AIMC Topic: Mice

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Deep Collaborative Filtering for Prediction of Disease Genes.

IEEE/ACM transactions on computational biology and bioinformatics Mar 26, 2019
Accurate prioritization of potential disease genes is a fundamental challenge in biomedical research. Various algorithms have been developed to solve such problems. Inductive Matrix Completion (IMC) is one of the most reliable models for its well-est...
Computational Biology Databases, Genetic Disease Genes Humans Animals Algorithms Deep Learning Mice Genetic Association Studies
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Large-scale network analysis reveals the sequence space architecture of antibody repertoires.

Nature communications Mar 21, 2019
The architecture of mouse and human antibody repertoires is defined by the sequence similarity networks of the clones that compose them. The major principles that define the architecture of antibody repertoires have remained largely unknown. Here, we...
Ovalbumin Muramidase Amino Acid Motifs Humans Hepatitis B Surface Antigens Peptide Library Neural Networks, Computer Datasets as Topic Immunization Animals Single-Chain Antibodies B-Lymphocytes Mice Antigens Clone Cells
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Scalable analysis of cell-type composition from single-cell transcriptomics using deep recurrent learning.

Nature methods Mar 18, 2019
Recent advances in large-scale single-cell RNA-seq enable fine-grained characterization of phenotypically distinct cellular states in heterogeneous tissues. We present scScope, a scalable deep-learning-based approach that can accurately and rapidly i...
Deep Learning Single-Cell Analysis Mice Computational Biology Animals Leukocytes, Mononuclear Gene Expression Profiling Transcriptome Cluster Analysis Brain Mapping Principal Component Analysis Retina Sequence Analysis, RNA Intestines Inflammation Databases, Genetic Software Algorithms Phenotype Computer Simulation Reproducibility of Results RNA
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Posterior scleral deformations around optic disc are associated with visual field damage in open-angle glaucoma patients with myopia.

PloS one Mar 15, 2019
PURPOSE: To identify important variables associated with visual field (VF) defects in open-angle glaucoma (OAG) with myopia.
Humans Male Neural Networks, Computer Sclera Middle Aged Glaucoma Adult Logistic Models Myopia Cross-Sectional Studies Mice Optic Disk Intraocular Pressure Visual Fields Animals Visual Field Tests
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TADKB: Family classification and a knowledge base of topologically associating domains.

BMC genomics Mar 14, 2019
BACKGROUND: Topologically associating domains (TADs) are considered the structural and functional units of the genome. However, there is a lack of an integrated resource for TADs in the literature where researchers can obtain family classifications a...
Humans Mice Multigene Family Algorithms Genomics Gene Expression Regulation Chromosomes, Mammalian Animals RNA, Long Noncoding Genome Knowledge Bases Chromatin Assembly and Disassembly
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Deep convolutional neural networks for segmenting 3D in vivo multiphoton images of vasculature in Alzheimer disease mouse models.

PloS one Mar 13, 2019
The health and function of tissue rely on its vasculature network to provide reliable blood perfusion. Volumetric imaging approaches, such as multiphoton microscopy, are able to generate detailed 3D images of blood vessels that could contribute to ou...
Cerebral Cortex Mice, Transgenic Cerebral Angiography Microscopy, Fluorescence, Multiphoton Humans Imaging, Three-Dimensional Neural Networks, Computer Mice Animals Disease Models, Animal Alzheimer Disease
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Quantitative evaluation of ontology design patterns for combining pathology and anatomy ontologies.

Scientific reports Mar 11, 2019
Data are increasingly annotated with multiple ontologies to capture rich information about the features of the subject under investigation. Analysis may be performed over each ontology separately, but recently there has been a move to combine multipl...
Datasets as Topic Databases as Topic Semantics Biological Ontologies Male Aging Data Science Mice Algorithms Female Animals
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Powders with small microparticle size from and exhibited high preventive antioxidant activity against HO-induced oxidative stress in mouse primary spleen cells.

International journal for vitamin and nutrition research. Internationale Zeitschrift fur Vitamin- und Ernahrungsforschung. Journal international de vitaminologie et de nutrition Mar 7, 2019
The purpose of this study was to examine the effects of powder particle size on the cytoprotective and antioxidant activity of (HH) and (SN), two medicinal plants more commonly known as ivy and figwort, against HO-induced oxidative stress in mouse ...
Powders Antioxidants Spleen Malondialdehyde Glutathione Peroxidase Animals Hedera Superoxide Dismutase Scrophularia Hydrogen Peroxide Catalase Oxidative Stress Mice
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Automatic ground truth for deep learning stereology of immunostained neurons and microglia in mouse neocortex.

Journal of chemical neuroanatomy Mar 2, 2019
Collection of unbiased stereology data currently relies on relatively simple, low throughput technology developed in the mid-1990s. In an effort to improve the accuracy and efficiency of these integrated hardware-software-digital microscopy systems, ...
Microglia Cell Count Neurons Histological Techniques Neocortex Animals Deep Learning Image Processing, Computer-Assisted Mice
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MaGIC: a machine learning tool set and web application for monoallelic gene inference from chromatin.

BMC bioinformatics Feb 28, 2019
BACKGROUND: A large fraction of human and mouse autosomal genes are subject to random monoallelic expression (MAE), an epigenetic mechanism characterized by allele-specific gene expression that varies between clonal cell lineages. MAE is highly cell-...
Humans Machine Learning Software Reproducibility of Results Animals Mice Internet Alleles Genes Chromatin
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