Nicolas Honnorat

Research Scientist

SRI International


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Copyright 2020 Nicolas Honnorat

Publications

2020

• Honnorat N, Fama R, Müller-Oehring EM, Zahr NM, Pfefferbaum A, Sullivan EV, Pohl KM. Alcohol Use Disorder and its Comorbidity with HIV Infection Disrupt Anterior Cingulate Cortex Functional Connectivity. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging In press
• Honnorat N, Pfefferbaum A, Sullivan EV, Pohl KM. Deep Parametric Mixtures for Modeling the Functional Connectome. International Workshop on PRedictive Intelligence In MEdicine (PRIME) 2020: 133-143
• Honnorat N, Saranathan M, Pohl KM, Sullivan EV, Pfefferbaum A, Zahr NM. Alcohol use disorder alters functional connectivity of the thalamic nuclei. Alcoholism: Clinical and Experimental Research 44 (Issue S1): 140A
• Chanraud S, Abdallah M, Honnorat N, Saranathan M, Zahr NM, Sullivan EV. Fronto-cerebellar connectivity dynamics in alcoholism. Alcoholism: Clinical and Experimental Research 44 (Issue S1): 137A
• Zhao Q, Sullivan EV, Müller-Oehring EM, Honnorat N, Adeli E, Podhajsky S, Baker FC, Colrain IM, Prouty D, Tapert SF, Brown SA, Meloy MJ, Brumback T, Nagel BJ, Morales AM, Clark DB, Luna B, De Bellis MD, Voyvodic JT, Nooner KB, Pfefferbaum A, Pohl KM. Adolescent alcohol use disrupts functional neurodevelopment in sensation seeking girls. Addiction biology e12914 . In press

2019

• Honnorat N, Dong A, Meisenzahl-Lechner E, Koutsouleris N, Davatzikos C. Neuroanatomical Heterogeneity of Schizophrenia Revealed by Semi-supervised Machine Learning Methods. Schizophrenia Research 214:43 - 50
• Honnorat N, Adeli E, Zhao Q, Pfefferbaum A, Sullivan EV, Pohl KM. Covariance shrinkage for dynamic functional connectivity. Connectomics in NeuroImaging (CNI) 2019 32-41
  (oral presentation)
• Zhao Q, Adeli E, Honnorat N, Leng T, Pohl KM. Variational autoencoder for regression: Application to brain aging analysis. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2019 Part II:823-831
• Zhao Q, Honnorat N, Adeli E, Pfefferbaum A, Sullivan EV, Pohl KM. Variational Autoencoder with Truncated Mixture of Gaussians for Functional Connectivity Analysis. Information Processing in Medical Imaging (IPMI) 2019 Hong Kong
  
• Batta I, Honnorat N, Davatzikos C. Regularized topological data analysis for extraction of coherent brain regions. SPIE Medical Imaging 2019 San Diego
  (oral presentation)
• Sahoo D, Honnorat N, Davatzikos C. Sparse low-dimensional causal modeling for the analysis of brain function. SPIE Medical Imaging 2019 San Diego
  

2018

• Honnorat N, Adeli E, Pfefferbaum A, Sullivan EV, Pohl KM. Cardinality-constrained Functional Connectivity Estimation to Quantify Neurodevelopment. Symposium of the Stanford Neurosciences Institute 2018
• Eavani H, Habes M, Satterthwaite TD, An Y, Hsieh MK, Honnorat N, Erus G, Doshi J, Ferrucci L, Beason-Held LL, Resnick SM, Davatzikos C. Heterogeneity of structural and functional imaging patterns of advanced brain aging revealed via machine learning methods. Neurobiology of Aging 2018 71:41-50
• Yang Z, Gu S, Honnorat N, Linn K, Shinohara RT, Aselcioglu I, Bruce S, Oathes DJ, Davatzikos C, Satterthwaite TD, Bassett DS, Sheline YI. Network changes associated with transdiagnostic depressive symptom improvement following cognitive behavioral therapy in MDD and PTSD. Molecular Psychiatry 2018 12:2314-2323
• Sahoo D, Honnorat N, Davatzikos C. GPU accelerated extraction of sparse Granger causality patterns. IEEE International Symposium on Biomedical Imaging (ISBI) 2018 Washington, D.C. (oral presentation)
• Honnorat N, Davatzikos C. Extrapolated nonnegative decompositions for the analysis of functional connectivity. SPIE Medical Imaging 2018 Houston
  (oral presentation)
• Honnorat N, Davatzikos C. High resolution robust and smooth precision matrices to capture functional connectivity. SPIE Medical Imaging 2018 Houston poster

2017

• Honnorat N, Parker D, Tunc B, Davatzikos C, Verma R. Subject-specific Structural Parcellations Based on Randomized AB-divergences. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2017 poster
• Honnorat N, Davatzikos C. Riccati-regularized Precision Matrices for Neuroimaging. Information Processing in Medical Imaging (IPMI) 2017 275-86
  (oral presentation, top 15%)
• Honnorat N, Satterthwaite TD, Gur RE, Gur RC, Davatzikos C. sGraSP: A graph-based method for the derivation of subject-specific functional parcellations of the brain. Journal of neuroscience methods 2017 277:1-20
• Dong A, Toledo JB, Honnorat N, Doshi J, Varol E, Sotiras A, Wolk D, Trojanowski JQ, Davatzikos C. Heterogeneity of neuroanatomical patterns in prodromal Alzheimer's disease: links to cognition, progression and biomarkers. Brain 2017 140(3):735-747
• Peifer M, Honnorat N, Davatzikos C. Randomized voxel based morphometry for the study of cortical myelin group differences. Organization for Human Brain Mapping (OHBM) 2017 Vancouver
• Sahoo D, Honnorat N, Davatzikos C. GPU accelerated extraction of sparse Granger causality patterns. Organization for Human Brain Mapping (OHBM) 2017 Vancouver
• Honnorat N, Davatzikos C. Functional Stability of the Human Connectome Project Parcellation. Organization for Human Brain Mapping (OHBM) 2017 Vancouver poster
• Honnorat N, Satterthwaite T, Gur RC, Gur RE, Davatzikos C. Relations between local cortical geometry and functional homogeneity: a replication study. Organization for Human Brain Mapping (OHBM) 2017 Vancouver poster
• Eavani H., Habes M., An Y., Hsieh M.-K., Honnorat N, Erus G., Doshi J., Ferrucci L., Beason-Held L.L., Resnick S.M., Davatzikos C. Mapping the heterogeneity of neuroanatomy and functional connectivity deviation from typical brain aging: a pattern analysis and machine learning study. Alzheimer's and Dementia July 2017 13(7):P1464

