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Gene Ontology

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Glioma stages prediction based on machine learning algorithm combined with protein-protein interaction networks.

Genomics
BACKGROUND: Glioma is the most lethal nervous system cancer. Recent studies have made great efforts to study the occurrence and development of glioma, but the molecular mechanisms are still unclear. This study was designed to reveal the molecular mec...

Drug repositioning of herbal compounds via a machine-learning approach.

BMC bioinformatics
BACKGROUND: Drug repositioning, also known as drug repurposing, defines new indications for existing drugs and can be used as an alternative to drug development. In recent years, the accumulation of large volumes of information related to drugs and d...

Pre-Treatment Biomarkers of Anti-Tumour Necrosis Factor Therapy Response in Crohn's Disease-A Systematic Review and Gene Ontology Analysis.

Cells
The most prominent treatment for the serious cases of Crohn's disease (CD) are biological tumour necrosis factor (TNF) inhibitors. Unfortunately, therapy nonresponse is still a serious issue in ~1/3 of CD patients. Accurate prediction of responsivene...

Exploratory Gene Ontology Analysis with Interactive Visualization.

Scientific reports
The Gene Ontology (GO) is a central resource for functional-genomics research. Scientists rely on the functional annotations in the GO for hypothesis generation and couple it with high-throughput biological data to enhance interpretation of results. ...

Screening of disorders associated with osteosarcoma by integrated network analysis.

Bioscience reports
Osteosarcoma is a common malignant bone tumor in children and adolescents under the age of 20. However, research on the pathogenesis and treatment of osteosarcoma is still insufficient. In the present study, based on gene-phenotype correlation networ...

DEEPred: Automated Protein Function Prediction with Multi-task Feed-forward Deep Neural Networks.

Scientific reports
Automated protein function prediction is critical for the annotation of uncharacterized protein sequences, where accurate prediction methods are still required. Recently, deep learning based methods have outperformed conventional algorithms in comput...

The Four Horsemen of the 'Omicsalypse': ontology, replicability, probability and epistemology.

Human genetics
Much of modern genomics and the other 'omics' that tag along, assert that the causal bases of biomedical outcomes are genomically enumerable lists whose effects are predictable with 'precision', extensible from samples to all, and enabled by ever-gre...

Systems Pharmacological Approach to Investigate the Mechanism of for Application to Alzheimer's Disease.

Molecules (Basel, Switzerland)
(OC)-a traditional Chinese medicine (TCM)-has been reported to have large numbers of flavonoids, alkaloids, and triterpenoids. The previous studies on OC for treating Alzheimer's disease (AD) only focused on single targets and its mechanisms, while ...

SLMF: Predicting Synthetic Lethality in Human Cancers via Logistic Matrix Factorization.

IEEE/ACM transactions on computational biology and bioinformatics
Synthetic lethality (SL) is a promising concept for novel discovery of anti-cancer drug targets. However, wet-lab experiments for detecting SLs are faced with various challenges, such as high cost, low consistency across platforms, or cell lines. The...

Building the drug-GO function network to screen significant candidate drugs for myasthenia gravis.

PloS one
Myasthenia gravis (MG) is an autoimmune disease. In recent years, considerable evidence has indicated that Gene Ontology (GO) functions, especially GO-biological processes, have important effects on the mechanisms and treatments of different diseases...