AIMC Topic: Gene Ontology

Clear Filters Showing 181 to 190 of 578 articles

Gene Ontology-based function prediction of long non-coding RNAs using bi-random walk.

BMC medical genomics
BACKGROUND: With the development of sequencing technology, more and more long non-coding RNAs (lncRNAs) have been identified. Some lncRNAs have been confirmed that they play an important role in the process of development through the dosage compensat...

Computational discovery of direct associations between GO terms and protein domains.

BMC bioinformatics
BACKGROUND: Families of related proteins and their different functions may be described systematically using common classifications and ontologies such as Pfam and GO (Gene Ontology), for example. However, many proteins consist of multiple domains, a...

A computational strategy for finding novel targets and therapeutic compounds for opioid dependence.

PloS one
Opioids are widely used for treating different types of pains, but overuse and abuse of prescription opioids have led to opioid epidemic in the United States. Besides analgesic effects, chronic use of opioid can also cause tolerance, dependence, and ...

Word and Sentence Embedding Tools to Measure Semantic Similarity of Gene Ontology Terms by Their Definitions.

Journal of computational biology : a journal of computational molecular cell biology
The gene ontology (GO) database contains GO terms that describe biological functions of genes. Previous methods for comparing GO terms have relied on the fact that GO terms are organized into a tree structure. Under this paradigm, the locations of tw...

Integrating network topology, gene expression data and GO annotation information for protein complex prediction.

Journal of bioinformatics and computational biology
The prediction of protein complexes based on the protein interaction network is a fundamental task for the understanding of cellular life as well as the mechanisms underlying complex disease. A great number of methods have been developed to predict p...

Structure and Protein Interaction-Based Gene Ontology Annotations Reveal Likely Functions of Uncharacterized Proteins on Human Chromosome 17.

Journal of proteome research
Understanding the function of human proteins is essential to decipher the molecular mechanisms of human diseases and phenotypes. Of the 17 470 human protein coding genes in the neXtProt 2018-01-17 database with unequivocal protein existence evidence ...

Large-scale protein function prediction using heterogeneous ensembles.

F1000Research
Heterogeneous ensembles are an effective approach in scenarios where the ideal data type and/or individual predictor are unclear for a given problem. These ensembles have shown promise for protein function prediction (PFP), but their ability to impro...

WEADE: A workflow for enrichment analysis and data exploration.

PloS one
Data analysis based on enrichment of Gene Ontology terms has become an important step in exploring large gene or protein expression datasets and several stand-alone or web tools exist for that purpose. However, a comprehensive and consistent analysis...

Gene ontology enrichment analysis of congenital diaphragmatic hernia-associated genes.

Pediatric research
Congenital diaphragmatic hernia (CDH) is a commonly occurring major congenital anomaly with a profound impact on neonatal mortality. The etiology of CDH is poorly understood and is complicated by multiple clinical presentations, reflecting the locati...

Protein function prediction from protein-protein interaction network using gene ontology based neighborhood analysis and physico-chemical features.

Journal of bioinformatics and computational biology
Protein Function Prediction from Protein-Protein Interaction Network (PPIN) and physico-chemical features using the Gene Ontology (GO) classification are indeed very useful for assigning biological or biochemical functions to a protein. They also lea...