Diego Sona
Affiliated Researcher
Contacts
About
Diego Sona is a researcher at the Fondazione Bruno Kessler (FBK) in the Neuroinformatics Laboratory (NILab) and visiting scientist at the Istituto Italiano di Tecnologia (IIT) leading the Biomedical Imaging team in the Pattern Analysis and Computer Vision (PAVIS) department.
He received the Ph.D degree in Computer Science in 2002 from the University of Pisa with a thesis on modeling of artificial neural networks through formal methods. From 2002 to 2008 he served as researcher in the Adaptive Advisory Systems Group at the Istituto Trentino di Cultura, investigating machine learning models for structured data and contextual processing, with main application to information retrieval and text data management. In 2008 he moved to the Neuroinformatics Laboratory at FBK, studying multivariate pattern analysis methods for brain decoding and brain mapping from functional brain imaging. In 2010 he became tenured researcher at FBK. From 2008 to 2011 he has been guest researcher at the Center for Mind/Brain Sciences in the University of Trento. Since 2011 he joined as a visiting scientist the Pattern Analysis and Computer Vision department at the Istituto Italiano di Tecnologia leading the activities in biomedical imaging.
His research is on machine learning and pattern recognition methods, with application to various domains, like information retrieval, structured data analysis, computer vision, neuroimaging and biomedical imaging. The most significant recent research activity spans various automatic methods for animal phenotyping, ranging from video and signal analysis for social and non-social behavior understanding, to the investigation of corresponding neuronal correlates: from functional and structural brain imaging down to the analysis of meso-scale neuronal network populations.
He has co-authored more than 70 peer-reviewed publications, published in refereed journals and international conferences and served as reviewer for several international journals and conferences.
Projects
My main research interest has always been on machine learning and its application to real problems. Since some years now I am interested on the design of novel solutions allowing to investigate the multiple facets of behavioral phenotyping. This allows to explore many aspects of neuroscience and biology domains: from the phenotyping of social and non-social behaviors to the investigation of corresponding brain correlates, from the characterization of cells and neuronal network connectivity to the analysis of the manifestations of certain mental diseases (such as schizophrenia, autism, etc.), through structural and functional brain imaging. In this perspective, the research on biomedical data analysis currently carried out by my team can be seen as organized around three main research lines:
Funded Projects
- Autonomice
- Renvision
IIT Publications
- 2021
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DOI
Addressing signal alterations induced in CT images by deep learning processing: A preliminary phantom study
Physica Medica, vol. 83, pp. 88-100 -
DOI
AIforCOVID: Predicting the clinical outcomes in patients with COVID-19 applying AI to chest-X-rays. An Italian multicentre study
Medical Image Analysis, vol. 74 -
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Dynamic functional connectivity for the classification of multiple sclerosis phenotype: A hidden markov model approach
Proceedings - International Symposium on Biomedical Imaging, vol. 2021-April, pp. 559-562 -
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Investigating the spectral features of the brain meso-scale structure at rest
Human Brain Mapping, vol. 42, (no. 15), pp. 5113-5129 -
DOI
Multimodal segmentation of medical images with heavily missing data
BHI 2021 - 2021 IEEE EMBS International Conference on Biomedical and Health Informatics, Proceedings -
DOI
Multimodal Segmentation of Medical Images with Heavily Missing Data
IEEE EMBS International Conference on Biomedical and Health Informatics -
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Organ Segmentation with Recursive Data Augmentation for Deep Models
Lecture Notes in Computer Science, vol. 12661 LNCS, pp. 337-343 -
DOI
Structurally constrained effective brain connectivity
NeuroImage, vol. 239 - 2020
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A Stem-Based Dissection of Inferior Fronto-Occipital Fasciculus with A Deep Learning Model
Proceedings - International Symposium on Biomedical Imaging, vol. 2020-April, pp. 267-270 -
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A STEM-BASED DISSECTION OF INFERIOR FRONTO-OCCIPITAL FASCICULUS WITH A DEEP LEARNING MODEL
IEEE International Symposium on Biomedical Imaging -
DOI
