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Functional magnetic resonance imaging (fMRI) is widely used for studying and diagnosing brain disorders, with functional connectivity (FC) matrices providing powerful representations of large-scale neural interactions. However, existing…

Tissues and Organs · Quantitative Biology 2026-04-17 Qianyu Chen , Shujian Yu

We propose neural network layers that explicitly combine frequency and image feature representations and show that they can be used as a versatile building block for reconstruction from frequency space data. Our work is motivated by the…

Computer Vision and Pattern Recognition · Computer Science 2023-06-29 Nalini M. Singh , Juan Eugenio Iglesias , Elfar Adalsteinsson , Adrian V. Dalca , Polina Golland

In neuroscience, understanding inter-individual differences has recently emerged as a major challenge, for which functional magnetic resonance imaging (fMRI) has proven invaluable. For this, neuroscientists rely on basic methods such as…

Computer Vision and Pattern Recognition · Computer Science 2020-04-07 Akrem Sellami , François-Xavier Dupé , Bastien Cagna , Hachem Kadri , Stéphane Ayache , Thierry Artières , Sylvain Takerkart

Recently, deep neural networks have greatly advanced undersampled Magnetic Resonance Image (MRI) reconstruction, wherein most studies follow the one-anatomy-one-network fashion, i.e., each expert network is trained and evaluated for a…

Image and Video Processing · Electrical Eng. & Systems 2022-06-17 Jiangpeng Yan , Chenghui Yu , Hanbo Chen , Zhe Xu , Junzhou Huang , Xiu Li , Jianhua Yao

Despite the impressive advances achieved using deep learning for functional brain activity analysis, the heterogeneity of functional patterns and the scarcity of imaging data still pose challenges in tasks such as identifying neurological…

Image and Video Processing · Electrical Eng. & Systems 2025-05-30 Wenhui Cui , Haleh Akrami , Anand A. Joshi , Richard M. Leahy

Recurrent neural networks (RNNs) were designed for dealing with time-series data and have recently been used for creating predictive models from functional magnetic resonance imaging (fMRI) data. However, gathering large fMRI datasets for…

Image and Video Processing · Electrical Eng. & Systems 2019-10-16 Nicha C. Dvornek , Xiaoxiao Li , Juntang Zhuang , James S. Duncan

Functional magnetic resonance imaging (fMRI) is a notoriously noisy measurement of brain activity because of the large variations between individuals, signals marred by environmental differences during collection, and spatiotemporal…

Magnetic Resonance Imaging (MRI) of the brain has been used to investigate a wide range of neurological disorders, but data acquisition can be expensive, time-consuming, and inconvenient. Multi-site studies present a valuable opportunity to…

Computer Vision and Pattern Recognition · Computer Science 2018-04-13 Harrison Nguyen , Richard W. Morris , Anthony W. Harris , Mayuresh S. Korgoankar , Fabio Ramos

Recent studies in neuroscience highlight the significant potential of brain connectivity networks, which are commonly constructed from functional magnetic resonance imaging (fMRI) data for brain disorder diagnosis. Traditional brain…

Multimodal brain networks characterize complex connectivities among different brain regions from both structural and functional aspects and provide a new means for mental disease analysis. Recently, Graph Neural Networks (GNNs) have become…

Neurons and Cognition · Quantitative Biology 2022-05-25 Yanqiao Zhu , Hejie Cui , Lifang He , Lichao Sun , Carl Yang

In open data sets of functional magnetic resonance imaging (fMRI), the heterogeneity of the data is typically attributed to a combination of factors, including differences in scanning procedures, the presence of confounding effects, and…

Machine Learning · Computer Science 2026-04-17 Xin Wen , Shijie Guo , Wenbo Ning , Rui Cao , Yan Niu , Bin Wan , Peng Wei , Xiaobo Liu , Jie Xiang

Alzheimer's disease (AD) is the most common form of dementia, which causes problems with memory, thinking and behavior. Growing evidence has shown that the brain connectivity network experiences alterations for such a complex disease.…

Methodology · Statistics 2020-05-29 Chen Hao , Guo Ying , He Yong , Ji Jiadong , Liu Lei , Shi Yufeng , Wang Yikai , Yu Long , Zhang Xinsheng

This paper considers joint learning of multiple sparse Granger graphical models to discover underlying common and differential Granger causality (GC) structures across multiple time series. This can be applied to drawing group-level brain…

Machine Learning · Computer Science 2021-05-25 Parinthorn Manomaisaowapak , Jitkomut Songsiri

The integration of different imaging modalities, such as structural, diffusion tensor, and functional magnetic resonance imaging, with deep learning models has yielded promising outcomes in discerning phenotypic characteristics and…

Image and Video Processing · Electrical Eng. & Systems 2024-10-08 Zhiyuan Li , Hailong Li , Anca L. Ralescu , Jonathan R. Dillman , Mekibib Altaye , Kim M. Cecil , Nehal A. Parikh , Lili He

Understanding how large-scale functional brain networks reorganize during cognitive decline remains a central challenge in neuroimaging. While recent self-supervised models have shown promise for learning representations from resting-state…

Machine Learning · Computer Science 2026-03-03 Karanpartap Singh , Adam Turnbull , Mohammad Abbasi , Kilian Pohl , Feng Vankee Lin , Ehsan Adeli

Functional magnetic resonance imaging (fMRI) has been commonly used to construct functional connectivity networks (FCNs) of the human brain. TFCNs are primarily limited to quantifying pairwise relationships between ROIs ignoring higher…

Signal Processing · Electrical Eng. & Systems 2025-07-15 Duc Vu , Selin Aviyente

Deep learning models can enable accurate and efficient disease diagnosis, but have thus far been hampered by the data scarcity present in the medical world. Automated diagnosis studies have been constrained by underpowered single-center…

Image and Video Processing · Electrical Eng. & Systems 2022-03-04 Akis Linardos , Kaisar Kushibar , Sean Walsh , Polyxeni Gkontra , Karim Lekadir

It has become increasingly popular to study the brain as a network due to the realization that functionality cannot be explained exclusively by independent activation of specialized regions. Instead, across a large spectrum of behaviors,…

Neurons and Cognition · Quantitative Biology 2014-07-22 Petko Bogdanov , Nazli Dereli , Danielle S. Bassett , Scott T. Grafton , Ambuj K. Singh

Magnetic resonance imaging (MRI) acquisition, reconstruction, and segmentation are usually processed independently in the conventional practice of MRI workflow. It is easy to notice that there are significant relevances among these tasks…

Image and Video Processing · Electrical Eng. & Systems 2021-05-17 Zhiwen Wang , Wenjun Xia , Zexin Lu , Yongqiang Huang , Yan Liu , Hu Chen , Jiliu Zhou , Yi Zhang

Models for segmentation of brain lesions in multi-modal MRI are commonly trained for a specific pathology using a single database with a predefined set of MRI modalities, determined by a protocol for the specific disease. This work explores…

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