AIMC Topic: Mice, Knockout

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Single-cell transcriptome reveals the novel role of T-bet in suppressing the immature NK gene signature.

eLife May 14, 2020
The transcriptional activation and repression during NK cell ontology are poorly understood. Here, using single-cell RNA-sequencing, we reveal a novel role for T-bet in suppressing the immature gene signature during murine NK cell development. Based ...
RNA-Seq Machine Learning Genotype Cluster Analysis Mice, Inbred C57BL Mechanistic Target of Rapamycin Complex 2 Phenotype Mice, Knockout Animals Rapamycin-Insensitive Companion of mTOR Protein Gene Expression Profiling Regulatory-Associated Protein of mTOR Transcriptome T-Box Domain Proteins Single-Cell Analysis T-bet Transcription Factor Proto-Oncogene Proteins c-akt Bone Marrow Cells Gene Expression Regulation Killer Cells, Natural Forkhead Box Protein O1
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Machine learning predicts putative hematopoietic stem cells within large single-cell transcriptomics data sets.

Experimental hematology Sep 9, 2019
Hematopoietic stem cells (HSCs) are an essential source and reservoir for normal hematopoiesis, and their function is compromised in many blood disorders. HSC research has benefitted from the recent development of single-cell molecular profiling tech...
Machine Learning Animals Gene Expression Profiling Transcriptome Mice Sequence Analysis, RNA Mice, Knockout Hematopoietic Stem Cells
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Detection and Classification of Novel Renal Histologic Phenotypes Using Deep Neural Networks.

The American journal of pathology Jun 18, 2019
With the advent and increased accessibility of deep neural networks (DNNs), complex properties of histologic images can be rigorously and reproducibly quantified. We used DNN-based transfer learning to analyze histologic images of periodic acid-Schif...
Image Processing, Computer-Assisted Aldehyde Oxidoreductases Mice Kidney Neural Networks, Computer Mice, Knockout Phenotype Neural Pathways Animals Male
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Real-time analysis of the behaviour of groups of mice via a depth-sensing camera and machine learning.

Nature biomedical engineering May 20, 2019
Preclinical studies of psychiatric disorders use animal models to investigate the impact of environmental factors or genetic mutations on complex traits such as decision-making and social interactions. Here, we introduce a method for the real-time an...
Machine Learning Phenotype Female Animals Male Video Recording Autistic Disorder Behavior, Animal Behavioral Research Social Behavior Mice Disease Models, Animal Nerve Tissue Proteins Mice, Knockout Mutation Microfilament Proteins
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Refining humane endpoints in mouse models of disease by systematic review and machine learning-based endpoint definition.

ALTEX Apr 18, 2019
Ideally, humane endpoints allow for early termination of experiments by minimizing an animal's discomfort, distress and pain, while ensuring that scientific objectives are reached. Yet, lack of commonly agreed methodology and heterogeneity of cut-off...
Supervised Machine Learning Animal Welfare Random Allocation Body Temperature Ethical Review Severity of Illness Index Sepsis Time Factors Mice Disease Models, Animal Mice, Inbred C57BL Mice, Knockout Systematic Reviews as Topic Stroke Body Weight Female Animals Male
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Morphometric analysis of peripheral myelinated nerve fibers through deep learning.

Journal of the peripheral nervous system : JPNS Dec 11, 2018
Irrespective of initial causes of neurological diseases, these disorders usually exhibit two key pathological changes-axonal loss or demyelination or a mixture of the two. Therefore, vigorous quantification of myelin and axons is essential in studyin...
Pattern Recognition, Automated Nerve Fibers, Myelinated Mice, Inbred C57BL Mice, Knockout Microscopy Axons Animals Deep Learning Mice
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Deep learning-based quantification of abdominal fat on magnetic resonance images.

PloS one Sep 20, 2018
Obesity is increasingly prevalent and associated with increased risk of developing type 2 diabetes, cardiovascular diseases, and cancer. Magnetic resonance imaging (MRI) is an accurate method for determination of body fat volume and distribution. How...
Phenotype Organ Specificity Abdominal Fat Intra-Abdominal Fat Apolipoproteins E Mice, Inbred C57BL Diet, Western Subcutaneous Fat Female Adipose Tissue Mice, Inbred C3H Animals Mice, Knockout Male Body Weight Deep Learning Automation Magnetic Resonance Imaging
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TIGERi: modeling and visualizing the responses to perturbation of a transcription factor network.

BMC bioinformatics May 31, 2017
BACKGROUND: Transcription factor (TF) networks play a key role in controlling the transfer of genetic information from gene to mRNA. Much progress has been made on understanding and reverse-engineering TF network topologies using a range of experimen...
Machine Learning Animals Transcriptome Gene Regulatory Networks Mice Transcription Factors Mice, Knockout Binding Sites Mitogen-Activated Protein Kinase 14
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and cell-based analyses reveal strong divergence between prediction and observation of T-cell-recognized tumor antigen T-cell epitopes.

The Journal of biological chemistry May 23, 2017
Tumor exomes provide comprehensive information on mutated, overexpressed genes and aberrant splicing, which can be exploited for personalized cancer immunotherapy. Of particular interest are mutated tumor antigen T-cell epitopes, because neoepitope-s...
HLA-A2 Antigen Protein Stability Expert Systems Oligopeptides Immunogenicity, Vaccine Mice, Transgenic Models, Immunological Protein Refolding T-Lymphocytes, Cytotoxic Humans Membrane Proteins Artificial Intelligence Neoplasm Proteins Cells, Cultured Animals Mice, Knockout Melanoma Computational Biology Peptide Fragments Reproducibility of Results Cancer Vaccines Epitopes Antigens, Neoplasm Vaccines, Synthetic
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Adaptations to excess choline in insulin resistant and Pcyt2 deficient skeletal muscle.

Biochemistry and cell biology = Biochimie et biologie cellulaire Sep 6, 2016
It was hypothesized that choline supplementation in insulin resistant (IR) CTP:phosphoethanolamine cytidylyltransferase deficient (Pcyt2) mice would ameliorate muscle function by remodeling glucose and fatty acid (FA) metabolism. Pcyt2 mice either re...
fas Receptor Diacylglycerol O-Acyltransferase Insulin Receptor Substrate Proteins Organic Cation Transport Proteins RNA Nucleotidyltransferases Sterol Regulatory Element Binding Protein 1 Choline Gene Expression Regulation PPAR alpha Triglycerides Muscle, Skeletal Animals Peroxisome Proliferator-Activated Receptor Gamma Coactivator 1-alpha Microtubule-Associated Proteins Mice, Knockout Mice Stearoyl-CoA Desaturase Glucose Insulin Resistance Lipogenesis Fatty Acids Signal Transduction Adaptation, Physiological Administration, Oral Carnitine O-Palmitoyltransferase
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