2016

• *Gross P, *Honnorat N, *Varol E, Wallner M, Trappanese DM, Sharp TE, Starosta T, Duran JM, Koller S, Davatzikos C, Houser SR. Nuquantus: Machine learning software for the characterization and quantification of cell nuclei in complex immunofluorescent tissue images. Scientific reports 2016 6:23431
  *These authors contributed equally to this work.
• Dong A, Honnorat N, Gaonkar B, Davatzikos C. CHIMERA: Clustering of Heterogeneous Disease Effects via Distribution Matching of Imaging Patterns. IEEE transactions on medical imaging (TMI) 2016 35(2):612-21
• Sotiras A, Gaonkar B, Eavani H, Honnorat N, Varol E, Dong A, Davatzikos C. Chapter 10, Machine learning as a means toward precision diagnostics and prognostics. in Machine Learning and Medical Imaging. pp:299-334. Wu G, Shen D, Sabuncu M, editors. London, United Kingdom: Academic Press is an imprint of Elsevier 2016
• Eavani H, Honnorat N, An Y, Hsieh M, Erus G, Doshi J, Ferrucci L, Beason-Held L, Resnick S, Davatzikos C. Discovering heterogeneous patterns of advanced brain aging: a BLSA study. Organization for Human Brain Mapping (OHBM) 2016 Geneva  (oral presentation, top 1%) poster
• Honnorat N, Satterthwaite T, Gur RE, Gur RC, Davatzikos C. Reproducible and Efficient Computation of Functional Partial Correlations for the Entire Brain. Organization for Human Brain Mapping (OHBM) 2016 Geneva poster

2015

• Honnorat N, Eavani H, Satterthwaite TD, Gur RE, Gur RC, Davatzikos C. GraSP: geodesic Graph-based Segmentation with Shape Priors for the functional parcellation of the cortex. NeuroImage 2015 106:207-21
• Honnorat N, Eavani H, Satterthwaite T, Gur R, Gur R, Davatzikos C. Subject-specific Parcellations Detect Reduced Local Functional Coherence during Neuro Development. Organization for Human Brain Mapping (OHBM) 2015 Honolulu poster
• Honnorat N, Satterthwaite T, Vandekar S, Shinohara R, Gur R, Gur R, Davatzikos C. Correlation and Spatial Coherence of Functional Homogeneity, Cortical Curvature and Thickness. Organization for Human Brain Mapping (OHBM) 2015 Honolulu poster

2014

• Honnorat N, Eavani H, Satterthwaite T, Gur RE, Gur RC, Davatzikos C. Discrete functional parcellation of the cortex with clustering methods and MRF. Fourth Biennial Conference on Resting State-Brain Connectivity 2014 MIT, Boston poster
• Honnorat N, Eavani H, Satterthwaite T, Gur RE, Gur RC, Davatzikos C. Functional Parcellation of the Cortex from rs-fMRI with Graph-based Methods and shape priors. Organization for Human Brain Mapping (OHBM) 2014 Hamburg
  (oral presentation, top 1%) poster

2013

• Honnorat N, Eavani H, Satterthwaite TD, Davatzikos C. A Graph-based Brain Parcellation Method Extracting Sparse Networks. International Workshop on Pattern Recognition in Neuroimaging (PRNI) 2013 157-60

2012

• Le Borgne H, Honnorat N. Fast shared boosting for large-scale concept detection. Multimedia Tools and Applications 2012 60(2):389-402
• Honnorat N, Vaillant R, Paragios N. Graph-based Guide-wire Segmentation through Fusion of Contrast-enhanced and fluoroscopic Images. IEEE International Symposium on Biomedical Imaging (ISBI) 2012 948-51
  (oral presentation, top 20%)

2011

• Honnorat N, Vaillant R, Paragios N. Graph-based geometric-iconic guide-wire tracking. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2011 14(Pt 1):9-16
• Honnorat N, Vaillant R, Duncan JS, Paragios N. Curvilinear structures extraction in cluttered bioimaging data with discrete optimization methods. IEEE International Symposium on Biomedical Imaging (ISBI) 2011 1353-1357

2010

• Honnorat N, Vaillant R, Paragios N. Guide-wire extraction through perceptual organization of local segments in fluoroscopic images. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2010 13(Pt 3):440-8
• Honnorat N, Vaillant R, Paragios N. Robust guidewire segmentation through boosting, clustering and linear programming. IEEE International Symposium on Biomedical Imaging (ISBI) 2010 924-927
• Le Borgne H, Honnorat N. Fast shared boosting for large-scale concept detection. International Workshop on Content Based Multimedia Indexing (CBMI). 2010 1-6  (best paper award)

2009

• Honnorat N, Le Borgne H. Accélérer le boosting avec partage de caractéristiques. Proceedings of CORESA 2009. 2009 203-8

PhD Thesis