thirion, B.},
 booktitle = {{Medical Image Computing and Computer Aided Intervention}},
 hal_id = {hal-00435262},
 hal_version = {v1},
 keywords = {fMRI ; ICA ; blind source separation ; cross-validation ; resting-state},
 month = {September},
 pages = {1},
 pdf = {https://hal.archives-ouvertes.fr/hal-00435262/file/paper.pdf},
 title = {{CanICA: Model-based extraction of reproducible group-level ICA patterns from fMRI time series}},
 url = {https://hal.archives-ouvertes.fr/hal-00435262},
 year = {2009}
}

@inproceedings{michel:hal-00504093,
 address = {London, United Kingdom},
 author = {Michel, V., Eger, E., Keribin, C. and Thirion, B.},
 booktitle = {{MICCAI 2009: fMRI data analysis workshop - Medical Image Computing and Computer Aided Intervention}},
 hal_id = {hal-00504093},
 hal_version = {v1},
 keywords = {fMRI ; classification ; brain-reading ; sparse regression ; variational bayes},
 month = {September},
 pages = {1},
 pdf = {https://hal.archives-ouvertes.fr/hal-00504093/file/WM_Final.pdf},
 title = {{Adaptive multi-class Bayesian sparse regression - An application to brain activity classification}},
 url = {https://hal.archives-ouvertes.fr/hal-00504093},
 year = {2009}
}

@phdthesis{thirion:tel-00438202,
 author = {Thirion, B.},
 hal_id = {tel-00438202},
 hal_version = {v1},
 keywords = {neuroimagerie ; mod{\'e}lisation ; statistique},
 month = {July},
 pdf = {https://tel.archives-ouvertes.fr/tel-00438202/file/HDR.pdf},
 school = {{{\'E}cole normale sup{\'e}rieure de Cachan - ENS Cachan}},
 title = {{Structural and probabilistic methods for group analysis in functional neuroimaging}},
 type = {Habilitation {\`a} diriger des recherches},
 url = {https://tel.archives-ouvertes.fr/tel-00438202},
 year = {2009}
}

@article{knops:hal-00504101,
 author = {Knops, A., Thirion, B., Hubbard, E., Michel, V. and Dehaene, S.},
 doi = {10.1126/science.1171599},
 hal_id = {hal-00504101},
 hal_version = {v1},
 journal = {{Science}},
 month = {June},
 number = {5934},
 pages = {1583-5},
 publisher = {{American Association for the Advancement of Science}},
 title = {{Recruitment of an area involved in eye movements during mental arithmetic.}},
 url = {https://hal.archives-ouvertes.fr/hal-00504101},
 volume = {324},
 year = {2009}
}

@article{makni:cea-00333624,
 author = {Makni, S., Idier, J., Vincent, T., Thirion, B., Dehaene-Lambertz, G. and Ciuciu, P.},
 doi = {10.1016/j.neuroimage.2008.02.017},
 hal_id = {cea-00333624},
 hal_version = {v1},
 journal = {{NeuroImage}},
 keywords = {brain activity ; MCMC ; Bayesian inference ; fMRI},
 month = {July},
 number = {3},
 pages = {941-69},
 pdf = {https://hal-cea.archives-ouvertes.fr/cea-00333624/file/finalSMakni.pdf},
 publisher = {{Elsevier}},
 title = {{A fully Bayesian approach to the parcel-based detection-estimation of brain activity in fMRI.}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-00333624},
 volume = {41},
 year = {2008}
}

@inproceedings{cottereau:inria-00423373,
 address = {Melbourne, Australia},
 author = {Cottereau, B., Gramfort, A., Lorenceau, J., Thirion, B., Clerc, M. and Baillet, S.},
 booktitle = {{14th Human Brain Mapping International Conference}},
 hal_id = {inria-00423373},
 hal_version = {v1},
 keywords = {MEG ; retinotopy},
 month = {June},
 title = {{Fast retinotopic mapping of visual fields using MEG}},
 url = {https://hal.inria.fr/inria-00423373},
 year = {2008}
}

