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Multivariate dynamical processes can often be intuitively described by a weighted connectivity graph between components representing each individual time-series. Even a simple representation of this graph as a Pearson correlation matrix may…

Machine Learning · Computer Science 2022-02-15 Usman Mahmood , Zening Fu , Vince Calhoun , Sergey Plis

First-principles-based modelings have been extremely successful in providing crucial insights and predictions for complex biological functions and phenomena. However, they can be hard to build and expensive to simulate for complex living…

Adaptation and Self-Organizing Systems · Physics 2024-11-26 Ruilin Zhang , Zhongyi Wang , Tianyi Wu , Yuhang Cai , Louis Tao , Zhuo-Cheng Xiao , Yao Li

Deep neural networks excel at image classification, but their performance is far less robust to input perturbations than human perception. In this work we explore whether this shortcoming may be partly addressed by incorporating…

Computer Vision and Pattern Recognition · Computer Science 2021-11-05 Bhavin Choksi , Milad Mozafari , Callum Biggs O'May , Benjamin Ador , Andrea Alamia , Rufin VanRullen

Functional differentiation in the brain emerges as distinct regions specialize and is key to understanding brain function as a complex system. Previous research has modeled this process using artificial neural networks with specific…

Neurons and Cognition · Quantitative Biology 2025-11-17 Yuki Tomoda , Ichiro Tsuda , Yutaka Yamaguti

With the growing interest in foundation models for brain signals, graph-based pretraining has emerged as a promising paradigm for learning transferable representations from connectome data. However, existing contrastive and masked…

Machine Learning · Computer Science 2026-03-10 Xinxu Wei , Rong Zhou , Lifang He , Yu Zhang

Deep neural networks have achieved impressive performance on a variety of tasks, but their brittleness to distributional shifts remains a significant barrier to real-world deployment. In this paper, we propose a framework to analyse and…

Machine Learning · Computer Science 2026-05-21 Divij Khaitan , Subhashis Banerjee

Brain foundation models (BFMs) have emerged as a transformative paradigm in computational neuroscience, offering a revolutionary framework for processing diverse neural signals across different brain-related tasks. These models leverage…

Machine Learning · Computer Science 2025-07-22 Xinliang Zhou , Chenyu Liu , Zhisheng Chen , Kun Wang , Yi Ding , Ziyu Jia , Qingsong Wen

Studies regarding knowledge organization and acquisition are of great importance to understand areas related to science and technology. A common way to model the relationship between different concepts is through complex networks. In such…

Social and Information Networks · Computer Science 2018-08-09 Thales S. Lima , Henrique F. de Arruda , Filipi N. Silva , Cesar H. Comin , Diego R. Amancio , Luciano da F. Costa

Understanding how brain networks learn and manage multiple tasks simultaneously is of interest in both neuroscience and artificial intelligence. In this regard, a recent research thread in theoretical neuroscience has focused on how…

Neurons and Cognition · Quantitative Biology 2024-08-05 Giacomo Vedovati , ShiNung Ching

Background: Deep neural networks have proven to be powerful computational tools for modeling, prediction, and generation. However, the workings of these models have generally been opaque. Recent work has shown that the performance of some…

Artificial Intelligence · Computer Science 2023-11-21 Andrew S. Nencka , L. Tugan Muftuler , Peter LaViolette , Kevin M. Koch

Neural networks are powerful function estimators, leading to their status as a paradigm of choice for modeling structured data. However, unlike other structured representations that emphasize the modularity of the problem -- e.g., factor…

Machine Learning · Computer Science 2022-06-20 Tsvetomila Mihaylova , Vlad Niculae , André F. T. Martins

Neural populations exhibit complex recurrent structures that drive behavior, while continuously receiving and integrating external inputs from sensory stimuli, upstream regions, and neurostimulation. However, neural populations are often…

Neurons and Cognition · Quantitative Biology 2025-09-24 Parsa Vahidi , Omid G. Sani , Maryam M. Shanechi

Recent developments in experimental neuroscience make it possible to simultaneously record the activity of thousands of neurons. However, the development of analysis approaches for such large-scale neural recordings have been slower than…

Neurons and Cognition · Quantitative Biology 2022-10-18 Rufus Mitchell-Heggs , Seigfred Prado , Giuseppe P. Gava , Mary Ann Go , Simon R. Schultz

Recent developments in network neuroscience have highlighted the importance of developing techniques for analyzing and modeling brain networks. A particularly powerful approach for studying complex neural systems is to formulate generative…

Neurons and Cognition · Quantitative Biology 2022-09-09 Viplove Arora , Enrico Amico , Joaquín Goñi , Mario Ventresca

Representing dynamical systems through data-driven universal spaces has proven effective; however, achieving this universality for human brain activity remains a significant challenge, further aggravated by diverse cognitive states and…

Quantitative Methods · Quantitative Biology 2026-05-06 Ronghua Zheng , Chengyuan Qian , Weiyang Ding

The ability to modulate brain states using targeted stimulation is increasingly being employed to treat neurological disorders and to enhance human performance. Despite the growing interest in brain stimulation as a form of neuromodulation,…

Neurons and Cognition · Quantitative Biology 2016-01-07 Sarah Feldt Muldoon , Fabio Pasqualetti , Shi Gu , Matthew Cieslak , Scott T. Grafton , Jean M. Vettel , Danielle S. Bassett

Dynamic brain data, teeming with biological and functional insights, are becoming increasingly accessible through advanced measurements, providing a gateway to understanding the inner workings of the brain in living subjects. However, the…

Neurons and Cognition · Quantitative Biology 2025-08-19 Zixia Zhou , Junyan Liu , Wei Emma Wu , Ruogu Fang , Sheng Liu , Qingyue Wei , Rui Yan , Yi Guo , Qian Tao , Yuanyuan Wang , Md Tauhidul Islam , Lei Xing

Recent experimental advances are producing an avalanche of data on both neural connectivity and neural activity. To take full advantage of these two emerging datasets we need a framework that links them, revealing how collective neural…

Neurons and Cognition · Quantitative Biology 2020-02-27 Gabriel Koch Ocker , Krešimir Josić , Eric Shea-Brown , Michael A. Buice

The spatial topography of functional brain organization is increasingly recognized to play an important role in cognition and disease. Accounting for individual differences in functional topography is also crucial for accurately…

Data-driven methods have become increasingly more prominent for musculoskeletal modelling due to their conceptually intuitive simple and fast implementation. However, the performance of a pre-trained data-driven model using the data from…

Signal Processing · Electrical Eng. & Systems 2022-11-23 Jie Zhang , Yihui Zhao , Tianzhe Bao , Zhenhong Li , Kun Qian , Alejandro F. Frangi , Sheng Quan Xie , Zhi-Qiang Zhang
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