AIMC Topic: Mice

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Unlocking HDR-mediated nucleotide editing by identifying high-efficiency target sites using machine learning.

Scientific reports Feb 26, 2019
Editing individual nucleotides is a crucial component for validating genomic disease association. It is currently hampered by CRISPR-Cas-mediated "base editing" being limited to certain nucleotide changes, and only achievable within a small window ar...
Machine Learning RNA, Guide, CRISPR-Cas Systems Oligodeoxyribonucleotides Mutation Gene Editing DNA Breaks, Double-Stranded DNA Repair Animals Mice Mice, Inbred C57BL CRISPR-Cas Systems
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FunMappOne: a tool to hierarchically organize and visually navigate functional gene annotations in multiple experiments.

BMC bioinformatics Feb 15, 2019
BACKGROUND: Functional annotation of genes is an essential step in omics data analysis. Multiple databases and methods are currently available to summarize the functions of sets of genes into higher level representations, such as ontologies and molec...
Molecular Sequence Annotation Gene Ontology Computer Graphics Humans Genes Databases, Factual Software Animals Mice Computational Biology
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Objective risk stratification of prostate cancer using machine learning and radiomics applied to multiparametric magnetic resonance images.

Scientific reports Feb 7, 2019
Multiparametric magnetic resonance imaging (mpMRI) has become increasingly important for the clinical assessment of prostate cancer (PCa), but its interpretation is generally variable due to its relatively subjective nature. Radiomics and classificat...
Humans Machine Learning Reproducibility of Results Mice Animals Prostatic Neoplasms Immunohistochemistry Multiparametric Magnetic Resonance Imaging Male Risk Assessment Cell Line, Tumor Image Processing, Computer-Assisted
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Prediction of TF-Binding Site by Inclusion of Higher Order Position Dependencies.

IEEE/ACM transactions on computational biology and bioinformatics Jan 10, 2019
Most proposed methods for TF-binding site (TFBS) predictions only use low order dependencies for predictions due to the lack of efficient methods to extract higher order dependencies. In this work, we first propose a novel method to extract higher or...
Neural Networks, Computer Animals Protein Binding Mice Humans Proteins DNA Binding Sites Computational Biology Transcription Factors Databases, Genetic Models, Statistical
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DeepM6ASeq: prediction and characterization of m6A-containing sequences using deep learning.

BMC bioinformatics Dec 31, 2018
BACKGROUND: N6-methyladensine (m6A) is a common and abundant RNA methylation modification found in various species. As a type of post-transcriptional methylation, m6A plays an important role in diverse RNA activities such as alternative splicing, an ...
Methylation Adenosine Alternative Splicing Embryonic Stem Cells Computational Biology Sequence Analysis, RNA Zebrafish RNA Humans Deep Learning Brain Liver Neoplasms Animals Carcinoma, Hepatocellular Mice
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The Immunogenicity of the C Fragment of Tetanus Neurotoxin in Production of Tetanus Antitoxin.

BioMed research international Dec 31, 2018
The demand of tetanus antitoxin (TAT) as tetanus treatment in developing and underdeveloped countries is still great since it is relatively easy to achieve and affordable. However, there are still issues in the preparation of highly effective TAT wit...
Antibody Formation Mice, Inbred ICR Female Tetanus Animals Peptide Fragments Tetanus Antitoxin Male Antibodies Tetanus Toxin Mice Horses
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Automated Cell Counts on Tissue Sections by Deep Learning and Unbiased Stereology.

Journal of chemical neuroanatomy Dec 27, 2018
In recent decades stereology-based studies have played a significant role in understanding brain aging and developing novel drug discovery strategies for treatment of neurological disease and mental illness. A major obstacle to further progress in a ...
Brain Animals Deep Learning Imaging, Three-Dimensional Image Processing, Computer-Assisted Mice Cell Count
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Fast animal pose estimation using deep neural networks.

Nature methods Dec 20, 2018
The need for automated and efficient systems for tracking full animal pose has increased with the complexity of behavioral data and analyses. Here we introduce LEAP (LEAP estimates animal pose), a deep-learning-based method for predicting the positio...
Locomotion Drosophila melanogaster Computer Graphics Male Deep Learning User-Computer Interface Mice Gait Automation Pattern Recognition, Automated Behavior, Animal Neural Networks, Computer Algorithms Animals
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Machine vision analysis on abnormal respiratory conditions of mice inhaling particles containing cadmium.

Ecotoxicology and environmental safety Dec 18, 2018
Inhalable environmental toxicants can induce pulmonary malfunction resulting abnormal respiratory conditions. The traditional methods currently available to detect the respiratory condition of animals rely on differential pressure transducers and sig...
Mice, Inbred Strains Respiration Inhalation Exposure Respiratory Function Tests Aerosols Occupational Exposure Models, Theoretical Dose-Response Relationship, Drug Animals Particle Size Air Pollutants Machine Learning Male Particulate Matter Lung Cadmium Mice Video Recording
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Degradation of TRPML1 in Neurons Reduces Neuron Survival in Transient Global Cerebral Ischemia.

Oxidative medicine and cellular longevity Dec 18, 2018
Postcardiac arrest syndrome yields poor neurological outcomes, but the mechanisms underlying this condition remain poorly understood. Autophagy plays an important role in neuronal apoptosis induced by ischemia. However, whether autophagy is involved ...
Reperfusion Injury Astrocytes Cells, Cultured Autophagy Neurons Phthalimides Animals Transient Receptor Potential Channels Mice Ischemic Attack, Transient Male Disease Models, Animal Microtubule-Associated Proteins Oxidative Stress Apoptosis Quinolines Mice, Inbred C57BL
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