AIMC Topic: Protein Transport

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Predicting protein subcellular location with network embedding and enrichment features.

Biochimica et biophysica acta. Proteins and proteomics Jun 25, 2020
The subcellular location of a protein is highly related to its function. Identifying the location of a given protein is an essential step for investigating its related problems. Traditional experimental methods can produce solid determination. Howeve...
Algorithms Protein Interaction Maps Protein Binding Protein Transport Gene Ontology Protein Interaction Mapping Intracellular Space Computational Biology Decision Trees Neural Networks, Computer Proteins
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A computational model of systems memory consolidation and reconsolidation.

Hippocampus Dec 24, 2019
In the mammalian brain, newly acquired memories depend on the hippocampus (HPC) for maintenance and recall, but over time, the neocortex takes over these functions, rendering memories HPC-independent. The process responsible for this transformation i...
Memory Consolidation Neural Networks, Computer Receptors, AMPA Protein Transport Animals Synaptic Transmission Hippocampus Long-Term Potentiation Humans
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DeepPhagy: a deep learning framework for quantitatively measuring autophagy activity in .

Autophagy Jun 20, 2019
Seeing is believing. The direct observation of GFP-Atg8 vacuolar delivery under confocal microscopy is one of the most useful end-point measurements for monitoring yeast macroautophagy/autophagy. However, manually labelling individual cells from larg...
Deep Learning Autophagy Lysosomes Saccharomyces cerevisiae Reproducibility of Results Autophagy-Related Proteins Phagosomes Protein Transport Saccharomyces cerevisiae Proteins Receptors, Cell Surface
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Development of Simplified in Vitro P-Glycoprotein Substrate Assay and in Silico Prediction Models To Evaluate Transport Potential of P-Glycoprotein.

Molecular pharmaceutics Apr 16, 2019
For efficient drug discovery and screening, it is necessary to simplify P-glycoprotein (P-gp) substrate assays and to provide in silico models that predict the transport potential of P-gp. In this study, we developed a simplified in vitro screening m...
Cell Membrane Permeability Protein Transport Intestinal Absorption Transfection Biological Availability Data Accuracy Animals ATP Binding Cassette Transporter, Subfamily B Drug Discovery LLC-PK1 Cells Swine ATP Binding Cassette Transporter, Subfamily B, Member 1 Drug Evaluation, Preclinical Central Nervous System Agents Machine Learning Computer Simulation Reproducibility of Results
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More Than Just a Removal Service: Scavenger Receptors in Leukocyte Trafficking.

Frontiers in immunology Dec 12, 2018
Scavenger receptors are a highly diverse superfamily of proteins which are grouped by their inherent ability to bind and internalize a wide array of structurally diverse ligands which can be either endogenous or exogenous in nature. Consequently, sca...
Ligands Lipoproteins, LDL Homeostasis Humans Leukocytes Protein Transport Receptors, Scavenger Cell Movement Atherosclerosis Apoptosis
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Predicting apoptosis protein subcellular localization by integrating auto-cross correlation and PSSM into Chou's PseAAC.

Journal of theoretical biology Sep 1, 2018
The prediction of subcellular localization of an apoptosis protein is still a challenging task, and existing methods mainly based on protein primary sequences. In this study, we propose a novel model called MACC-PSSM by integrating Moran autocorrelat...
Amino Acid Sequence Protein Transport Apoptosis Regulatory Proteins Computational Biology Databases, Protein Support Vector Machine Models, Biological Apoptosis
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Classifying the molecular functions of Rab GTPases in membrane trafficking using deep convolutional neural networks.

Analytical biochemistry Jun 13, 2018
Deep learning has been increasingly used to solve a number of problems with state-of-the-art performance in a wide variety of fields. In biology, deep learning can be applied to reduce feature extraction time and achieve high levels of performance. I...
Humans Neural Networks, Computer Machine Learning Choroideremia rab GTP-Binding Proteins Cell Membrane Neoplasms Protein Transport Neoplasm Proteins Intellectual Disability Models, Biological
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Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC.

Journal of theoretical biology Oct 31, 2017
Predicting protein subcellular location with support vector machine has been a popular research area recently because of the dramatic explosion of bioinformation. Though substantial achievements have been obtained, few researchers considered the prob...
Amino Acids Protein Transport Position-Specific Scoring Matrices Proteins Databases, Protein Principal Component Analysis Algorithms Computational Biology Support Vector Machine
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pLoc-mVirus: Predict subcellular localization of multi-location virus proteins via incorporating the optimal GO information into general PseAAC.

Gene Jul 18, 2017
Knowledge of subcellular locations of proteins is crucially important for in-depth understanding their functions in a cell. With the explosive growth of protein sequences generated in the postgenomic age, it is highly demanded to develop computationa...
Algorithms Gene Ontology Viral Proteins Intracellular Space Web Browser Computational Biology Databases, Protein Protein Transport
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MultiP-Apo: A Multilabel Predictor for Identifying Subcellular Locations of Apoptosis Proteins.

Computational intelligence and neuroscience Jul 4, 2017
Apoptosis proteins play an important role in the mechanism of programmed cell death. Predicting subcellular localization of apoptosis proteins is an essential step to understand their functions and identify drugs target. Many computational prediction...
Gene Ontology Intracellular Space Apoptosis Algorithms Proteins Computational Biology Protein Transport
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