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In this study, we present a method of pattern mining based on network theory that enables the identification of protein structures or complexes from synthetic volume densities, without the knowledge of predefined templates or human biases…

Quantitative Methods · Quantitative Biology 2022-10-18 August George , Doo Nam Kim , Trevor Moser , Ian T. Gildea , James E. Evans , Margaret S. Cheung

While the major white matter tracts are of great interest to numerous studies in neuroscience and medicine, their manual dissection in larger cohorts from diffusion MRI tractograms is time-consuming, requires expert knowledge and is hard to…

Computer Vision and Pattern Recognition · Computer Science 2019-09-26 Jakob Wasserthal , Peter Neher , Dusan Hirjak , Klaus H. Maier-Hein

One of the paramount challenges in neuroscience is to understand the dynamics of individual neurons and how they give rise to network dynamics when interconnected. Historically, researchers have resorted to graph theory, statistics, and…

Neurons and Cognition · Quantitative Biology 2019-02-08 Jean-Baptiste Bardin , Gard Spreemann , Kathryn Hess

Current brain white matter fiber tracking techniques show a number of problems, including: generating large proportions of streamlines that do not accurately describe the underlying anatomy; extracting streamlines that are not supported by…

Image and Video Processing · Electrical Eng. & Systems 2021-08-03 Jon Haitz Legarreta , Laurent Petit , François Rheault , Guillaume Theaud , Carl Lemaire , Maxime Descoteaux , Pierre-Marc Jodoin

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

The shape of the brain's white matter connections is relatively unexplored in diffusion MRI tractography analysis. While it is known that tract shape varies in populations and across the human lifespan, it is unknown if the variability in…

Diffusion magnetic resonance imaging (dMRI) tractography is an advanced imaging technique that enables in vivo mapping of the brain's white matter connections at macro scale. Over the last two decades, the study of brain connectivity using…

Quantitative Methods · Quantitative Biology 2021-04-26 Fan Zhang , Alessandro Daducci , Yong He , Simona Schiavi , Caio Seguin , Robert Smith , Chun-Hung Yeh , Tengda Zhao , Lauren J. O'Donnell

Artificial neural networks trained on large, expert-labelled datasets are considered state-of-the-art for a range of medical image recognition tasks. However, categorically labelled datasets are time-consuming to generate and constrain…

The detection of allusive text reuse is particularly challenging due to the sparse evidence on which allusive references rely---commonly based on none or very few shared words. Arguably, lexical semantics can be resorted to since uncovering…

Computation and Language · Computer Science 2019-05-09 Enrique Manjavacas , Brian Long , Mike Kestemont

Text classification is one of the most critical areas in machine learning and artificial intelligence research. It has been actively adopted in many business applications such as conversational intelligence systems, news articles…

Computation and Language · Computer Science 2019-11-15 Minjun Kim , Hiroki Sayama

While the major white matter tracts are of great interest to numerous studies in neuroscience and medicine, their manual dissection in larger cohorts from diffusion MRI tractograms is time-consuming, requires expert knowledge and is hard to…

Computer Vision and Pattern Recognition · Computer Science 2018-06-15 Jakob Wasserthal , Peter F. Neher , Klaus H. Maier-Hein

Clinical trials are critical for drug development but often suffer from expensive and inefficient patient recruitment. In recent years, machine learning models have been proposed for speeding up patient recruitment via automatically…

Machine Learning · Computer Science 2023-07-20 Brandon Theodorou , Cao Xiao , Jimeng Sun

White matter tract microstructure has been shown to influence neuropsychological scores of cognitive performance. However, prediction of these scores from white matter tract data has not been attempted. In this paper, we propose a…

Computer Vision and Pattern Recognition · Computer Science 2022-07-07 Yuqian Chen , Fan Zhang , Chaoyi Zhang , Tengfei Xue , Leo R. Zekelman , Jianzhong He , Yang Song , Nikos Makris , Yogesh Rathi , Alexandra J. Golby , Weidong Cai , Lauren J. O'Donnell

Predicting how the brain can be driven to specific states by means of internal or external control requires a fundamental understanding of the relationship between neural connectivity and activity. Network control theory is a powerful tool…

Neurons and Cognition · Quantitative Biology 2019-08-12 Teresa M. Karrer , Jason Z. Kim , Jennifer Stiso , Ari E. Kahn , Fabio Pasqualetti , Ute Habel , Danielle S. Bassett

The amount of scientific papers published every day is daunting and constantly increasing. Keeping up with literature represents a challenge. If one wants to start exploring new topics it is hard to have a big picture without reading lots…

Information Retrieval · Computer Science 2020-11-10 Alberto Calderone

Background: A systematic literature review (SLR) is a methodology used to aggregate all relevant existing evidence to answer a research question of interest. Although crucial, the process used to select primary studies can be arduous, time…

White matter structures composed of myelinated axons in the living human brain are primarily studied by diffusion-weighted MRI (dMRI). These long-range projections are typically characterized in a two-step process: dMRI is used to estimate…

Neurons and Cognition · Quantitative Biology 2017-10-09 Matthew Cieslak , Tegan Brennan , Wendy Meiring , Lukas J. Volz , Clint Greene , Alexander Asturias , Subhash Suri , Scott T. Grafton

The exponential growth of textual data presents substantial challenges in management and analysis, notably due to high storage and processing costs. Text classification, a vital aspect of text mining, provides robust solutions by enabling…

Computation and Language · Computer Science 2025-01-22 Kamal Taha , Paul D. Yoo , Chan Yeun , Aya Taha

A text network refers to a data type that each vertex is associated with a text document and the relationship between documents is represented by edges. The proliferation of text networks such as hyperlinked webpages and academic citation…

Social and Information Networks · Computer Science 2016-10-04 Junxian He , Ying Huang , Changfeng Liu , Jiaming Shen , Yuting Jia , Xinbing Wang

Accurately identifying white matter tracts in medical images is essential for various applications, including surgery planning and tract-specific analysis. Supervised machine learning models have reached state-of-the-art solving this task…

Image and Video Processing · Electrical Eng. & Systems 2023-08-04 Robin Peretzke , Klaus Maier-Hein , Jonas Bohn , Yannick Kirchhoff , Saikat Roy , Sabrina Oberli-Palma , Daniela Becker , Pavlina Lenga , Peter Neher