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DeepN4: Learning N4ITK Bias Field Correction for T1-weighted Images
DeepN4: Learning N4ITK Bias Field Correction for T1-weighted Images
T1-weighted (T1w) MRI has low frequency intensity artifacts due to magnetic field inhomogeneities. Removal of these biases...
An Automated Tool to Classify and Transform Unstructured MRI Data into BIDS Datasets
An Automated Tool to Classify and Transform Unstructured MRI Data into BIDS Datasets
The increasing use of neuroimaging in clinical research has driven the creation of many large imaging datasets. However, t...
Updates to the Melbourne Children’s Regional Infant Brain Software Package (M-CRIB-S)
Updates to the Melbourne Children’s Regional Infant Brain Software Package (M-CRIB-S)
The delineation of cortical areas on magnetic resonance images (MRI) is important for understanding the complexities of th...
MaPPeRTrac: A Massively Parallel, Portable, and Reproducible Tractography Pipeline
MaPPeRTrac: A Massively Parallel, Portable, and Reproducible Tractography Pipeline
Large-scale diffusion MRI tractography remains a significant challenge. Users must orchestrate a complex sequence of instr...
Decentralized Mixed Effects Modeling in COINSTAC
Decentralized Mixed Effects Modeling in COINSTAC
Performing group analysis on magnetic resonance imaging (MRI) data with linear mixed-effects (LME) models is challenging d...
Visual Prompting Based Incremental Learning for Semantic Segmentation of Multiplex Immuno-Flourescence Microscopy Imagery
Visual Prompting Based Incremental Learning for Semantic Segmentation of Multiplex Immuno-Flourescence Microscopy Imagery
Deep learning approaches are state-of-the-art for semantic segmentation of medical images, but unlike many deep learning a...
InSpectro-Gadget: A Tool for Estimating Neurotransmitter and Neuromodulator Receptor Distributions for MRS Voxels
InSpectro-Gadget: A Tool for Estimating Neurotransmitter and Neuromodulator Receptor Distributions for MRS Voxels
Magnetic resonance spectroscopy (MRS) is widely used to estimate concentrations of glutamate and $$\gamma$$ -aminobutyric ...
Network Representation of fMRI Data Using Visibility Graphs: The Impact of Motion and Test-Retest Reliability
Network Representation of fMRI Data Using Visibility Graphs: The Impact of Motion and Test-Retest Reliability
Visibility graphs provide a novel approach for analysing time-series data. Graph theoretical analysis of visibility graphs...
A Deep Learning-Based Ensemble Method for Early Diagnosis of Alzheimer’s Disease using MRI Images
A Deep Learning-Based Ensemble Method for Early Diagnosis of Alzheimer’s Disease using MRI Images
Recently, the early diagnosis of Alzheimer’s disease has gained major attention due to the growing prevalence of the...
Preserving Derivative Information while Transforming Neuronal Curves
Preserving Derivative Information while Transforming Neuronal Curves
The international neuroscience community is building the first comprehensive atlases of brain cell types to understand how...
High-Density Exploration of Activity States in a Multi-Area Brain Model
High-Density Exploration of Activity States in a Multi-Area Brain Model
To simulate whole brain dynamics with only a few equations, biophysical, mesoscopic models of local neuron populations can...
Editorial: On the Economics of Neuroscientific Data Sharing
Editorial: On the Economics of Neuroscientific Data Sharing
Abe, T., Kinsella, I., Saxena, S., Buchanan, E. K., Couto, J., Briggs, J., Kitt, S. L., Glassman, R., Zhou, J., Paninski, ...
Improving the Eligibility of Task-Based fMRI Studies for Meta-Analysis: A Review and Reporting Recommendations
Improving the Eligibility of Task-Based fMRI Studies for Meta-Analysis: A Review and Reporting Recommendations
Decisions made during the analysis or reporting of an fMRI study influence the eligibility of that study to be entered int...
Topological Data Analysis Captures Task-Driven fMRI Profiles in Individual Participants: A Classification Pipeline Based on Persistence
Topological Data Analysis Captures Task-Driven fMRI Profiles in Individual Participants: A Classification Pipeline Based on Persistence
BOLD-based fMRI is the most widely used method for studying brain function. The BOLD signal while valuable, is beset with ...