@inproceedings{michel:hal-00504092,
 address = {Paris, France},
 author = {Michel, V., Damon, C. and Thirion, B.},
 booktitle = {{2008 5th IEEE international symposium on biomedical imaging: From nano to macro}},
 doi = {10.1109/ISBI.2008.4541065},
 hal_id = {hal-00504092},
 hal_version = {v1},
 keywords = {Features selection ; Mutual information ; Brain reading ; Classification ; fMRI},
 month = {May},
 pages = {592 - 595},
 pdf = {https://hal.archives-ouvertes.fr/hal-00504092/file/Mutual_Information-based_feature_selection_enhances_fMRI_brain_activity_classification_-_2008.pdf},
 title = {{Mutual information-based feature selection enhances fMRI brain activity classification}},
 url = {https://hal.archives-ouvertes.fr/hal-00504092},
 year = {2008}
}

@article{tucholka:inria-00502805,
 author = {Tucholka, A., Thirion, B., Perrot, M., Pinel, P., Mangin, J. and Poline, J.},
 hal_id = {inria-00502805},
 hal_version = {v1},
 journal = {{Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention}},
 keywords = {Probabilistic model ; parcellation ; cortical models ; gyri ; brain function ; clustering ; model selection ; brain surface},
 number = {Pt 2},
 pages = {399-406},
 publisher = {{Springer}},
 title = {{Probabilistic anatomo-functional parcellation of the cortex: how many regions?}},
 url = {https://hal.inria.fr/inria-00502805},
 volume = {11},
 year = {2008}
}

@article{perrin:hal-00349646,
 author = {Perrin, M., Cointepas, Y., Cachia, A., Poupon, C., Thirion, B., Rivi{\`e}re, D., Cathier, P., El Kouby, V., Constantinesco, A., Le Bihan, D. and Mangin, J.},
 doi = {10.1155/2008/368406},
 hal_id = {hal-00349646},
 hal_version = {v1},
 journal = {{International Journal of Biomedical Imaging}},
 pages = {368406},
 publisher = {{Hindawi Publishing Corporation}},
 title = {{Connectivity-Based Parcellation of the Cortical Mantle Using q-Ball Diffusion Imaging}},
 url = {https://hal.archives-ouvertes.fr/hal-00349646},
 volume = {2008},
 year = {2008}
}

@article{roche:cea-00333625,
 author = {Roche, A., M{\'e}riaux, S., Keller, M. and Thirion, B.},
 doi = {10.1016/j.neuroimage.2007.06.043},
 hal_id = {cea-00333625},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {November},
 number = {3},
 pages = {501-10},
 publisher = {{Elsevier}},
 title = {{Mixed-effect statistics for group analysis in fMRI: a nonparametric maximum likelihood approach.}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-00333625},
 volume = {38},
 year = {2007}
}

@article{thirion:cea-00333747,
 author = {Thirion, B., Pinel, P., Tucholka, A., Roche, A., Ciuciu, P., Mangin, J. and Poline, J.},
 doi = {10.1109/TMI.2007.903226},
 hal_id = {cea-00333747},
 hal_version = {v1},
 journal = {{IEEE Transactions on Medical Imaging}},
 month = {September},
 number = {9},
 pages = {1256-69},
 pdf = {https://hal-cea.archives-ouvertes.fr/cea-00333747/file/TMI-2007-0195-R1.pdf},
 publisher = {{Institute of Electrical and Electronics Engineers}},
 title = {{Structural analysis of fMRI data revisited: improving the sensitivity and reliability of fMRI group studies.}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-00333747},
 volume = {26},
 year = {2007}
}

