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Automated analysis of whole brain vasculature using machine learning

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Building Skeleton Models via 3-D Medial Surface Axis Thinning Algorithms

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Multiscale vessel enhancement filtering

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Chronic Cerebral Hypoperfusion Induced Synaptic Proteome Changes in the rat Cerebral Cortex

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Sex Differences in the Cerebral Collateral Circulation

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A perfusion procedure for imaging of the mouse cerebral vasculature by X-ray micro-CT

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Tissue metabolism driven arterial tree generation

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Joint 3-D vessel segmentation and centerline extraction using oblique Hough forests with steerable filters

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Reconstructing cerebrovascular networks under local physiological constraints by integer programming

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Brain tumor segmentation with Deep Neural Networks

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Efficient multi-scale 3D CNN with fully connected CRF for accurate brain lesion segmentation

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A survey on deep learning in medical image analysis

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Cerebral collateral flow defines topography and evolution of molecular penumbra in experimental ischemic stroke

inferredcites →https://doi.org/10.1016/j.neuroimage.2014.03.044openalex-snapshot

Automatic anatomical labeling of the complete cerebral vasculature in mouse models

inferredcites →https://doi.org/10.1016/s1361-8415(98)80009-1openalex-snapshot

Three-dimensional multi-scale line filter for segmentation and visualization of curvilinear structures in medical images

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Wide Genetic Variation in the Native Pial Collateral Circulation is a Major Determinant of Variation in Severity of Stroke

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Shrinkage-mediated imaging of entire organs and organisms using uDISCO

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Automated synaptic connectivity inference for volume electron microscopy

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Data-analysis strategies for image-based cell profiling

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Three-dimensional imaging of solvent-cleared organs using 3DISCO

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CDeep3M—Plug-and-Play cloud-based deep learning for image segmentation

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Content-aware image restoration: pushing the limits of fluorescence microscopy

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Deep learning enables cross-modality super-resolution in fluorescence microscopy

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U-Net: deep learning for cell counting, detection, and morphometry

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Deep learning in imaging

inferredcites →https://doi.org/10.1038/s41598-017-00161-4openalex-snapshot

Traumatic brain injury results in acute rarefication of the vascular network

inferredcites →https://doi.org/10.1038/s41598-018-30533-3openalex-snapshot

Whole-Brain Vasculature Reconstruction at the Single Capillary Level

inferredcites →https://doi.org/10.1038/s41598-019-39092-7openalex-snapshot

Artery targeted photothrombosis widens the vascular penumbra, instigates peri-infarct neovascularization and models forelimb impairments

inferredcites →https://doi.org/10.1073/pnas.0709788105openalex-snapshot

Altered morphology and 3D architecture of brain vasculature in a mouse model for Alzheimer's disease

inferredcites →https://doi.org/10.1073/pnas.1710329115openalex-snapshot

Tau induces blood vessel abnormalities and angiogenesis-related gene expression in P301L transgenic mice and human Alzheimer’s disease

inferredcites →https://doi.org/10.1093/cercor/bhv121openalex-snapshot

A Diffusion MRI Tractography Connectome of the Mouse Brain and Comparison with Neuronal Tracer Data

inferredcites →https://doi.org/10.1093/ckj/sfu106openalex-snapshot

Capillary rarefaction: an early marker of microvascular disease in young hemodialysis patients

inferredcites →https://doi.org/10.1096/fj.11-0102ufmopenalex-snapshot

Alzheimer's dementia begins as a disease of small blood vessels, damaged by oxidative‐induced inflammation and dysregulated amyloid metabolism: implications for early detection and therapy

inferredcites →https://doi.org/10.1109/tmi.2016.2528162openalex-snapshot

Deep Convolutional Neural Networks for Computer-Aided Detection: CNN Architectures, Dataset Characteristics and Transfer Learning

inferredcites →https://doi.org/10.1111/j.1525-142x.2010.00453.xopenalex-snapshot

Modularity in the skull and cranial vasculature of laboratory mice: implications for the evolution of complex phenotypes

inferredcites →https://doi.org/10.1152/physiolgenomics.00047.2007openalex-snapshot

