AIMC Topic: Signal Transduction

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A knowledge-based T2-statistic to perform pathway analysis for quantitative proteomic data.

PLoS computational biology Jun 16, 2017
Approaches to identify significant pathways from high-throughput quantitative data have been developed in recent years. Still, the analysis of proteomic data stays difficult because of limited sample size. This limitation also leads to the practice o...
Data Interpretation, Statistical Models, Biological Knowledge Bases Algorithms Computer Simulation Proteomics Proteome Signal Transduction Models, Statistical
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Data mining and pathway analysis of glucose-6-phosphate dehydrogenase with natural language processing.

Molecular medicine reports Jun 15, 2017
Human glucose-6-phosphate dehydrogenase (G6PD) is a crucial enzyme in the pentose phosphate pathway, and serves an important role in biosynthesis and the redox balance. G6PD deficiency is a major cause of neonatal jaundice and acute hemolyticanemia, ...
Data Mining Gene Ontology Signal Transduction Glucosephosphate Dehydrogenase Humans MicroRNAs Gene Regulatory Networks Natural Language Processing Metabolic Networks and Pathways Glucosephosphate Dehydrogenase Deficiency
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Prediction of synergistic anti-cancer drug combinations based on drug target network and drug induced gene expression profiles.

Artificial intelligence in medicine Jun 3, 2017
OBJECTIVE: Synergistic drug combinations are promising therapies for cancer treatment. However, effective prediction of synergistic drug combinations is quite challenging as mechanisms of drug synergism are still unclear. Various features such as dru...
Artificial Intelligence Gene Expression Regulation, Neoplastic Computer Simulation Signal Transduction Reproducibility of Results Antineoplastic Combined Chemotherapy Protocols Transcriptome Neoplasms Databases, Genetic Pharmacogenetics Gene Expression Profiling Drug Synergism Humans Protein Interaction Maps Gene Regulatory Networks Computational Biology
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Anti-inflammatory effect of cinnamaldehyde and linalool from the leaf essential oil of Cinnamomum osmophloeum Kanehira in endotoxin-induced mice.

Journal of food and drug analysis Apr 19, 2017
Cinnamomum osmophloeum Kanehira is a Taiwan native plant that belongs to genus Cinnamomum and is also known as pseudocinnamomum or indigenous cinnamon. Its leaf is traditionally used by local people in cooking and as folk therapy. We previously demon...
Signal Transduction Male Plant Leaves NLR Family, Pyrin Domain-Containing 3 Protein Oils, Volatile NF-kappa B Humans Cytokines Biomarkers Animals Anti-Inflammatory Agents Inflammation Mediators Acrolein Cinnamomum Endotoxins Mice Plant Extracts Inflammation
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Sensitive detection of rare disease-associated cell subsets via representation learning.

Nature communications Apr 6, 2017
Rare cell populations play a pivotal role in the initiation and progression of diseases such as cancer. However, the identification of such subpopulations remains a difficult task. This work describes CellCnn, a representation learning approach to de...
Leukemia Immunologic Memory Killer Cells, Natural T-Lymphocyte Subsets Rare Diseases Neoplasm, Residual Cytokines Prognosis Single-Cell Analysis Humans Monocytes Signal Transduction Acquired Immunodeficiency Syndrome Cytomegalovirus Infections Supervised Machine Learning Survival Analysis Neural Networks, Computer
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Identification of transcription factors that may reprogram lung adenocarcinoma.

Artificial intelligence in medicine Apr 1, 2017
BACKGROUND: Lung adenocarcinoma is one of most threatening disease to human health. Although many efforts have been devoted to its genetic study, few researches have been focused on the transcription factors which regulate tumor initiation and progre...
Humans Artificial Intelligence Gene Regulatory Networks Signal Transduction Transcription Factors Adenocarcinoma Databases, Genetic Cell Transformation, Neoplastic Lung Neoplasms Computational Biology Epigenesis, Genetic Gene Expression Regulation, Neoplastic Transcription, Genetic Adenocarcinoma of Lung
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Computational methods using genome-wide association studies to predict radiotherapy complications and to identify correlative molecular processes.

Scientific reports Feb 24, 2017
The biological cause of clinically observed variability of normal tissue damage following radiotherapy is poorly understood. We hypothesized that machine/statistical learning methods using single nucleotide polymorphism (SNP)-based genome-wide associ...
Humans Machine Learning Neoplasm Proteins Prognosis Prostatic Neoplasms Aged Genome-Wide Association Study Prostate Biomarkers, Tumor Cohort Studies Rectum Male Polymorphism, Single Nucleotide Middle Aged Gene Expression Regulation, Neoplastic Signal Transduction Hemorrhage Erectile Dysfunction Radiation Tolerance Gamma Rays
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Analysis of cancer-related lncRNAs using gene ontology and KEGG pathways.

Artificial intelligence in medicine Feb 13, 2017
BACKGROUND: Cancer is a disease that involves abnormal cell growth and can invade or metastasize to other tissues. It is known that several factors are related to its initiation, proliferation, and invasiveness. Recently, it has been reported that lo...
Humans Neoplasms Computational Biology Signal Transduction RNA, Long Noncoding Gene Ontology
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A system of recurrent neural networks for modularising, parameterising and dynamic analysis of cell signalling networks.

Bio Systems Feb 4, 2017
In this paper, we show how to extend our previously proposed novel continuous time Recurrent Neural Networks (RNN) approach that retains the advantage of continuous dynamics offered by Ordinary Differential Equations (ODE) while enabling parameter es...
Signal Transduction Models, Biological Cell Cycle Neural Networks, Computer Reproducibility of Results Feedback Animals Humans
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Achyranthes bidentate saponins protect rat articular chondrocytes against interleukin-1β-induced inflammation and apoptosis in vitro.

The Kaohsiung journal of medical sciences Dec 30, 2016
Achyranthes bidentate Blume (Niuxi) is often employed for treatment of arthritis in Traditional Chinese Medicine and possesses anti-inflammatory properties. Phytochemical and pharmacological studies proved the oleanane-type saponins to be the main bi...
Inflammation Signal Transduction Rats, Sprague-Dawley Apoptosis Caspase 3 Matrix Metalloproteinase 3 Matrix Metalloproteinase 9 Animals Gene Expression Regulation Anti-Inflammatory Agents, Non-Steroidal Primary Cell Culture bcl-2-Associated X Protein Proliferating Cell Nuclear Antigen Male Plant Roots Achyranthes Chondrocytes Cyclooxygenase 2 Plant Extracts bcl-Associated Death Protein Interleukin-1beta Saponins Cartilage, Articular Rats bcl-X Protein Tumor Suppressor Protein p53 NF-kappa B
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