Classifying genes to the correct Gene Ontology Slim term in Saccharomyces cerevisiae using neighbouring genes with classification learning

PDF Version Also Available for Download.

Description

Article discussing research on classifying genes to the correct gene ontology slim term in Saccharomyces cerevisiae using neighbouring genes with classification learning.

Physical Description

9 p.

Creation Information

Amthauer, Heather A. & Tsatsoulis, C. (Costas), 1962- May 28, 2010.

Context

This article is part of the collection entitled: UNT Scholarly Works and was provided by UNT College of Engineering to Digital Library, a digital repository hosted by the UNT Libraries. It has been viewed 137 times , with 5 in the last month . More information about this article can be viewed below.

Who

People and organizations associated with either the creation of this article or its content.

Authors

Publisher

Provided By

UNT College of Engineering

The UNT College of Engineering promotes intellectual and scholarly pursuits in the areas of computer science and engineering, preparing innovative leaders in a variety of disciplines. The UNT College of Engineering encourages faculty and students to pursue interdisciplinary research among numerous subjects of study including databases, numerical analysis, game programming, and computer systems architecture.

Contact Us

What

Descriptive information to help identify this article. Follow the links below to find similar items on the Digital Library.

Degree Information

Description

Article discussing research on classifying genes to the correct gene ontology slim term in Saccharomyces cerevisiae using neighbouring genes with classification learning.

Physical Description

9 p.

Notes

Abstract: Background: There is increasing evidence that gene location and surrounding genes influence the functionality of genes in the eukaryotic genome. Knowing the Gene Ontology Slim terms associated with a gene gives the authors insight into a gene's functionality by informing the authors how its gene product behaves in a cellular context using three different ontologies: molecular function, biological process, and cellular component. In this study, the authors analyzed if they could classify a gene in Saccharomyces cerevisiae to its correct Gene Ontology Slim term using information about its location in the genome and information from its nearest-neighbouring genes using classification learning. Results: The authors performed experiments to establish that the MultiBoostAB algorithm using the J48 classifier could correctly classify Gene Ontology Slim terms of a gene given information regarding the gene's location and information from its nearest-neighbouring genes for training. Different neighbourhood sizes were examined to determine how many nearest neighbours should be included around each gene to provide better classification rules. The authors' results show that by just incorporating neighbour information from each gene's two-nearest neighbours, the percentage of correctly classified genes to their correct Gene Ontology Slim term for each ontology reaches over 80% with high accuracy (reflected in F-measures over 0.80) of the classification rules produced. Conclusions: The authors confirmed that in classifying genes to their correct Gene Ontology Slim term, the inclusion of neighbour information from those genes is beneficial. Knowing the location of a gene and the Gene Ontology Slim information from neighbouring genes gives us insight into that gene's functionality. This benefit is seen by just including information from a gene's two-nearest neighbouring genes.

Source

  • BMC Genomics, 2010, London: BioMed Central Ltd.

Language

Item Type

Identifier

Unique identifying numbers for this article in the Digital Library or other systems.

Publication Information

  • Publication Title: BMC Genomics
  • Volume: 11
  • Issue: 340
  • Peer Reviewed: Yes

Collections

This article is part of the following collection of related materials.

UNT Scholarly Works

Materials from the UNT community's research, creative, and scholarly activities and UNT's Open Access Repository. Access to some items in this collection may be restricted.

What responsibilities do I have when using this article?

When

Dates and time periods associated with this article.

Creation Date

  • May 28, 2010

Added to The UNT Digital Library

  • Nov. 30, 2012, 9:15 a.m.

Description Last Updated

  • May 12, 2014, 3:17 p.m.

Usage Statistics

When was this article last used?

Yesterday: 0
Past 30 days: 5
Total Uses: 137

Interact With This Article

Here are some suggestions for what to do next.

Start Reading

PDF Version Also Available for Download.

Citations, Rights, Re-Use

Amthauer, Heather A. & Tsatsoulis, C. (Costas), 1962-. Classifying genes to the correct Gene Ontology Slim term in Saccharomyces cerevisiae using neighbouring genes with classification learning, article, May 28, 2010; [London, United Kingdom]. (digital.library.unt.edu/ark:/67531/metadc122144/: accessed July 25, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT College of Engineering.