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Combining genome-wide structural models with phenomenological data is at the forefront of efforts to understand the organizational principles regulating the human genome. Here, we use chromosome-chromosome contact data as knowledge-based…

Biological Physics · Physics 2016-10-31 Marco Di Stefano , Jonas Paulsen , Tonje G. Lien , Eivind Hovig , Cristian Micheletti

The structural network of the brain, or structural connectome, can be represented by fiber bundles generated by a variety of tractography methods. While such methods give qualitative insights into brain structure, there is controversy over…

Computer Vision and Pattern Recognition · Computer Science 2022-06-15 Kristen M. Campbell , Haocheng Dai , Zhe Su , Martin Bauer , P. Thomas Fletcher , Sarang C. Joshi

Human braingraphs or connectomes are widely studied in the last decade to understand the structural and functional properties of our brain. In the last several years our research group has computed and deposited thousands of human…

Neurons and Cognition · Quantitative Biology 2024-12-03 Balint Varga , Vince Grolmusz

Acquisition of bimanual motor skills, critical in several applications ranging from robotic teleoperations to surgery, is associated with a protracted learning curve. Brain connectivity based on functional Near Infrared Spectroscopy (fNIRS)…

Neurons and Cognition · Quantitative Biology 2020-01-03 F. Deligianni , H. Singh , H. N. Modi , S. Jahani , M. Yucel , A. Darzi , D. R. Leff , G. Z. Yang

We propose a framework for jointly modeling the geometry and functionality in high dimensional functional surfaces. The proposed mixed effects model characterizes effects of subject-specific covariates and exogenous stimuli on functional…

Applications · Statistics 2023-02-10 Jingjing Zou , Chi-Hua Chen , John A. D. Aston

The spontaneous emergence of coherent behavior through synchronization plays a key role in neural function, and its anomalies often lie at the basis of pathologies. Here we employ a parsimonious (mesoscopic) approach to study analytically…

Neurons and Cognition · Quantitative Biology 2014-09-30 Pablo Villegas , Paolo Moretti , Miguel A. Muñoz

A fundamental idea in neuroscience is that cognitive functions -- such as perception, learning, memory, and locomotion -- are shaped and constrained by the brain's structural organization. Despite significant progress in mapping and…

Neurons and Cognition · Quantitative Biology 2025-08-07 Elkaïoum M. Moutuou , Habib Benali

We aimed to explore the capability of deep learning to approximate the function instantiated by biological neural circuits-the functional connectome. Using deep neural networks, we performed supervised learning with firing rate observations…

Neurons and Cognition · Quantitative Biology 2022-11-24 Sihao Liu , Augustine N Mavor-Parker , Caswell Barry

Complex functional brain networks are large networks of brain regions and functional brain connections. Statistical characterizations of these networks aim to quantify global and local properties of brain activity with a small number of…

Neurons and Cognition · Quantitative Biology 2011-07-19 Mikail Rubinov , Olaf Sporns

These days, computational diagnosis strategies of neuropsychiatric disorders are gaining attention day by day. It's critical to determine the brain's functional connectivity based on Functional-Magnetic-Resonance-Imaging(fMRI) to diagnose…

Computer Vision and Pattern Recognition · Computer Science 2022-05-05 Sartaj Ahmed Salman , Zhichao Lian , Marva Saleem , Yuduo Zhang

The main goal of this study is to extract a set of brain networks in multiple time-resolutions to analyze the connectivity patterns among the anatomic regions for a given cognitive task. We suggest a deep architecture which learns the…

Machine Learning · Statistics 2017-08-16 Arash Rahnama , Abdullah Alchihabi , Vijay Gupta , Panos Antsaklis , Fatos T. Yarman Vural

With recent advancements in non-invasive techniques for measuring brain activity, such as magnetic resonance imaging (MRI), the study of structural and functional brain networks through graph signal processing (GSP) has gained notable…

Machine Learning · Computer Science 2025-11-13 Martín Schmidt , Sara Silva , Federico Larroca , Gonzalo Mateos , Pablo Musé

Recent advances in deep learning have made it possible to predict phenotypic measures directly from functional magnetic resonance imaging (fMRI) brain volumes, sparking significant interest in the neuroimaging community. However, existing…

Computer Vision and Pattern Recognition · Computer Science 2025-07-01 Arunkumar Kannan , Martin A. Lindquist , Brian Caffo

The brain's functional connectivity fluctuates over time instead of remaining steady in a stationary mode even during the resting state. This fluctuation establishes the dynamical functional connectivity that transitions in a non-random…

Neurons and Cognition · Quantitative Biology 2022-03-28 Shikuang Deng , Jingwei Li , B. T. Thomas Yeo , Shi Gu

Neuropsychiatric disorders impact functional connectivity of the brain at the network level. The identification and statistical testing of disorder-related networks remains challenging. We propose novel methods to streamline the detection…

Applications · Statistics 2017-01-16 Shuo Chen , Yishi Xing , Jian Kang , Dinesh Shukla , Peter Kochunov , L. Elliot Hong

This paper studies change-points in human brain functional connectivity (FC) and seeks patterns that are common across multiple subjects under identical external stimulus. FC relates to the similarity of fMRI responses across different…

Neurons and Cognition · Quantitative Biology 2020-03-05 Mengyu Dai , Zhengwu Zhang , Anuj Srivastava

Diffusion MRI (dMRI) tractography enables in vivo mapping of brain structural connections, but traditional connectome generation is time-consuming and requires gray matter parcellation, posing challenges for large-scale studies. We…

Image and Video Processing · Electrical Eng. & Systems 2025-06-12 Marcus J. Vroemen , Yuqian Chen , Yui Lo , Tengfei Xue , Weidong Cai , Fan Zhang , Josien P. W. Pluim , Lauren J. O'Donnell

Population analyses of functional connectivity have provided a rich understanding of how brain function differs across time, individual, and cognitive task. An important but challenging task in such population analyses is the identification…

Social and Information Networks · Computer Science 2020-08-19 James D. Wilson , Melanie Baybay , Rishi Sankar , Paul Stillman , Abbie M. Popa

Large-scale white matter pathways crisscrossing the cortex create a complex pattern of connectivity that underlies human cognitive function. Generative mechanisms for this architecture have been difficult to identify in part because little…

Neurons and Cognition · Quantitative Biology 2015-06-16 Florian Klimm , Danielle S. Bassett , Jean M. Carlson , Peter J. Mucha

Imaging studies suggest that the functional connectivity patterns of resting state networks (RS-networks) reflect underlying structural connectivity (SC). If the connectome constrains how brain areas are functionally connected, the…

Neurons and Cognition · Quantitative Biology 2016-02-25 Andreas Spiegler , Enrique C. A. Hansen , Christophe Bernard , Anthony R. McIntosh , Viktor K. Jirsa