Analyzing Thalamocortical Tract-Tracing Experiments in a Common Reference Space
Analyzing Thalamocortical Tract-Tracing Experiments in a Common Reference Space
Current mesoscale connectivity atlases provide limited information about the organization of thalamocortical projections i...
Editorial: Is Now the Time for Foundational Theory of Brain Connectivity?
Editorial: Is Now the Time for Foundational Theory of Brain Connectivity?
For more than a century, the neuron doctrine has provided the bedrock of neuroscience...
Confounding Effects on the Performance of Machine Learning Analysis of Static Functional Connectivity Computed from rs-fMRI Multi-site Data
Confounding Effects on the Performance of Machine Learning Analysis of Static Functional Connectivity Computed from rs-fMRI Multi-site Data
Resting-state functional magnetic resonance imaging (rs-fMRI) is a non-invasive imaging technique widely used in neuroscie...
BrainLine: An Open Pipeline for Connectivity Analysis of Heterogeneous Whole-Brain Fluorescence Volumes
BrainLine: An Open Pipeline for Connectivity Analysis of Heterogeneous Whole-Brain Fluorescence Volumes
Whole-brain image volumes at the micron scale are helping scientists characterize neuron-level morphology and connectivity...
Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space
Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space
To accurately explore the anatomical organization of neural circuits in the brain, it is crucial to map the experimental b...
Big Brain Data Initiatives in Universiti Sains Malaysia: Data Stewardship to Data Repository and Data Sharing
Big Brain Data Initiatives in Universiti Sains Malaysia: Data Stewardship to Data Repository and Data Sharing
The sharing of open-access neuroimaging data has increased significantly during the last few years. Sharing neuroimaging d...
Deep Learning Methods for Identification of White Matter Fiber Tracts: Review of State-of-the-Art and Future Prospective
Deep Learning Methods for Identification of White Matter Fiber Tracts: Review of State-of-the-Art and Future Prospective
Quantitative analysis of white matter fiber tracts from diffusion Magnetic Resonance Imaging (dMRI) data is of great signi...
Applying Joint Graph Embedding to Study Alzheimer’s Neurodegeneration Patterns in Volumetric Data
Applying Joint Graph Embedding to Study Alzheimer’s Neurodegeneration Patterns in Volumetric Data
Neurodegeneration measured through volumetry in MRI is recognized as a potential Alzheimer’s Disease (AD) biomarker,...
Single Neuron Modeling Identifies Potassium Channel Modulation as Potential Target for Repetitive Head Impacts
Single Neuron Modeling Identifies Potassium Channel Modulation as Potential Target for Repetitive Head Impacts
Traumatic brain injury (TBI) and repetitive head impacts can result in a wide range of neurological symptoms. Despite bein...
Geometric Reliability of Super-Resolution Reconstructed Images from Clinical Fetal MRI in the Second Trimester
Geometric Reliability of Super-Resolution Reconstructed Images from Clinical Fetal MRI in the Second Trimester
Fetal Magnetic Resonance Imaging (MRI) is an important noninvasive diagnostic tool to characterize the central nervous sys...
De-Identification Technique with Facial Deformation in Head CT Images
De-Identification Technique with Facial Deformation in Head CT Images
Head CT, which includes the facial region, can visualize faces using 3D reconstruction, raising concern that individuals m...
CellRemorph: A Toolkit for Transforming, Selecting, and Slicing 3D Cell Structures on the Road to Morphologically Detailed Astrocyte Simulations
CellRemorph: A Toolkit for Transforming, Selecting, and Slicing 3D Cell Structures on the Road to Morphologically Detailed Astrocyte Simulations
Understanding functions of astrocytes can be greatly enhanced by building and simulating computational models that capture...
A Method for In-Vivo Mapping of Axonal Diameter Distributions in the Human Brain Using Diffusion-Based Axonal Spectrum Imaging (AxSI)
A Method for In-Vivo Mapping of Axonal Diameter Distributions in the Human Brain Using Diffusion-Based Axonal Spectrum Imaging (AxSI)
In this paper we demonstrate a generalized and simplified pipeline called axonal spectrum imaging (AxSI) for in-vivo estim...