AIMC Topic: Gene Ontology

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Molecular Investigation and Preliminary Validation of Candidate Genes Associated with Neurological Damage in Heat Stroke.

Molecular neurobiology Jan 31, 2024
Heat stroke (HS) is a severe medical condition characterized by a systemic inflammatory response that may precipitate multi-organ dysfunction, with a particular predilection for inducing profound central nervous system impairments. We aim to employ b...
Genetic Association Studies Computational Biology Protein Interaction Maps Humans Gene Regulatory Networks Reproducibility of Results Gene Ontology Gene Expression Profiling HSP90 Heat-Shock Proteins Signal Transduction Heat Stroke Databases, Genetic
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Using published pathway figures in enrichment analysis and machine learning.

BMC genomics Nov 25, 2023
Pathway Figure OCR (PFOCR) is a novel kind of pathway database approaching the breadth and depth of Gene Ontology while providing rich, mechanistic diagrams and direct literature support. Here, we highlight the utility of PFOCR in disease research in...
Neoplasms Gene Ontology Humans Machine Learning Databases, Factual
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Implementing link prediction in protein networks via feature fusion models based on graph neural networks.

Computational biology and chemistry Nov 5, 2023
MOTIVATION: Protein-protein interactions serve as the cornerstone for various biochemical processes within biological organisms. Existing research methodologies predominantly employ link prediction techniques to analyze these interaction networks. Ho...
Neural Networks, Computer Protein Interaction Maps Bayes Theorem Gene Ontology
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Identification of Potential Neddylation-related Key Genes in Ischemic Stroke based on Machine Learning Methods.

Molecular neurobiology Nov 1, 2023
Ischemic stroke (IS) is a complex neurological disease that can lead to severe disability or even death. Understanding the molecular mechanisms involved in the occurrence and progression of IS is of great significance for developing effective treatme...
Humans Machine Learning Gene Expression Profiling NEDD8 Protein Ischemic Stroke Gene Ontology Gene Regulatory Networks Databases, Genetic
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Discovering the mechanism of action of drugs with a sparse explainable network.

EBioMedicine Aug 24, 2023
BACKGROUND: Although Deep Neural Networks (DDNs) have been successful in predicting the efficacy of cancer drugs, the lack of explainability in their decision-making process is a significant challenge. Previous research proposed mimicking the Gene On...
Gene Ontology Drug Repositioning Mutation Artificial Intelligence Cell Line Humans
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Screening of the shared pathogenic genes of ulcerative colitis and colorectal cancer by integrated bioinformatics analysis.

Journal of cellular and molecular medicine Jul 26, 2023
Ulcerative colitis (UC) is one of the high-risk pathogenic factors for colorectal cancer (CRC). However, the shared gene and signalling mechanisms between UC and CRC remain unclear. The goal of this study was to delve more into the probable causal re...
Colorectal Neoplasms Colitis, Ulcerative Signal Transduction Gene Expression Profiling Gene Ontology Computational Biology Databases, Genetic Gene Expression Regulation, Neoplastic Humans Protein Interaction Maps Gene Regulatory Networks
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Predicting lifespan-extending chemical compounds for with machine learning and biologically interpretable features.

Aging Jul 13, 2023
Recently, there has been a growing interest in the development of pharmacological interventions targeting ageing, as well as in the use of machine learning for analysing ageing-related data. In this work, we use machine learning methods to analyse da...
Machine Learning Algorithms Aging Oxidation-Reduction Databases, Pharmaceutical Caenorhabditis elegans Glutathione Longevity Gene Ontology
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Self-prediction of relations in GO facilitates its quality auditing.

Journal of biomedical informatics Jul 10, 2023
As applications of the gene ontology (GO) increase rapidly in the biomedical field, quality auditing of it is becoming more and more important. Existing auditing methods are mostly based on rules, observed patterns or hypotheses. In this study, we pr...
Machine Learning Gene Ontology Biological Ontologies
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GOGCN: Graph Convolutional Network on Gene Ontology for Functional Similarity Analysis of Genes.

IEEE/ACM transactions on computational biology and bioinformatics Apr 3, 2023
The measurement of gene functional similarity plays a critical role in numerous biological applications, such as gene clustering, the construction of gene similarity networks. However, most existing approaches still rely heavily on traditional comput...
Gene Ontology Cluster Analysis Reproducibility of Results Knowledge Bases Gene Regulatory Networks
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A Deep Learning Framework for Predicting Protein Functions With Co-Occurrence of GO Terms.

IEEE/ACM transactions on computational biology and bioinformatics Apr 3, 2023
The understanding of protein functions is critical to many biological problems such as the development of new drugs and new crops. To reduce the huge gap between the increase of protein sequences and annotations of protein functions, many methods hav...
Gene Ontology Proteins Amino Acid Sequence Deep Learning
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