AIMC Topic: Mice

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

Molecular & cellular proteomics : MCP Nov 1, 2021
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...
Phosphopeptides Humans Proteomics Cell Line Phosphorylation Animals Benchmarking Deep Learning Mice
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Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.

Nature methods Oct 28, 2021
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...
Software Brain Female Gene Expression Profiling Transcriptome Animals Chromatin Male Mice Deep Learning Gene Expression Regulation Mice, Inbred C57BL Regulatory Sequences, Nucleic Acid Single-Cell Analysis RNA-Seq
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A Graph Feature Auto-Encoder for the prediction of unobserved node features on biological networks.

BMC bioinformatics Oct 27, 2021
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...
Proteins Neural Networks, Computer Animals Computational Biology Escherichia coli Gene Regulatory Networks Mice
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Automated Mouse Pupil Size Measurement System to Assess Locus Coeruleus Activity with a Deep Learning-Based Approach.

Sensors (Basel, Switzerland) Oct 26, 2021
Strong evidence from studies on primates and rodents shows that changes in pupil diameter may reflect neural activity in the locus coeruleus (LC). Pupillometry is the only available non-invasive technique that could be used as a reliable and easily a...
Mice Light Pupil Locus Coeruleus Animals Deep Learning
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Robot-Assisted SpiderMass for Real-Time Topography Mass Spectrometry Imaging.

Analytical chemistry Oct 20, 2021
Mass spectrometry imaging (MSI) has shown to bring invaluable information for biological and clinical applications. However, conventional MSI is generally performed from tissue sections. Here, we developed a novel MS-based method for mass spectrome...
Mice Robotics Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization Animals Imaging, Three-Dimensional
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Deep learning-based classification of preclinical breast cancer tumor models using chemical exchange saturation transfer magnetic resonance imaging.

NMR in biomedicine Oct 19, 2021
Chemical exchange saturation transfer (CEST) magnetic resonance imaging has shown promise for classifying tumors based on their aggressiveness, but CEST contrast is complicated by multiple signal sources and thus prolonged acquisition times are often...
Magnetic Resonance Imaging Neural Networks, Computer Female Breast Neoplasms Cell Line, Tumor Mice Animals Deep Learning Humans
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Raman Spectroscopy and Machine Learning Reveals Early Tumor Microenvironmental Changes Induced by Immunotherapy.

Cancer research Oct 13, 2021
Cancer immunotherapy provides durable clinical benefit in only a small fraction of patients, and identifying these patients is difficult due to a lack of reliable biomarkers for prediction and evaluation of treatment response. Here, we demonstrate th...
Spectrum Analysis, Raman Mice, Inbred BALB C Colonic Neoplasms Tumor Cells, Cultured CTLA-4 Antigen Immune Checkpoint Inhibitors B7-H1 Antigen Machine Learning Mice Tumor Microenvironment Immunotherapy Animals
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MesoNet allows automated scaling and segmentation of mouse mesoscale cortical maps using machine learning.

Nature communications Oct 13, 2021
Understanding the basis of brain function requires knowledge of cortical operations over wide spatial scales and the quantitative analysis of brain activity in well-defined brain regions. Matching an anatomical atlas to brain functional data requires...
Animals Male Image Processing, Computer-Assisted Mice Machine Learning Algorithms Nerve Net Stereotaxic Techniques Mice, Transgenic Atlases as Topic Brain Mapping Cerebral Cortex Optical Imaging
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Mulberry leaves ameliorate diabetes via regulating metabolic profiling and AGEs/RAGE and p38 MAPK/NF-κB pathway.

Journal of ethnopharmacology Oct 6, 2021
ETHNOPHARMACOLOGICAL RELEVANCE: Mulberry leaves have been used as traditional hypoglycemic medicine-food plant for thousand years in China. According to traditional Chinese medicine theory, type 2 diabetes mellitus (T2DM) belongs to the category of X...
3T3-L1 Cells Glycation End Products, Advanced Hypoglycemic Agents Polysaccharides Hep G2 Cells Receptor for Advanced Glycation End Products Diabetes Mellitus, Type 2 Morus Humans Plant Leaves NF-kappa B Mice Alkaloids Animals Flavonoids p38 Mitogen-Activated Protein Kinases Plant Extracts Male Diabetes Mellitus, Experimental
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Integrating Statistical and Machine-Learning Approach for Meta-Analysis of Bisphenol A-Exposure Datasets Reveals Effects on Mouse Gene Expression within Pathways of Apoptosis and Cell Survival.

International journal of molecular sciences Oct 5, 2021
Bisphenols are important environmental pollutants that are extensively studied due to different detrimental effects, while the molecular mechanisms behind these effects are less well understood. Like other environmental pollutants, bisphenols are bei...
Mice Apoptosis Liver Cell Survival Animals Male Gene Expression Profiling Benzhydryl Compounds Datasets as Topic Gene Expression Regulation Air Pollutants, Occupational Models, Statistical Machine Learning Phenols Biomarkers Meta-Analysis as Topic
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