Encoding brain networks through geodesic clustering of functional connectivity for multiple sclerosis classification
Proceedings - International Conference on Pattern Recognition, pp. 10106-10112 -
Encoding Brain Networks Through Geodesic Clustering of Functional Connectivity for Multiple Sclerosis Classification
25th International Conference on Pattern Recognition -
DOI
Geodesic Clustering of Positive Definite Matrices for Classification of Mental Disorder Using Brain Functional Connectivity
Proceedings of the International Joint Conference on Neural Networks -
DOI
Modeling a population of retinal ganglion cells with restricted Boltzmann machines
Scientific Reports, vol. 10, (no. 1) -
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Scanner Invariant Multiple Sclerosis Lesion Segmentation from MRI
Proceedings - International Symposium on Biomedical Imaging, vol. 2020-April, pp. 781-785 -
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Weakly supervised geodesic segmentation of Egyptian mummy CT scans
Proceedings - International Conference on Pattern Recognition, pp. 5565-5572 - 2019
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DOI
Analysis of dynamic brain connectivity through geodesic clustering
Lecture Notes in Computer Science, vol. 11752 LNCS, pp. 640-648 -
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Comparison of brain connectomes using geodesic distance on manifold: A twins study
Proceedings - International Symposium on Biomedical Imaging, vol. 2019-April, pp. 1797-1800 -
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Deep 2D encoder-decoder convolutional neural network for multiple sclerosis lesion segmentation in brain MRI
Lecture Notes in Computer Science, vol. 11383 LNCS, pp. 132-141 -
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Investigating the impact of genetic background on brain dynamic functional connectivity through machine learning: A twins study
2019 IEEE EMBS International Conference on Biomedical and Health Informatics, BHI 2019 - Proceedings -
DOI
Multi-branch convolutional neural network for multiple sclerosis lesion segmentation
NeuroImage, vol. 196, pp. 1-15 -
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MultiLink Analysis: Brain Network Comparison via Sparse Connectivity Analysis
Scientific Reports, vol. 9, (no. 1) -
DOI
Multiple organs segmentation in abdomen CT scans using a cascade of CNNs
Lecture Notes in Computer Science, vol. 11751 LNCS, pp. 509-516 -
DOI
Segmentation of Kidney and Tumor using Auxiliary Information
University of Minnesota Digital Conservancy - 2018
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A novel unsupervised analysis of electrophysiological signals reveals new sleep substages in mice
PLoS Biology, vol. 16, (no. 5) -
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Automatic segmentation of neurons from fluorescent microscopy imaging
Communications in Computer and Information Science, vol. 881, pp. 121-133 -
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Multiple Mice Tracking: Occlusions Disentanglement using a Gaussian Mixture Model
Proceedings - International Conference on Pattern Recognition, vol. 2018-August, pp. 2433-2437 -
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Unsupervised Detection of White Matter Fiber Bundles with Stochastic Neural Networks
Proceedings - International Conference on Image Processing, ICIP, pp. 3513-3517 - 2017
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3D dendrite tracing inspired by diffusion MRI tractography
BioImage Informatics Conference -
DOI
Atlas-free connectivity analysis driven by white matter structure
Proceedings - International Symposium on Biomedical Imaging, pp. 89-92 -
DOI
Case-control discrimination through effective brain connectivity
Proceedings - International Symposium on Biomedical Imaging, pp. 970-973 -
DOI
Data-driven study of mouse sleep-stages using Restricted Boltzmann Machines
Proceedings of the International Joint Conference on Neural Networks, vol. 2017-May, pp. 4549-4556 -
Effective Brain Connectivity based on Structural Prior
annual meeting of the organization for human brain mapping -
DOI
Segmentation of retinal ganglion cells from fluorescent microscopy imaging
BIOIMAGING 2017 - 4th International Conference on Bioimaging, Proceedings; Part of 10th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2017, vol. 2017-January, pp. 17-23 -
Sparse representation of the connectome for group discrimination: application to multiple sclerosis
annual meeting of the organization for human brain mapping -
DOI
Unsupervised Spike Sorting for Large-Scale, High-Density Multielectrode Arrays
Cell Reports, vol. 18, (no. 10), pp. 2521-2532 - 2016
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DOI
Effective brain connectivity through a constrained autoregressive model
Lecture Notes in Computer Science, vol. 9900 LNCS, pp. 140-147 -
