AIMC Topic: Mice

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Quantitative imaging of apoptosis following oncolytic virotherapy by magnetic resonance fingerprinting aided by deep learning.

Nature biomedical engineering
Non-invasive imaging methods for detecting intratumoural viral spread and host responses to oncolytic virotherapy are either slow, lack specificity or require the use of radioactive or metal-based contrast agents. Here we show that in mice with gliob...

Detecting fine and elaborate movements with piezo sensors provides non-invasive access to overlooked behavioral components.

Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology
Behavioral phenotyping devices have been successfully used to build ethograms, but many aspects of behavior remain out of reach of available phenotyping systems. We now report on a novel device, which consists in an open-field platform resting on hig...

Three-Dimensional Visualization of the Podocyte Actin Network Using Integrated Membrane Extraction, Electron Microscopy, and Machine Learning.

Journal of the American Society of Nephrology : JASN
BACKGROUND: Actin stress fibers are abundant in cultured cells, but little is known about them . In podocytes, much evidence suggests that mechanobiologic mechanisms underlie podocyte shape and adhesion in health and in injury, with structural change...

Ultrasound deep learning for monitoring of flow-vessel dynamics in murine carotid artery.

Ultrasonics
Several arterial diseases are closely related with mechanical properties of the blood vessel and interactions of flow-vessel dynamics such as mean flow velocity, wall shear stress (WSS) and vascular strain. However, there is an opportunity to improve...

High-Throughput, Label-Free and Slide-Free Histological Imaging by Computational Microscopy and Unsupervised Learning.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
Rapid and high-resolution histological imaging with minimal tissue preparation has long been a challenging and yet captivating medical pursuit. Here, the authors propose a promising and transformative histological imaging method, termed computational...

Chemometric analysis in Raman spectroscopy from experimental design to machine learning-based modeling.

Nature protocols
Raman spectroscopy is increasingly being used in biology, forensics, diagnostics, pharmaceutics and food science applications. This growth is triggered not only by improvements in the computational and experimental setups but also by the development ...

Deep learning is widely applicable to phenotyping embryonic development and disease.

Development (Cambridge, England)
Genome editing simplifies the generation of new animal models for congenital disorders. However, the detailed and unbiased phenotypic assessment of altered embryonic development remains a challenge. Here, we explore how deep learning (U-Net) can auto...

Deep-Learning-Derived Evaluation Metrics Enable Effective Benchmarking of Computational Tools for Phosphopeptide Identification.

Molecular & cellular proteomics : MCP
Tandem mass spectrometry (MS/MS)-based phosphoproteomics is a powerful technology for global phosphorylation analysis. However, applying four computational pipelines to a typical mass spectrometry (MS)-based phosphoproteomic dataset from a human canc...

Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.

Nature methods
Charting an organs' biological atlas requires us to spatially resolve the entire single-cell transcriptome, and to relate such cellular features to the anatomical scale. Single-cell and single-nucleus RNA-seq (sc/snRNA-seq) can profile cells comprehe...

A Graph Feature Auto-Encoder for the prediction of unobserved node features on biological networks.

BMC bioinformatics
BACKGROUND: Molecular interaction networks summarize complex biological processes as graphs, whose structure is informative of biological function at multiple scales. Simultaneously, omics technologies measure the variation or activity of genes, prot...