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Neural encoding models aim to predict fMRI-measured brain responses to natural images. fMRI data is acquired as a 3D volume of voxels, where each voxel has a defined spatial location in the brain. However, conventional encoding models often…

Neurons and Cognition · Quantitative Biology 2026-02-11 Haomiao Chen , Keith W Jamison , Mert R. Sabuncu , Amy Kuceyeski

Finding an appropriate representation of dynamic activities in the brain is crucial for many downstream applications. Due to its highly dynamic nature, temporally averaged fMRI (functional magnetic resonance imaging) can only provide a…

Machine Learning · Computer Science 2022-08-18 Sikun Lin , Shuyun Tang , Scott Grafton , Ambuj Singh

The goals of functional Magnetic Resonance Imaging (fMRI) include high spatial and temporal resolutions with a high signal-to-noise ratio (SNR). To simultaneously improve spatial and temporal resolutions and maintain the high SNR advantage…

Image and Video Processing · Electrical Eng. & Systems 2024-07-10 Shouchang Guo

Autism spectrum disorder (ASD) is a neurological and developmental disorder that affects social and communicative behaviors. It emerges in early life and is generally associated with lifelong disabilities. Thus, accurate and early diagnosis…

Image and Video Processing · Electrical Eng. & Systems 2025-02-24 Peiyu Duan , Nicha C. Dvornek , Jiyao Wang , Lawrence H. Staib , James S. Duncan

Resting-state functional Magnetic Resonance Imaging (fMRI) is a powerful imaging technique for studying functional development of the brain in utero. However, unpredictable and excessive movement of fetuses has limited clinical application…

Effective connectivity analysis provides an understanding of the functional organization of the brain by studying how activated regions influence one other. We propose a nonparametric Bayesian approach to model effective connectivity…

Applications · Statistics 2011-07-22 Sourabh Bhattacharya , Ranjan Maitra

In the past two decades, functional Magnetic Resonance Imaging has been used to relate neuronal network activity to cognitive processing and behaviour. Recently this approach has been augmented by algorithms that allow us to infer causal…

Quantitative Methods · Quantitative Biology 2019-05-31 Natalia Z. Bielczyk , Sebo Uithol , Tim van Mourik , Paul Anderson , Jeffrey C. Glennon , Jan K. Buitelaar

In this paper, we focus on how to locate the relevant or discriminative brain regions related with external stimulus or certain mental decease, which is also called support identification, based on the neuroimaging data. The main difficulty…

Computer Vision and Pattern Recognition · Computer Science 2015-06-09 Yilun Wang , Sheng Zhang , Junjie Zheng , Heng Chen , Huafu Chen

Brain activation mapping using functional MRI (fMRI) based on blood oxygenation level-dependent (BOLD) contrast has been conventionally focused on probing gray matter, the BOLD contrast in white matter having been generally disregarded.…

Signal Processing · Electrical Eng. & Systems 2019-10-25 David Abramian , Martin Larsson , Anders Eklund , Hamid Behjat

In recent years,the application of deep learning in task functional Magnetic Resonance Imaging (tfMRI) decoding has led to significant advancements. However,most studies remain constrained by assumption of temporal stationarity in neural…

Machine Learning · Computer Science 2025-03-05 Yueyang Wu , Sinan Yang , Yanming Wang , Jiajie He , Muhammad Mohsin Pathan , Bensheng Qiu , Xiaoxiao Wang

Task-based fMRI provides a direct readout of task-evoked neural dynamics, but it is expensive and difficult to acquire at scale, motivating rest-to-task synthesis from widely available resting-state fMRI (rsfMRI). We propose FM-fMRI, an…

Machine Learning · Computer Science 2026-05-27 Peiyu Duan , Jiyao Wang , Nicha C. Dvornek , Junlin Yang , Ziqi Gao , Lawrence H. Staib , James S. Duncan

We present a computational framework for analysis and visualization of non-linear functional connectivity in the human brain from resting state functional MRI (fMRI) data for purposes of recovering the underlying network community structure…

Neural and Evolutionary Computing · Computer Science 2014-07-16 Axel Wismüller , Xixi Wang , Adora M. DSouza , Mahesh B. Nagarajan

Functional magnetic resonance imaging (fMRI) is a powerful tool for investigating human brain function. However, the high cost of data acquisition and the inherent subjectivity of psychiatric rating scales often lead to datasets with small…

Machine Learning · Computer Science 2026-05-29 Jiyao Wang , Peiyu Duan , Nicha C. Dvornek , Lawrence H. Staib , Denis Sukhodolsky , Pamela Ventola , James S. Duncan

The anatomical structure of the brain can be observed via non-invasive techniques such as diffusion imaging. However, these are imperfect because they miss connections that are actually known to exist, especially long range…

Neurons and Cognition · Quantitative Biology 2015-02-25 Somwrita Sarkar , Sanjay Chawla , Donna Xu

Recent advances in neuroimaging have deepened our understanding of the brain's complex functional and structural organization. Among these, functional Magnetic Resonance Imaging (fMRI) - particularly resting-state fMRI (rs-fMRI) - has…

Computer Vision and Pattern Recognition · Computer Science 2026-05-12 M. Moein Esfahani , Sepehr Salem Ghahfarokhi , Mohammed Alser , Jingyu Liu , Vince Calhoun

Functional magnetic resonance imaging (fMRI) time series are known to exhibit long-range temporal dependencies that challenge traditional modeling approaches. In this study, we propose a novel computational pipeline to characterize and…

Applications · Statistics 2025-08-19 Yasaman Shahhosseini , Cédric Beaulac , Farouk S. Nathoo , Michelle F. Miranda

Accurate diagnosis of psychiatric disorders plays a critical role in improving the quality of life for patients and potentially supports the development of new treatments. Many studies have been conducted on machine learning techniques that…

Machine Learning · Statistics 2019-04-15 Takashi Matsubara , Tetsuo Tashiro , Kuniaki Uehara

Functional magnetic resonance imaging produces high dimensional data, with a less then ideal number of labelled samples for brain decoding tasks (predicting brain states). In this study, we propose a new deep temporal convolutional neural…

Machine Learning · Computer Science 2015-01-13 Orhan Firat , Emre Aksan , Ilke Oztekin , Fatos T. Yarman Vural

Intracranial recordings have opened a unique opportunity to simultaneously measure activity across multiregional networks in the human brain. Recent works have focused on developing transformer-based neurofoundation models of such…

Machine Learning · Computer Science 2025-12-16 Lucine L. Oganesian , Saba Hashemi , Maryam M. Shanechi

Functional magnetic resonance imaging (fMRI) is widely used in clinical applications to highlight brain areas involved in specific cognitive processes. Brain impairments, such as tumors, suppress the fMRI activation of the anatomical areas…

Neurons and Cognition · Quantitative Biology 2019-06-20 Qiongge Li , Gino Del Ferraro , Luca Pasquini , Kyung K. Peck , Hernan A. Makse , Andrei I. Holodny
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