AIMC Topic: Molecular Sequence Annotation
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Structure and Protein Interaction-Based Gene Ontology Annotations Reveal Likely Functions of Uncharacterized Proteins on Human Chromosome 17.
Journal of proteome research
Oct 16, 2018
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 ...
Exploiting MEDLINE for gene molecular function prediction via NMF based multi-label classification.
Journal of biomedical informatics
Aug 18, 2018
Gene ontology (GO) provides a representation of terms and categories used to describe genes and their molecular functions, cellular components and biological processes. GO has been the standard for describing the functions of specific genes in differ...
Gene Ontology Enrichment Improves Performances of Functional Similarity of Genes.
Scientific reports
Aug 14, 2018
There exists a plethora of measures to evaluate functional similarity (FS) between genes, which is a widely used in many bioinformatics applications including detecting molecular pathways, identifying co-expressed genes, predicting protein-protein in...
Monitoring changes in the Gene Ontology and their impact on genomic data analysis.
GigaScience
Aug 1, 2018
BACKGROUND: The Gene Ontology (GO) is one of the most widely used resources in molecular and cellular biology, largely through the use of "enrichment analysis." To facilitate informed use of GO, we present GOtrack (https://gotrack.msl.ubc.ca), which ...
NMFGO: Gene Function Prediction via Nonnegative Matrix Factorization with Gene Ontology.
IEEE/ACM transactions on computational biology and bioinformatics
Jul 30, 2018
Gene Ontology (GO) is a controlled vocabulary of terms that describe molecule function, biological roles, and cellular locations of gene products (i.e., proteins and RNAs), it hierarchically organizes more than 43,000 GO terms via the direct acyclic ...
Multi-Factored Gene-Gene Proximity Measures Exploiting Biological Knowledge Extracted from Gene Ontology: Application in Gene Clustering.
IEEE/ACM transactions on computational biology and bioinformatics
Jun 21, 2018
To describe the cellular functions of proteins and genes, a potential dynamic vocabulary is Gene Ontology (GO), which comprises of three sub-ontologies namely, Biological-process, Cellular-component, and Molecular-function. It has several application...
Expanding the horizons of microRNA bioinformatics.
RNA (New York, N.Y.)
Jun 5, 2018
MicroRNA regulation of key biological and developmental pathways is a rapidly expanding area of research, accompanied by vast amounts of experimental data. This data, however, is not widely available in bioinformatic resources, making it difficult fo...
Annotating Diseases Using Human Phenotype Ontology Improves Prediction of Disease-Associated Long Non-coding RNAs.
Journal of molecular biology
May 24, 2018
Recently, many long non-coding RNAs (lncRNAs) have been identified and their biological function has been characterized; however, our understanding of their underlying molecular mechanisms related to disease is still limited. To overcome the limitati...
Functional Annotation of Proteins Encoded by the Minimal Bacterial Genome Based on Secondary Structure Element Alignment.
Journal of proteome research
May 24, 2018
In synthetic biology, one of the key focuses is building a minimal artificial cell which can provide basic chassis for functional study. Recently, the J. Craig Venter Institute published the latest version of the minimal bacterial genome JCVI-syn3.0,...
Consistent prediction of GO protein localization.
Scientific reports
May 17, 2018
The GO-Cellular Component (GO-CC) ontology provides a controlled vocabulary for the consistent description of the subcellular compartments or macromolecular complexes where proteins may act. Current machine learning-based methods used for the automat...
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