AIMC Topic: Phosphorylation

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DeepPSP: A Global-Local Information-Based Deep Neural Network for the Prediction of Protein Phosphorylation Sites.

Journal of proteome research Nov 26, 2020
Identification of phosphorylation sites is an important step in the function study and drug design of proteins. In recent years, there have been increasing applications of the computational method in the identification of phosphorylation sites becaus...
Computational Biology Neural Networks, Computer Proteins Phosphorylation Amino Acid Sequence
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In vitro and in silico genetic toxicity screening of flavor compounds and other ingredients in tobacco products with emphasis on ENDS.

Journal of applied toxicology : JAT Jul 13, 2020
Electronic nicotine delivery systems (ENDS) are regulated tobacco products and often contain flavor compounds. Given the concern of increased use and the appeal of ENDS by young people, evaluating the potential of flavors to induce DNA damage is impo...
Tumor Suppressor Protein p53 Flavoring Agents Quantitative Structure-Activity Relationship Mutagenicity Tests Phosphorylation Humans Models, Molecular Machine Learning DNA Damage Biomarkers Flow Cytometry Animals Histones Risk Assessment Electronic Nicotine Delivery Systems Mice Consumer Product Safety Rats Cell Line
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GPS-PBS: A Deep Learning Framework to Predict Phosphorylation Sites that Specifically Interact with Phosphoprotein-Binding Domains.

Cells May 20, 2020
Protein phosphorylation is essential for regulating cellular activities by modifying substrates at specific residues, which frequently interact with proteins containing phosphoprotein-binding domains (PPBDs) to propagate the phosphorylation signaling...
Animals Deep Learning Protein Binding Proteome Humans Algorithms Protein Domains Signal Transduction Phosphoproteins Databases, Protein Statistics as Topic Phosphorylation Binding Sites
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Artificial Intelligence Steering Molecular Therapy in the Absence of Information on Target Structure and Regulation.

Journal of chemical information and modeling Dec 4, 2019
Protein associations are at the core of biological activity, and the drug-based disruption of dysfunctional associations poses a major challenge to targeted therapy. The problem becomes daunting when the structure and regulated modulation of the comp...
Water Computational Biology Proteins Databases, Protein Artificial Intelligence Phosphorylation Molecular Targeted Therapy
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Automating Complex, Multistep Processes on a Single Robotic Platform to Generate Reproducible Phosphoproteomic Data.

SLAS discovery : advancing life sciences R & D Sep 26, 2019
Mass spectrometry-based phosphoproteomics holds promise for advancing drug treatment and disease diagnosis; however, its clinical translation has thus far been limited. This is in part due to an unstandardized and segmented sample preparation process...
Automation HCT116 Cells Phosphopeptides Humans Proteomics Mass Spectrometry Phosphorylation Robotics
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Boosting phosphorylation site prediction with sequence feature-based machine learning.

Proteins Aug 22, 2019
Protein phosphorylation is one of the essential posttranslation modifications playing a vital role in the regulation of many fundamental cellular processes. We propose a LightGBM-based computational approach that uses evolutionary, geometric, sequenc...
Serine Sequence Analysis, Protein Threonine Protein Conformation Species Specificity Tyrosine Binding Sites Databases, Protein Phosphorylation Models, Molecular Humans Animals Machine Learning Computational Biology Algorithms Protein Processing, Post-Translational Reproducibility of Results Proteins
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Assessment of Functional Phosphatidylinositol 3-Kinase Pathway Activity in Cancer Tissue Using Forkhead Box-O Target Gene Expression in a Knowledge-Based Computational Model.

The American journal of pathology Jul 6, 2018
The phosphatidylinositol 3-kinase (PI3K) pathway is commonly activated in cancer. Tumors are potentially sensitive to PI3K pathway inhibitors, but reliable diagnostic tests that assess functional PI3K activity are lacking. Because PI3K pathway activi...
Humans Female Breast Neoplasms Gene Expression Profiling Phosphatidylinositol 3-Kinases Computational Biology Forkhead Transcription Factors Superoxide Dismutase Knowledge Bases Cell Proliferation Diagnostic Tests, Routine Phosphorylation
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Machine Learning of Global Phosphoproteomic Profiles Enables Discrimination of Direct versus Indirect Kinase Substrates.

Molecular & cellular proteomics : MCP Mar 6, 2017
Mass spectrometry allows quantification of tens of thousands of phosphorylation sites from minute amounts of cellular material. Despite this wealth of information, our understanding of phosphorylation-based signaling is limited, in part because it is...
Saccharomyces cerevisiae Pyrimidines Substrate Specificity Saccharomyces cerevisiae Proteins Phosphoproteins Protein Kinases DNA Mutational Analysis Pyrazoles Algorithms Machine Learning Proteomics Phosphorylation
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Modulatory role of garlicin in migration and invasion of intrahepatic cholangiocarcinoma via PI3K/AKT pathway.

International journal of clinical and experimental pathology Nov 1, 2015
Increasing evidences have indicated the role of garlicin in inhibiting the progression of various tumors including glioma, pulmonary carcinoma and pancreatic carcinoma, via mediating cell apoptosis or cell cycle. The regulatory effect and related mol...
Phosphatidylinositol 3-Kinase Antineoplastic Agents, Phytogenic Phosphoinositide-3 Kinase Inhibitors Signal Transduction Humans Disulfides Phosphorylation Cell Movement Cell Line, Tumor Allyl Compounds Proto-Oncogene Proteins c-akt Neoplasm Invasiveness Cell Proliferation Protein Kinase Inhibitors Bile Duct Neoplasms Dose-Response Relationship, Drug Cholangiocarcinoma
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Systematic Analysis and Prediction of In Situ Cross Talk of O-GlcNAcylation and Phosphorylation.

BioMed research international Oct 27, 2015
Reversible posttranslational modification (PTM) plays a very important role in biological process by changing properties of proteins. As many proteins are multiply modified by PTMs, cross talk of PTMs is becoming an intriguing topic and draws much at...
Animals Mice Gene Ontology Rats Evolution, Molecular Humans Amino Acid Motifs Protein Processing, Post-Translational Proteins Acylation Phosphorylation Dogs
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