AIMC Topic: Mice

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Transfer String Kernel for Cross-Context DNA-Protein Binding Prediction.

IEEE/ACM transactions on computational biology and bioinformatics Sep 15, 2016
Through sequence-based classification, this paper tries to accurately predict the DNA binding sites of transcription factors (TFs) in an unannotated cellular context. Related methods in the literature fail to perform such predictions accurately, sinc...
Humans Machine Learning Computational Biology Models, Statistical DNA DNA-Binding Proteins Algorithms Animals Protein Binding Mice
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Uncertainty Quantification of Oscillation Suppression During DBS in a Coupled Finite Element and Network Model.

IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society Sep 13, 2016
Models of the cortico-basal ganglia network and volume conductor models of the brain can provide insight into the mechanisms of action of deep brain stimulation (DBS). In this study, the coupling of a network model, under parkinsonian conditions, to ...
Basal Ganglia Subthalamic Nucleus Stochastic Processes Finite Element Analysis Animals Uncertainty Mice Electrodes, Implanted Neural Networks, Computer Models, Neurological Mice, Inbred C57BL Computer Simulation Parkinson Disease Deep Brain Stimulation Nonlinear Dynamics Cerebral Cortex
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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...
Mice Insulin Receptor Substrate Proteins Insulin Resistance Organic Cation Transport Proteins Signal Transduction Muscle, Skeletal RNA Nucleotidyltransferases Choline Mice, Knockout Lipogenesis Sterol Regulatory Element Binding Protein 1 Animals fas Receptor Gene Expression Regulation Glucose Adaptation, Physiological Microtubule-Associated Proteins Fatty Acids Carnitine O-Palmitoyltransferase PPAR alpha Peroxisome Proliferator-Activated Receptor Gamma Coactivator 1-alpha Administration, Oral Diacylglycerol O-Acyltransferase Triglycerides Stearoyl-CoA Desaturase
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Training and evaluation corpora for the extraction of causal relationships encoded in biological expression language (BEL).

Database : the journal of biological databases and curation Aug 23, 2016
Success in extracting biological relationships is mainly dependent on the complexity of the task as well as the availability of high-quality training data. Here, we describe the new corpora in the systems biology modeling language BEL for training an...
Humans Animals Mice Natural Language Processing Data Mining Data Curation
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ANTIOXIDANT ACTIVITY AND HEPATOPROTECTIVE EFFECTS OF COMPOUND .

African journal of traditional, complementary, and alternative medicines : AJTCAM Aug 12, 2016
BACKGROUND: Chinese medicine has its own uniqueness, advantageous in the treatment of hepatic diseases, and they were widely used in the oxidation. At the same time, oxidation is one of the mechanism of protect liver.
Protective Agents Oxidation-Reduction Carbon Tetrachloride Drugs, Chinese Herbal Chemical and Drug Induced Liver Injury Antioxidants Aspartate Aminotransferases Animals Alanine Transaminase Lobelia Malondialdehyde Benzothiazoles Male Superoxide Dismutase Sulfonic Acids Mice Liver Phytotherapy
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Identification of informative genes and pathways using an improved penalized support vector machine with a weighting scheme.

Computers in biology and medicine Aug 4, 2016
Incorporation of pathway knowledge into microarray analysis has brought better biological interpretation of the analysis outcome. However, most pathway data are manually curated without specific biological context. Non-informative genes could be incl...
Neoplasms Gene Expression Profiling Transcriptome Gene Regulatory Networks Humans Animals Microarray Analysis Mice Cell Cycle Computational Biology Support Vector Machine Apoptosis
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A neural network-based method for spectral distortion correction in photon counting x-ray CT.

Physics in medicine and biology Jul 29, 2016
Spectral CT using a photon counting x-ray detector (PCXD) shows great potential for measuring material composition based on energy dependent x-ray attenuation. Spectral CT is especially suited for imaging with K-edge contrast agents to address the ot...
Neural Networks, Computer Algorithms Tomography, X-Ray Computed Animals Mice Mice, Inbred C57BL Photons Radiographic Image Interpretation, Computer-Assisted Artifacts Phantoms, Imaging
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Autofocusing and Polar Body Detection in Automated Cell Manipulation.

IEEE transactions on bio-medical engineering Jul 13, 2016
Autofocusing and feature detection are two essential processes for performing automated biological cell manipulation tasks. In this paper, we have introduced a technique capable of focusing on a holding pipette and a mammalian cell under a bright-fie...
Polar Bodies Animals Mice Robotics Cells, Cultured Image Interpretation, Computer-Assisted Reproducibility of Results Image Enhancement Sensitivity and Specificity Cell Separation Cell Tracking Micromanipulation
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The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins.

Database : the journal of biological databases and curation Jul 3, 2016
Genomics, epigenomics, transcriptomics, proteomics and metabolomics efforts rapidly generate a plethora of data on the activity and levels of biomolecules within mammalian cells. At the same time, curation projects that organize knowledge from the bi...
Data Mining Databases, Nucleic Acid Machine Learning Animals Mice Humans Databases, Protein
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Machine Learning Model Analysis and Data Visualization with Small Molecules Tested in a Mouse Model of Mycobacterium tuberculosis Infection (2014-2015).

Journal of chemical information and modeling Jul 1, 2016
The renewed urgency to develop new treatments for Mycobacterium tuberculosis (Mtb) infection has resulted in large-scale phenotypic screening and thousands of new active compounds in vitro. The next challenge is to identify candidates to pursue in a ...
Mice Computational Biology Disease Models, Animal Bayes Theorem Machine Learning Animals Drug Discovery Tuberculosis Mycobacterium tuberculosis
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