AIMC Topic: Signal Transduction

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Poly(A)-DG: A deep-learning-based domain generalization method to identify cross-species Poly(A) signal without prior knowledge from target species.

PLoS computational biology Nov 5, 2020
In eukaryotes, polyadenylation (poly(A)) is an essential process during mRNA maturation. Identifying the cis-determinants of poly(A) signal (PAS) on the DNA sequence is the key to understand the mechanism of translation regulation and mRNA metabolism...
Signal Transduction Species Specificity Poly A Deoxyguanosine Humans Neural Networks, Computer Animals Deep Learning
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Prediction of Specific TCR-Peptide Binding From Large Dictionaries of TCR-Peptide Pairs.

Frontiers in immunology Aug 25, 2020
Current sequencing methods allow for detailed samples of T cell receptors (TCR) repertoires. To determine from a repertoire whether its host had been exposed to a target, computational tools that predict TCR-epitope binding are required. Currents too...
Protein Binding Signal Transduction Databases, Protein Ligands Antigens Binding Sites Protein Interaction Domains and Motifs Epitopes, T-Lymphocyte Peptides Deep Learning Receptors, Antigen, T-Cell Humans Software T-Lymphocytes
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Knowledge-primed neural networks enable biologically interpretable deep learning on single-cell sequencing data.

Genome biology Aug 3, 2020
BACKGROUND: Deep learning has emerged as a versatile approach for predicting complex biological phenomena. However, its utility for biological discovery has so far been limited, given that generic deep neural networks provide little insight into the ...
Single-Cell Analysis Receptors, Antigen, T-Cell Sequence Analysis, RNA Signal Transduction Humans Deep Learning
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Exploration of the mechanism of traditional Chinese medicine by AI approach using unsupervised machine learning for cellular functional similarity of compounds in heterogeneous networks, XiaoErFuPi granules as an example.

Pharmacological research Jul 17, 2020
'Polypharmacology' is usually used to describe the network-wide effect of a single compound, but traditional Chinese medicine (TCM) has a polypharmacological effect naturally based on the 'multi-components, multi-targets and multi-pathways' principle...
Humans Animals Male Polypharmacology Dyspepsia Signal Transduction Medicine, Chinese Traditional Rats, Sprague-Dawley Cluster Analysis Unsupervised Machine Learning Structure-Activity Relationship Molecular Structure Drugs, Chinese Herbal Systems Biology Duodenum Proteomics Proteome Gene Expression Profiling Transcriptome Protein Interaction Maps Gene Regulatory Networks
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Ab initio GO-based mining for non-tandem-duplicated functional clusters in three model plant diploid genomes.

PloS one Jun 19, 2020
A functional Non-Tandem Duplicated Cluster (FNTDC) is a group of non-tandem-duplicated genes that are located closer than expected by mere chance and have a role in the same biological function. The identification of secondary-compounds-related FNTDC...
Plant Proteins Gene Duplication Gene Ontology Genome, Plant Databases, Genetic Oryza Vitis Multigene Family Arabidopsis Diploidy Signal Transduction
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Exploring the mechanism of TCM formulae in the treatment of different types of coronary heart disease by network pharmacology and machining learning.

Pharmacological research Jun 18, 2020
Traditional Chinese medicine (TCM) has long been used in the clinical treatment of coronary heart disease (CHD). TCM is characterized by syndrome-based medication, which is, using different TCM formulae for different syndromes. However, the underlyin...
Drugs, Chinese Herbal Coronary Disease Cardiovascular Agents Medicine, Chinese Traditional Cluster Analysis Databases, Protein Humans Machine Learning Protein Interaction Maps Signal Transduction Treatment Outcome
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Insight into potent leads for alzheimer's disease by using several artificial intelligence algorithms.

Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie Jun 16, 2020
Several proteins including S-nitrosoglutathione reductase (GSNOR), complement Factor D, complement 3b (C3b) and Protein Kinase R-like Endoplasmic Reticulum Kinase (PERK), have been demonstrated to be involved in pathogenesis pathways for Alzheimer's ...
Alzheimer Disease Molecular Targeted Therapy Quantitative Structure-Activity Relationship Nootropic Agents Cognition Signal Transduction Molecular Structure Molecular Dynamics Simulation Artificial Intelligence Brain Animals Molecular Docking Simulation Computer-Aided Design Drug Design Drug Discovery Plant Extracts Humans
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Identification of feature risk pathways of smoking-induced lung cancer based on SVM.

PloS one Jun 4, 2020
OBJECTIVE: The present study aims to explore the role of smoking factors in the risk of lung cancer and screen the feature risk pathways of smoking-induced lung cancer.
Gene Ontology Protein Interaction Mapping Area Under Curve High-Throughput Nucleotide Sequencing Smoking DNA, Neoplasm Support Vector Machine Databases, Genetic Cluster Analysis Gene Expression Profiling ROC Curve Lung Neoplasms Signal Transduction Humans Risk Factors
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Using Reactome to build an autophagy mechanism knowledgebase.

Autophagy Jun 2, 2020
The 21st century has revealed much about the fundamental cellular process of autophagy. Autophagy controls the catabolism and recycling of various cellular components both as a constitutive process and as a response to stress and foreign material inv...
Gene Ontology Software Signal Transduction Autophagy Knowledge Bases
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Beyond the limitation of targeted therapy: Improve the application of targeted drugs combining genomic data with machine learning.

Pharmacological research May 28, 2020
Precision oncology involves effectively selecting drugs for cancer patients and planning an effective treatment regimen. However, for Molecular targeted drug, using genomic state of the drug target to select drugs has limitations. Many patients who c...
Humans Machine Learning Decision Support Techniques Precision Medicine Clinical Decision-Making Biomarkers, Tumor Models, Statistical Drug Screening Assays, Antitumor Molecular Targeted Therapy Genomics Gene Expression Regulation, Neoplastic Signal Transduction Databases, Genetic Neoplasms Antineoplastic Agents Pharmacogenetics Cell Line, Tumor
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