Multiple Mice Tracking and Segmentation through SIFT Flow Analysis
23rd International Conference on Pattern Recognition, ICPR 2016, Cancún, Mexico, December 4-8, 2016, (no. Visual Observation and Analysis of Vertebrate And Insect Behavior Workshop) -
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Traces of human functional activity: Moment-to-moment fluctuations in fMRI data
Proceedings - International Symposium on Biomedical Imaging, vol. 2016-June, pp. 1307-1310 -
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Unsupervised mouse behavior analysis: A data-driven study of mice interactions
Proceedings - International Conference on Pattern Recognition, vol. 0, pp. 925-930 - 2015
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DOI
Automated multi-subject fiber clustering of mouse brain using dominant sets
Frontiers in Neuroinformatics, vol. 8, (no. JAN) -
DOI
Bridging the gap in connectomic studies: A particle filtering framework for estimating structural connectivity at network scale
Medical Image Analysis, vol. 21, (no. 1), pp. 1-14 -
DOI
Improving freak descriptor for image classification
Lecture Notes in Computer Science, vol. 9163, pp. 14-23 -
DOI
Kernel-based analysis of functional brain connectivity on Grassmann manifold
Lecture Notes in Computer Science, vol. 9351, pp. 604-611 -
DOI
Kernel-based classification for brain connectivity graphs on the Riemannian manifold of positive definite matrices
Proceedings - International Symposium on Biomedical Imaging, vol. 2015-July, pp. 42-45 -
Modelling Retinal Activity with Restricted Boltzmann Machines: a Study on the Inhibitory Circuitry
Computational and Systems Neuroscience 2015 -
New trends in image analysis and processing – ICIAP 2015 workshops: ICIAP 2015 international workshops BioFor, CTMR, RHEUMA, ISCA, MADiMa SBMI, and QoEM Genoa, Italy, september 7–8, 2015 proceedings
Lecture Notes in Computer Science, vol. 9281 -
DOI
Non-parametric temporal modeling of the hemodynamic response function via a liquid state machine
Neural Networks, vol. 70, pp. 61-73 -
Preface
Lecture Notes in Computer Science, vol. 9281, pp. V-VIII -
DOI
Sleep-stage scoring in mice: The influence of data pre-processing on a system's performance
Annual International Conference of the IEEE Engineering in Medicine and Biology - Proceedings, vol. 2015-November, pp. 598-601 - 2014
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DOI
Chronic and acute intranasal oxytocin produce divergent social effects in mice
Neuropsychopharmacology, vol. 39, (no. 5), pp. 1102-1114 -
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Describing the conformational landscape of small organic molecules through Gaussian mixtures in dihedral space
Journal of Chemical Theory and Computation, vol. 10, (no. 6), pp. 2557-2568 -
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Functional connectivity estimation over large networks at cellular resolution based on electrophysiological recordings and structural prior
Frontiers in Neuroanatomy, vol. 8, (no. NOV) -
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Group-wise functional community detection through joint Laplacian diagonalization
Lecture Notes in Computer Science, vol. 8674 LNCS, (no. PART 2), pp. 708-715 -
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Joint laplacian diagonalization for multi-modal brain community detection
Proceedings - 2014 International Workshop on Pattern Recognition in Neuroimaging, PRNI 2014 - 2013
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DOI
Automatic Visual Tracking and Social Behaviour Analysis with Multiple Mice
PLoS ONE, vol. 8, (no. 9) -
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Automatic White Matter Fiber Clustering Using Dominant Sets
Proceedings - 2013 3rd International Workshop on Pattern Recognition in Neuroimaging, PRNI 2013 -
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Dirichlet process mixtures of multinomials for data mining in mice behaviour analysis
Proceedings of the IEEE International Conference on Computer Vision, pp. 197-202 -
DOI
Neuronal network structural connectivity estimation by probabilistic features and graph heat kernels
Proceedings - International Symposium on Biomedical Imaging, pp. 1054-1057 -
Neuronal Network Structural Connectivity Estimation by Probabilistic Features and Graph Heat Kernels
IEEE 10th International Symposium on Biomedical Imaging, pp. 1054-1057 - 2012
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DOI
Automatic tractography analysis through sparse networks in case-control studies
Proceedings - 2012 2nd International Workshop on Pattern Recognition in NeuroImaging, PRNI 2012, pp. 77-80 -
Clustered subsampling for clinically informed diagnostic brain mapping
15th International Conference on Information Fusion, FUSION 2012, pp. 593-599 -
