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Gene Ontology

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MultiP-Apo: A Multilabel Predictor for Identifying Subcellular Locations of Apoptosis Proteins.

Computational intelligence and neuroscience
Apoptosis proteins play an important role in the mechanism of programmed cell death. Predicting subcellular localization of apoptosis proteins is an essential step to understand their functions and identify drugs target. Many computational prediction...

Data- and expert-driven rule induction and filtering framework for functional interpretation and description of gene sets.

Journal of biomedical semantics
BACKGROUND: High-throughput methods in molecular biology provided researchers with abundance of experimental data that need to be interpreted in order to understand the experimental results. Manual methods of functional gene/protein group interpretat...

NewGOA: Predicting New GO Annotations of Proteins by Bi-Random Walks on a Hybrid Graph.

IEEE/ACM transactions on computational biology and bioinformatics
A remaining key challenge of modern biology is annotating the functional roles of proteins. Various computational models have been proposed for this challenge. Most of them assume the annotations of annotated proteins are complete. But in fact, many ...

Data mining and pathway analysis of glucose-6-phosphate dehydrogenase with natural language processing.

Molecular medicine reports
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, ...

Integrated gene expression profiling and chromatin immunoprecipitation followed by sequencing: Analysis of the C-terminal binding protein in breast cancer.

The journal of obstetrics and gynaecology research
AIM: This study explored the possible mechanisms of the transcriptional regulatory activities of C-terminal binding protein (CtBP) and the role of CtBP in the pathogenesis of breast cancer.

Omics Data Complementarity Underlines Functional Cross-Communication in Yeast.

Journal of integrative bioinformatics
Mapping the complete functional layout of a cell and understanding the cross-talk between different processes are fundamental challenges. They elude us because of the incompleteness and noisiness of molecular data and because of the computational int...

Dead simple OWL design patterns.

Journal of biomedical semantics
BACKGROUND: Bio-ontologies typically require multiple axes of classification to support the needs of their users. Development of such ontologies can only be made scalable and sustainable by the use of inference to automate classification via consiste...

Prediction of marker genes associated with hypertension by bioinformatics analyses.

International journal of molecular medicine
This study aimed to explore the underlying marker genes associated with hypertension by bioinformatics analyses. A gene expression profile (GSE54015) was downloaded. The differentially expressed genes (DEGs) between the normotensive female (NF) and h...

Multiple Trait Covariance Association Test Identifies Gene Ontology Categories Associated with Chill Coma Recovery Time in Drosophila melanogaster.

Scientific reports
The genomic best linear unbiased prediction (GBLUP) model has proven to be useful for prediction of complex traits as well as estimation of population genetic parameters. Improved inference and prediction accuracy of GBLUP may be achieved by identify...

A disease similarity matrix based on the uniqueness of shared genes.

BMC medical genomics
BACKGROUND: Complex diseases involve many genes, and these genes are often associated with several different illnesses. Disease similarity measurement can be based on shared genotype or phenotype. Quantifying relationships between genes can reveal pr...