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Advances on signal, image and video generation underly major breakthroughs on generative medical imaging tasks, including Brain Image Synthesis. Still, the extent to which functional Magnetic Ressonance Imaging (fMRI) can be mapped from the…

Machine Learning · Computer Science 2020-09-30 David Calhas , Rui Henriques

Visual image reconstruction from functional Magnetic Resonance Imaging (fMRI) is a fundamental task in brain decoding, providing a crucial pathway for understanding human perceptual mechanisms and developing advanced brain-computer…

Computer Vision and Pattern Recognition · Computer Science 2026-05-20 Yudan Ren , Pengcheng Shi , Zihan Ma , Xiaowei He , Xiao Li

We study the problem of training self-supervised foundation models for functional MRI. Our main contributions are: (1) we introduce a new model family (CortexMAE) trained using the masked autoencoder framework on 2.1K hours of open fMRI…

Functional Magnetic Resonance Images acquired during resting-state provide information about the functional organization of the brain through measuring correlations between brain areas. Independent components analysis is the reference…

Neurons and Cognition · Quantitative Biology 2014-12-15 Alexandre Abraham , Elvis Dohmatob , Bertrand Thirion , Dimitris Samaras , Gael Varoquaux

Human brains exhibit highly organized multiscale neurophysiological dynamics. Understanding those dynamic changes and the neuronal networks involved is critical for understanding how the brain functions in health and disease. Functional…

Neurons and Cognition · Quantitative Biology 2024-09-09 Manuel Morante , Kristian Frølich , Naveed ur Rehman

Purpose: To develop new encoding and reconstruction techniques for fast multi-contrast quantitative imaging. Methods: The recently proposed Echo Planar Time-resolved Imaging (EPTI) technique can achieve fast distortion- and blurring-free…

Image and Video Processing · Electrical Eng. & Systems 2020-10-05 Zijing Dong , Fuyixue Wang , Timothy G. Reese , Berkin Bilgic , Kawin Setsompop

Cognition is increasingly framed in terms of information processing, yet most fMRI analyses focus on activation or functional connectivity rather than quantifying how information is stored and transferred. To remedy this problem, we propose…

Neurons and Cognition · Quantitative Biology 2026-02-04 Chetan Gohil , Oliver M. Cliff , James M. Shine , Ben D. Fulcher , Joseph T. Lizier

Resting-state functional magnetic resonance imaging (rs-fMRI), which measures the spontaneous fluctuations in the blood oxygen level-dependent (BOLD) signal, is increasingly utilized for the investigation of the brain's physiological and…

Purpose: Functional Magnetic Resonance Imaging (fMRI) data acquired through resting-state studies have been used to obtain information about the spontaneous activations inside the brain. One of the approaches for analysis and interpretation…

Image and Video Processing · Electrical Eng. & Systems 2022-02-24 Harshit Parmar , Brian Nutter , Rodney Long , Sameer Antani , Sunanda Mitra

Task-free connectivity analyses have emerged as a powerful tool in functional neuroimaging. Because the cross-correlations that underlie connectivity measures are sensitive to distortion of time-series, here we used a novel dynamic phantom…

Neurons and Cognition · Quantitative Biology 2020-02-05 D. J. DeDora , S. Nedic , P. Katti , S. Arnab , L. L. Wald , A. Takahashi , K. R. A. Van Dijk , H. H. Strey , L. R. Mujica-Parodi

Understanding how spontaneous brain activity relates to stimulus-driven neural responses is a fundamental challenge in cognitive neuroscience. While task-based functional magnetic resonance imaging (fMRI) captures localized stimulus-evoked…

Neurons and Cognition · Quantitative Biology 2025-09-18 Chuyang Zhou , Ziao Ji , Daochang Liu , Dongang Wang , Chenyu Wang , Chang Xu

A fundamental challenge in neuroscience is to decode mental states from brain activity. While functional magnetic resonance imaging (fMRI) offers a non-invasive approach to capture brain-wide neural dynamics with high spatial precision,…

Image and Video Processing · Electrical Eng. & Systems 2025-07-31 Yueh-Po Peng , Vincent K. M. Cheung , Li Su

Functional brain imaging allows measuring dynamic functionality in all brain regions. It is broadly used in clinical cognitive neuroscience as, well as in research. It will allow the observation of neural activities in the brain…

Medical Physics · Physics 2016-04-01 Saman Sarraf , Jian Sun

We introduce a structured low rank algorithm for the calibration-free compensation of field inhomogeneity artifacts in Echo Planar Imaging (EPI) MRI data. We acquire the data using two EPI readouts that differ in echo-time (TE). Using time…

Computer Vision and Pattern Recognition · Computer Science 2018-04-23 Arvind Balachandrasekaran , Merry Mani , Mathews Jacob

Analysis of brain imaging scans is critical to understanding the way the human brain functions, which can be leveraged to treat injuries and conditions that affect the quality of life for a significant portion of the human population. In…

Methodology · Statistics 2022-03-02 Daniel Spencer , David Bolin , Mary Beth Nebel , Amanda Mejia

Missing input sequences are common in medical imaging data, posing a challenge for deep learning models reliant on complete input data. In this work, inspired by MultiMAE [2], we develop a masked autoencoder (MAE) paradigm for multi-modal,…

Computer Vision and Pattern Recognition · Computer Science 2026-02-04 Ayhan Can Erdur , Christian Beischl , Daniel Scholz , Jiazhen Pan , Benedikt Wiestler , Daniel Rueckert , Jan C Peeken

Reducing the scanning time of very-low field (VLF) magnetic resonance imaging (MRI) scanners, commonly employed for stroke diagnosis, can enhance patient comfort and operational efficiency. The conventional parallel imaging (PI) technique…

Medical Physics · Physics 2025-12-24 Lei Yang , Wei He , Sheng Shen , Yucheng He , Jiamin Wu , Zheng Xu

Recent advances in multimodal large language models (LLMs) have enabled unified reasoning across images, audio, and video, but extending such capability to brain imaging remains largely unexplored. Bridging this gap is essential to link…

Computation and Language · Computer Science 2026-05-15 Yuxiang Wei , Yanteng Zhang , Xi Xiao , Chengxuan Qian , Tianyang Wang , Vince D. Calhoun

Current techniques of neuroimaging, including electrical devices, are either of low spatiotemporal resolution or invasive, impeding multiscale monitoring of brain activity at both single cell and network levels. Overcoming this issue is of…

Functional magnetic resonance imaging (fMRI) is an indispensable tool in modern neuroscience, providing a non-invasive window into whole-brain dynamics at millimeter-scale spatial resolution. However, fMRI is constrained by issues such as…

Image and Video Processing · Electrical Eng. & Systems 2025-09-09 Yamin Li , Ange Lou , Ziyuan Xu , Shengchao Zhang , Shiyu Wang , Dario J. Englot , Soheil Kolouri , Daniel Moyer , Roza G. Bayrak , Catie Chang
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