@article{thirion:cea-00371089,
 author = {Thirion, B., Pinel, P., M{\'e}riaux, S., Roche, A., Dehaene, S. and Poline, J.},
 doi = {10.1016/j.neuroimage.2006.11.054},
 hal_id = {cea-00371089},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {March},
 number = {1},
 pages = {105-20},
 pdf = {https://hal-cea.archives-ouvertes.fr/cea-00371089/file/Localizer.pdf},
 publisher = {{Elsevier}},
 title = {{Analysis of a large fMRI cohort: Statistical and methodological issues for group analyses.}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-00371089},
 volume = {35},
 year = {2007}
}

@article{pinel:hal-00784462,
 author = {Pinel, P., Thirion, B., Meriaux, S., Jobert, A., Serres, J., Le Bihan, D., Poline, J. and Dehaene, S.},
 doi = {10.1186/1471-2202-8-91},
 hal_id = {hal-00784462},
 hal_version = {v1},
 journal = {{BMC Neuroscience}},
 number = {1},
 pages = {91},
 pdf = {https://hal.inria.fr/hal-00784462/file/1471-2202-8-91.pdf},
 publisher = {{BioMed Central}},
 title = {{Fast reproducible identification and large-scale databasing of individual functional cognitive networks}},
 url = {https://hal.inria.fr/hal-00784462},
 volume = {8},
 year = {2007}
}

@article{gramfort:inria-00502698,
 author = {Gramfort, A., Cottereau, B., Clerc, M., Thirion, B. and Baillet, S.},
 doi = {10.1109/IEMBS.2007.4353450},
 hal_id = {inria-00502698},
 hal_version = {v1},
 journal = {{Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference}},
 pages = {4945-8},
 publisher = {{Institute of Electrical and Electronics Engineers (IEEE)}},
 title = {{Challenging the estimation of cortical activity from MEG with simulated fMRI-constrained retinotopic maps.}},
 url = {https://hal.inria.fr/inria-00502698},
 volume = {2007},
 year = {2007}
}

@article{thirion:hal-00349668,
 author = {Thirion, B., Duchesnay, E., Hubbard, E., Dubois, J., Poline, J., Le Bihan, D. and Dehaene, S.},
 doi = {10.1016/j.neuroimage.2006.06.062},
 hal_id = {hal-00349668},
 hal_version = {v1},
 journal = {{NeuroImage}},
 month = {December},
 number = {4},
 pages = {1104-16},
 publisher = {{Elsevier}},
 title = {{Inverse retinotopy: inferring the visual content of images from brain activation patterns.}},
 url = {https://hal.archives-ouvertes.fr/hal-00349668},
 volume = {33},
 year = {2006}
}

@article{meriaux:cea-00333698,
 author = {M{\'e}riaux, S., Roche, A., Dehaene-Lambertz, G., Thirion, B. and Poline, J.},
 doi = {10.1002/hbm.20251},
 hal_id = {cea-00333698},
 hal_version = {v1},
 journal = {{Human Brain Mapping}},
 month = {May},
 number = {5},
 pages = {402-10},
 publisher = {{Wiley}},
 title = {{Combined permutation test and mixed-effect model for group average analysis in fMRI.}},
 url = {https://hal-cea.archives-ouvertes.fr/cea-00333698},
 volume = {27},
 year = {2006}
}

@techreport{wotawa:inria-00070536,
 author = {Wotawa, N., Thirion, B., Castet, E., Anton, J. and Faugeras, O.},
 hal_id = {inria-00070536},
 hal_version = {v1},
 institution = {{INRIA}},
 keywords = {FMRI ; VISUAL AREAS ; RETINOTOPY ; MAPPING ; HUMAN},
 number = {RR-5472},
 pages = {65},
 pdf = {https://hal.inria.fr/inria-00070536/file/RR-5472.pdf},
 title = {{Human Retinotopic Mapping Using fMRI}},
 type = {Research Report},
 url = {https://hal.inria.fr/inria-00070536},
 year = {2006}
}