Collateral density, remodeling, and VEGF-A expression differ widely between mouse strains

inferredcites →https://doi.org/10.1172/jci39733openalex-snapshot

Cerebrovascular dysfunction and microcirculation rarefaction precede white matter lesions in a mouse genetic model of cerebral ischemic small vessel disease

inferredcites →https://doi.org/10.1177/0271678x17698970openalex-snapshot

3D visualization and quantification of microvessels in the whole ischemic mouse brain using solvent-based clearing and light sheet microscopy

inferredcites →https://doi.org/10.1371/journal.pone.0022643openalex-snapshot

Three-Dimensional Imaging of the Mouse Neurovasculature with Magnetic Resonance Microscopy

inferredcites →https://doi.org/10.1371/journal.pone.0027385openalex-snapshot

A Computational Tool for Quantitative Analysis of Vascular Networks

inferredcites →https://doi.org/10.1371/journal.pone.0036893openalex-snapshot

Morphological and Pathological Evolution of the Brain Microcirculation in Aging and Alzheimer’s Disease

inferredcites →https://doi.org/10.14336/ad.2017.0613openalex-snapshot

CLARITY for High-resolution Imaging and Quantification of Vasculature in the Whole Mouse Brain

inferredcites →https://doi.org/10.1523/eneuro.0195-17.2017openalex-snapshot

Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography

inferredcites →https://doi.org/10.1523/jneurosci.5626-11.2012openalex-snapshot

Contrast-Enhanced Magnetic Resonance Microangiography Reveals Remodeling of the Cerebral Microvasculature in Transgenic ArcAβ Mice

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Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge

inferredcites →https://doi.org/10.2337/db09-0902openalex-snapshot

Adaptive Cerebral Neovascularization in a Model of Type 2 Diabetes

inferredcites →https://doi.org/10.3389/fnana.2017.00128openalex-snapshot

Precise Cerebral Vascular Atlas in Stereotaxic Coordinates of Whole Mouse Brain

inferredcites →https://doi.org/10.3389/fnins.2020.592352openalex-snapshot

DeepVesselNet: Vessel Segmentation, Centerline Prediction, and Bifurcation Detection in 3-D Angiographic Volumes

inferredcites →https://doi.org/10.48550/arxiv.1211.5590openalex-snapshot

Theano: new features and speed improvements

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Automated claustrum segmentation in human brain MRI using deep learning

inferred← citeshttps://doi.org/10.1016/j.cell.2020.01.028openalex-snapshot

Mapping the Fine-Scale Organization and Plasticity of the Brain Vasculature

inferred← citeshttps://doi.org/10.1016/j.cell.2020.01.030openalex-snapshot

Cellular and Molecular Probing of Intact Human Organs

inferred← citeshttps://doi.org/10.1016/j.compbiomed.2024.108140openalex-snapshot

Reconstructing microvascular network skeletons from 3D images: What is the ground truth?

inferred← citeshttps://doi.org/10.1016/j.jneumeth.2020.108594openalex-snapshot

Clearing techniques for visualizing the nervous system in development, injury, and disease

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Deep learning reveals 3D atherosclerotic plaque distribution and composition

inferred← citeshttps://doi.org/10.1073/pnas.1918465117openalex-snapshot

Mapping mesoscale axonal projections in the mouse brain using a 3D convolutional network

inferred← citeshttps://doi.org/10.1109/cvpr46437.2021.01629openalex-snapshot

clDice - a Novel Topology-Preserving Loss Function for Tubular Structure Segmentation

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Neuron Image Segmentation via Learning Deep Features and Enhancing Weak Neuronal Structures

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Structure-Guided Segmentation for 3D Neuron Reconstruction

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Neuron Segmentation via a Frequency and Spatial Domain–Integrated Encoder–Decoder Network

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Supplementary Data from Active Remodeling of Capillary Endothelium via Cancer Cell–Derived MMP9 Promotes Metastatic Brain Colonization

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Supplementary Data from Active Remodeling of Capillary Endothelium via Cancer Cell–Derived MMP9 Promotes Metastatic Brain Colonization

inferred← citeshttps://doi.org/10.2339/politeknik.1492002openalex-snapshot

Branch and End Points Detection in Cerebral Vessels Images Using Deep Learning Object Detection Techniques

inferred← citeshttps://doi.org/10.3389/fnins.2021.756577openalex-snapshot

Three-Dimensional Iron Oxide Nanoparticle-Based Contrast-Enhanced Magnetic Resonance Imaging for Characterization of Cerebral Arteriogenesis in the Mouse Neocortex

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Faculty Opinions recommendation of Mapping mesoscale axonal projections in the mouse brain using a 3D convolutional network.

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associated_data_Investigating the Effectiveness of clDice Loss for Road Crack Segmentation

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