AIMC Topic: Mice

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Bi-channel image registration and deep-learning segmentation (BIRDS) for efficient, versatile 3D mapping of mouse brain.

eLife Jan 18, 2021
We have developed an open-source software called bi-channel image registration and deep-learning segmentation (BIRDS) for the mapping and analysis of 3D microscopy data and applied this to the mouse brain. The BIRDS pipeline includes image preprocess...
Brain Mapping Deep Learning Image Processing, Computer-Assisted Mice Neural Networks, Computer Animals
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Automated joint skull-stripping and segmentation with Multi-Task U-Net in large mouse brain MRI databases.

NeuroImage Jan 14, 2021
Skull-stripping and region segmentation are fundamental steps in preclinical magnetic resonance imaging (MRI) studies, and these common procedures are usually performed manually. We present Multi-task U-Net (MU-Net), a convolutional neural network de...
Animals Male Image Processing, Computer-Assisted Mice Magnetic Resonance Imaging Mice, Inbred C57BL Databases, Factual Brain Female Neural Networks, Computer Skull
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Automated Extraction of Skin Wound Healing Biomarkers From In Vivo Label-Free Multiphoton Microscopy Using Convolutional Neural Networks.

Lasers in surgery and medicine Jan 13, 2021
BACKGROUND AND OBJECTIVES: Histological analysis is a gold standard technique for studying impaired skin wound healing. Label-free multiphoton microscopy (MPM) can provide natural image contrast similar to histological sections and quantitative metab...
Wound Healing Microscopy Animals Image Processing, Computer-Assisted Neural Networks, Computer Mice Biomarkers
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A novel retinal ganglion cell quantification tool based on deep learning.

Scientific reports Jan 12, 2021
Glaucoma is a disease associated with the loss of retinal ganglion cells (RGCs), and remains one of the primary causes of blindness worldwide. Major research efforts are presently directed towards the understanding of disease pathogenesis and the dev...
Cell Count Retinal Ganglion Cells Mice Mice, Inbred C57BL Software Glaucoma Animals Deep Learning
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Automated detection of mouse scratching behaviour using convolutional recurrent neural network.

Scientific reports Jan 12, 2021
Scratching is one of the most important behaviours in experimental animals because it can reflect itching and/or psychological stress. Here, we aimed to establish a novel method to detect scratching using deep neural network. Scratching was elicited ...
Dermatitis, Atopic Mice, Inbred BALB C Pruritus Behavior, Animal Female Animals Male Mice Lysophospholipids Disease Models, Animal Neural Networks, Computer
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Machine learning based CRISPR gRNA design for therapeutic exon skipping.

PLoS computational biology Jan 8, 2021
Restoring gene function by the induced skipping of deleterious exons has been shown to be effective for treating genetic disorders. However, many of the clinically successful therapies for exon skipping are transient oligonucleotide-based treatments ...
Humans Machine Learning CRISPR-Cas Systems Gene Editing Genetic Therapy Cells, Cultured Animals Mice Embryonic Stem Cells Gene Library RNA, Guide, CRISPR-Cas Systems Exons
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Optimal tuning of weighted kNN- and diffusion-based methods for denoising single cell genomics data.

PLoS computational biology Jan 7, 2021
The analysis of single-cell genomics data presents several statistical challenges, and extensive efforts have been made to produce methods for the analysis of this data that impute missing values, address sampling issues and quantify and correct for ...
Saccharomyces cerevisiae Algorithms Databases, Genetic Animals Single-Cell Analysis Cell Line Humans RNA-Seq Supervised Machine Learning Mice Genomics
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Nonhuman rationality: a predictive coding perspective.

Cognitive processing Jan 6, 2021
How can we rethink 'rationality' in the wake of animal and artificial intelligence studies? Can nonhuman systems be rational in any nontrivial sense? In this paper, we propose that all organisms, under certain circumstances, exhibit rationality to a ...
Humans Artificial Intelligence Probability Logic Philosophy Brain Animals Mice
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Multi-task learning for the simultaneous reconstruction of the human and mouse gene regulatory networks.

Scientific reports Dec 18, 2020
The reconstruction of Gene Regulatory Networks (GRNs) from gene expression data, supported by machine learning approaches, has received increasing attention in recent years. The task at hand is to identify regulatory links between genes in a network....
Mice Computational Biology Cluster Analysis Humans Gene Expression Regulation Animals Machine Learning Gene Expression Profiling Algorithms Gene Regulatory Networks
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A simple Ca-imaging approach to neural network analyses in cultured neurons.

Journal of neuroscience methods Dec 17, 2020
BACKGROUND: Ca-imaging is a powerful tool to measure neuronal dynamics and network activity. To monitor network-level changes in cultured neurons, neuronal activity is often evoked by electrical or optogenetic stimulation and assessed using multi-ele...
Action Potentials Neural Networks, Computer Neurons Cells, Cultured Algorithms Animals Optogenetics Mice
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