Fitting and simplification of mixtures for clustering conformational populations of small organic molecules
International Conference on Chemical and Biological Engineering -
Inner product tree for improved Orthogonal Matching Pursuit
Proceedings - International Conference on Pattern Recognition, pp. 429-432 -
DOI
Pairwise analysis for longitudinal fMRI studies
Lecture Notes in Computer Science, vol. 7263 LNAI, pp. 132-139 -
Segmentation and tracking of multiple interacting mice by temperature and shape information
Proceedings - International Conference on Pattern Recognition, pp. 2520-2523 -
Structural and functional identification of sub-networks in dissociated neuronal cultures: an automated multimodal analysis combining high density MEA and fluorescence imaging
8th International Meeting on Substrate-Integrated Microelectrode Arrays - 2011
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DOI
Learning BOLD response in fMRI by reservoir computing
Proceedings - International Workshop on Pattern Recognition in NeuroImaging, PRNI 2011, pp. 57-60 - 2010
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DOI
Feature rating by random subspaces for functional brain mapping
Lecture Notes in Computer Science, vol. 6334 LNAI, pp. 112-123 -
DOI
Multivariate brain mapping by random subspaces
Proceedings - International Conference on Pattern Recognition, pp. 2576-2579 - 2009
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DOI
Learning to Interpret Cognitive States from fMRI Brain Images
Frontiers in Artificial Intelligence and Applications, vol. 196, (no. 1), pp. 21-35 - 2008
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DOI
A relational cascade correlation for structured outputs
Proceedings of the International Joint Conference on Neural Networks, pp. 2799-2805 - 2007
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DOI
A recommender agent to support knowledge sharing in virtual enterprises
Agent and Web Service Technologies in Virtual Enterprises, pp. 115-134, Publisher: IGI Global -
DOI
Building quality-based views of the web
Lecture Notes in Computer Science, vol. 4733 LNAI, pp. 519-530 -
DOI
Inferring cognition from fMRI brain images
Lecture Notes in Computer Science, vol. 4669 LNCS, (no. PART 2), pp. 869-878 - 2006
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Automatic generation of metadata for learning objects
Proceedings - Sixth International Conference on Advanced Learning Technologies, ICALT 2006, vol. 2006, pp. 275-279 -
DOI
Regularization for unsupervised classification on taxonomies
Lecture Notes in Computer Science, vol. 4203 LNAI, pp. 691-696 - 2005
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DOI
Clustering documents into a web directory for bootstrapping a supervised classification
Data and Knowledge Engineering, vol. 54, (no. 3), pp. 301-325 -
DOI
Helping physicians to organize guidelines within conceptual hierarchies
Lecture Notes in Computer Science, vol. 3581 LNAI, pp. 141-145 -
Hierarchical Dirichlet model for document classification
ICML 2005 - Proceedings of the 22nd International Conference on Machine Learning, pp. 929-936 - 2004
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DOI
Contextual processing of structured data by recursive cascade correlation
IEEE Transactions on Neural Networks, vol. 15, (no. 6), pp. 1396-1410 - 2003
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Bootstrapping for hierarchical document classification
International Conference on Information and Knowledge Management, Proceedings, pp. 295-302 -
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Clustering documents in a web directory
Proceedings of the Interntational Workshop on Web Information and Data Management, pp. 66-73 -
DOI
Formal determination of context in contextual recursive cascade correlation networks
Lecture Notes in Computer Science, vol. 2714, pp. 173-180 - 2002
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Recursive cascade correlation for contextual processing of structured data
Proceedings of the International Joint Conference on Neural Networks, vol. 1, pp. 268-273 - 2001
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A neural abstract machine
Journal of Universal Computer Science, vol. 7, (no. 11), pp. 1006-1023 - 2000
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DOI
Bi-causal recurrent cascade correlation
Proceedings of the International Joint Conference on Neural Networks, vol. 3, pp. 3-8 -
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Discriminant pattern recognition using transformation-invariant neurons
Neural Computation, vol. 12, (no. 6), pp. 1355-1370 - 1997
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A constructive learning algorithm for discriminant tangent models
Advances in Neural Information Processing Systems, pp. 786-791