@techreport{faugeras:inria-00070790,
 author = {Faugeras, O., Adde, G., Charpiat, G., Chefd'Hotel, C., Clerc, M., Deneux, T., Deriche, R., Hermosillo, G., Keriven, R., Kornprobst, P., Kybic, J., Lenglet, C., Lopez-Perez, L., Papadopoulo, T., Pons, J., Segonne, F., Thirion, B., Tschumperl{\'e}, D., Vi{\'e}ville, T. and Wotawa, N.},
 hal_id = {inria-00070790},
 hal_version = {v1},
 institution = {{INRIA}},
 keywords = {FMRI ; DT-MRI ; MAXWELL EQUATIONS ; INVERSE PROBLEMS ; SEGMENTATION ; LEVEL SETS ; RIEMANNIAN SPACES ; PARTIAL DIFFERENTIAL EQUATIONS ; BROWNIAN MOTION ; DIFFUSION TENSOR ; LIE GROUPS ; EIKONAL EQUATION ; TRACTOGRAPHY ; MUTUAL INFORMATION ; INFORMATION THEORY ; KERNEL PCA ; INFORMATION BOTTLENECK ; MEG ; EEG ; RETINOTOPY ; LAPLACE-BELTRAMI OPERATOR ; SHAPE TOPOLOGIES ; HAUSDORFF DISTANCE ; MEAN SHAPE ; COVARIANCE OF SHAPES},
 month = {May},
 number = {RR-5202},
 pages = {22},
 pdf = {https://hal.inria.fr/inria-00070790/file/RR-5202.pdf},
 title = {{Variational, Geometric and Statistical Methods for Modeling Brain Anatomy and Function}},
 url = {https://hal.inria.fr/inria-00070790},
 year = {2004}
}

@phdthesis{thirion:tel-00457460,
 author = {Thirion, B.},
 hal_id = {tel-00457460},
 hal_version = {v1},
 keywords = {IRM fonctionnelle ; Neuroimagerie ; Mod{\'e}lisation ; Dynamique ; Entropie ; M{\'e}thodes {\`a} noyau ; R{\'e}duction de dimension ; Mod{\`e}les {\`a} {\'e}tat},
 month = {October},
 pdf = {https://pastel.archives-ouvertes.fr/tel-00457460/file/Thirion.pdf},
 school = {{T{\'e}l{\'e}com ParisTech}},
 title = {{fMRI data analysis : statistics, information and dynamics}},
 type = {Theses},
 url = {https://pastel.archives-ouvertes.fr/tel-00457460},
 year = {2003}
}

@techreport{thirion:inria-00072408,
 author = {Thirion, B. and Faugeras, O.},
 hal_id = {inria-00072408},
 hal_version = {v1},
 institution = {{INRIA}},
 keywords = {ACTIVATION MAPS ; ROBUST FILTERING ; FUZZY C-MEANS ; STATISTICAL THRESHOLDS ; MARKOV CHAIN ; MUTUAL INFORMATION ; FMRI ; ANOVA MODELS},
 month = {June},
 number = {RR-4213},
 pdf = {https://hal.inria.fr/inria-00072408/file/RR-4213.pdf},
 title = {{Activation Detection and Characterisation in Brain fMRI Sequences. Application to the study of monkey vision.}},
 url = {https://hal.inria.fr/inria-00072408},
 year = {2001}
}

@inproceedings{thirion:hal-01494119,
 address = {South Carolina, United States},
 author = {Thirion, B., Bascle, B. and Navab, N.},
 booktitle = {{CVPR}},
 doi = {10.1109/CVPR.2000.854845},
 hal_id = {hal-01494119},
 hal_version = {v1},
 month = {June},
 title = {{Fusion of Color, Shading and Boundary Information For Factory Pipe Segmentation}},
 url = {https://hal.inria.fr/hal-01494119},
 year = {2000}
}