AIMC Topic: Gene Regulatory Networks

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Machine learning approach to gene essentiality prediction: a review.

Briefings in bioinformatics Sep 2, 2021
UNLABELLED: Essential genes are critical for the growth and survival of any organism. The machine learning approach complements the experimental methods to minimize the resources required for essentiality assays. Previous studies revealed the need to...
Humans Machine Learning Algorithms Support Vector Machine Genes, Essential Animals Gene Ontology Gene Regulatory Networks Caenorhabditis elegans Computational Biology
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Venn diagrams in bioinformatics.

Briefings in bioinformatics Sep 2, 2021
Venn diagrams are widely used tools for graphical depiction of the unions, intersections and distinctions among multiple datasets, and a large number of programs have been developed to generate Venn diagrams for applications in various research areas...
Gene Ontology Computer Graphics Humans Software Animals Gene Expression Profiling Gene Regulatory Networks Computational Biology Models, Theoretical Databases, Genetic
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SGANRDA: semi-supervised generative adversarial networks for predicting circRNA-disease associations.

Briefings in bioinformatics Sep 2, 2021
Emerging research shows that circular RNA (circRNA) plays a crucial role in the diagnosis, occurrence and prognosis of complex human diseases. Compared with traditional biological experiments, the computational method of fusing multi-source biologica...
Gene Expression Regulation RNA, Circular Computational Biology Databases, Genetic Area Under Curve Myocardial Infarction Osteoarthritis Multiple Sclerosis Datasets as Topic Risk Factors Neoplasms Deep Learning Gene Regulatory Networks Humans
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A comprehensive overview and critical evaluation of gene regulatory network inference technologies.

Briefings in bioinformatics Sep 2, 2021
Gene regulatory network (GRN) is the important mechanism of maintaining life process, controlling biochemical reaction and regulating compound level, which plays an important role in various organisms and systems. Reconstructing GRN can help us to un...
Biomarkers, Tumor Neoplasms Transcriptome RNA-Seq Machine Learning Databases, Genetic Bayes Theorem Gene Expression Regulation Gene Regulatory Networks Computational Biology Models, Genetic Escherichia coli
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Classification and gene selection of triple-negative breast cancer subtype embedding gene connectivity matrix in deep neural network.

Briefings in bioinformatics Sep 2, 2021
Triple-negative breast cancer (TNBC) has been a challenging breast cancer subtype for oncological therapy. Normally, it can be classified into different molecular subtypes. Accurate and stable classification of the six subtypes is essential for perso...
Humans Gene Expression Regulation, Neoplastic Triple Negative Breast Neoplasms RNA, Long Noncoding Neoplasm Proteins Female Antineoplastic Agents Gene Regulatory Networks RNA, Messenger Neural Networks, Computer Algorithms Precision Medicine
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Bioinformatics and machine learning methodologies to identify the effects of central nervous system disorders on glioblastoma progression.

Briefings in bioinformatics Sep 2, 2021
Glioblastoma (GBM) is a common malignant brain tumor which often presents as a comorbidity with central nervous system (CNS) disorders. Both CNS disorders and GBM cells release glutamate and show an abnormality, but differ in cellular behavior. So, t...
Gene Expression Regulation, Neoplastic Signal Transduction Neoplasm Proteins Glioblastoma Gene Expression Profiling Humans Gene Regulatory Networks Computational Biology Machine Learning Datasets as Topic Molecular Sequence Annotation Brain Neoplasms Central Nervous System Gene Ontology Proportional Hazards Models Atlases as Topic Kaplan-Meier Estimate Glutamic Acid
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Deep-DRM: a computational method for identifying disease-related metabolites based on graph deep learning approaches.

Briefings in bioinformatics Jul 20, 2021
MOTIVATION: The functional changes of the genes, RNAs and proteins will eventually be reflected in the metabolic level. Increasing number of researchers have researched mechanism, biomarkers and targeted drugs by metabolites. However, compared with o...
Gene Regulatory Networks Computational Biology Metabolism Disease Humans Neural Networks, Computer Deep Learning
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Survey and comparative assessments of computational multi-omics integrative methods with multiple regulatory networks identifying distinct tumor compositions across pan-cancer data sets.

Briefings in bioinformatics May 20, 2021
The significance of pan-cancer categories has recently been recognized as widespread in cancer research. Pan-cancer categorizes a cancer based on its molecular pathology rather than an organ. The molecular similarities among multi-omics data found in...
Cystadenocarcinoma, Serous Breast Neoplasms Computational Biology Neoplasms Databases, Genetic Humans Gene Regulatory Networks Ovarian Neoplasms Machine Learning Genomics Female
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Calcific aortic valve disease: turning therapeutic discovery up a notch.

Nature reviews. Cardiology May 1, 2021
Cardiovascular Agents Humans Induced Pluripotent Stem Cells Machine Learning Receptor, Notch1 Gene Regulatory Networks Nitriles Calcinosis ERRalpha Estrogen-Related Receptor Endothelial Cells Aortic Valve Stenosis Receptors, Estrogen Aortic Valve Thiazoles
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Biological network analysis with deep learning.

Briefings in bioinformatics Mar 22, 2021
Recent advancements in experimental high-throughput technologies have expanded the availability and quantity of molecular data in biology. Given the importance of interactions in biological processes, such as the interactions between proteins or the ...
Drug Discovery Humans Deep Learning Neural Networks, Computer Gene Regulatory Networks Algorithms Computational Biology
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