AIMC Topic: Mice

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Automatization and improvement of μCT analysis for murine lung disease models using a deep learning approach.

Respiratory research
BACKGROUND: One of the main diagnostic tools for lung diseases in humans is computed tomography (CT). A miniaturized version, micro-CT (μCT) is utilized to examine small rodents including mice. However, fully automated threshold-based segmentation an...

Automated detection of the head-twitch response using wavelet scalograms and a deep convolutional neural network.

Scientific reports
Hallucinogens induce the head-twitch response (HTR), a rapid reciprocal head movement, in mice. Although head twitches are usually identified by direct observation, they can also be assessed using a head-mounted magnet and a magnetometer. Procedures ...

CytoCensus, mapping cell identity and division in tissues and organs using machine learning.

eLife
A major challenge in cell and developmental biology is the automated identification and quantitation of cells in complex multilayered tissues. We developed CytoCensus: an easily deployed implementation of supervised machine learning that extends conv...

An Automated Segmentation Pipeline for Intratumoural Regions in Animal Xenografts Using Machine Learning and Saturation Transfer MRI.

Scientific reports
Saturation transfer MRI can be useful in the characterization of different tumour types. It is sensitive to tumour metabolism, microstructure, and microenvironment. This study aimed to use saturation transfer to differentiate between intratumoural re...

Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis.

Nature communications
Single-cell RNA sequencing (scRNA-seq) can characterize cell types and states through unsupervised clustering, but the ever increasing number of cells and batch effect impose computational challenges. We present DESC, an unsupervised deep embedding a...

Machine learning-guided evolution of BMP-2 knuckle Epitope-Derived osteogenic peptides to target BMP receptor II.

Journal of drug targeting
Bone morphogenetic protein-2 (BMP-2) is a key regulator of bone formation, growth and regeneration, which contains a conformational wrist epitope and a linear knuckle epitope that are functionally responsible for the protein by mediating its interact...

Neurotransmitter networks in mouse prefrontal cortex are reconfigured by isoflurane anesthesia.

Journal of neurophysiology
This study quantified eight small-molecule neurotransmitters collected simultaneously from prefrontal cortex of C57BL/6J mice ( = 23) during wakefulness and during isoflurane anesthesia (1.3%). Using isoflurane anesthesia as an independent variable e...

Efficient Position Decoding Methods Based on Fluorescence Calcium Imaging in the Mouse Hippocampus.

Neural computation
Large-scale fluorescence calcium imaging methods have become widely adopted for studies of long-term hippocampal and cortical neuronal dynamics. Pyramidal neurons of the rodent hippocampus show spatial tuning in freely foraging or head-fixed navigati...

Robust classification of cell cycle phase and biological feature extraction by image-based deep learning.

Molecular biology of the cell
Across the cell cycle, the subcellular organization undergoes major spatiotemporal changes that could in principle contain biological features that could potentially represent cell cycle phase. We applied convolutional neural network-based classifier...