Skip to main content
padlock icon - secure page this page is secure

Incorporating cellular sorting structure for better prediction of protein subcellular locations

Buy Article:

$60.00 + tax (Refund Policy)

This article explores the interdependences between subcellular locations and incorporates them with support vector machines for prediction of protein subcellular localisation. Traditional prediction systems utilise a 'flat' structure of classifiers, such as the one-versus-all and one-versus-one schemes, with amino acid compositions to perform the prediction. Apart from those existing studies that ignore the interdependences between subcellular locations, we take advantage of a hierarchical structure to organise the subcellular locations and model their relationships. Here, we propose to use four kinds of hierarchical prediction methods and make comparative studies on three datasets. Experimental results show that three of the hierarchical models outperform the traditional 'flat' model in terms of tree loss values. In particular, one hierarchical model outperforms the traditional 'flat' model for all evaluation measures. Moreover, we gained some valuable insights into the sorting process by using hierarchical structures.
No Reference information available - sign in for access.
No Citation information available - sign in for access.
No Supplementary Data.
No Article Media
No Metrics

Keywords: hierarchical ontology; optimisation; protein subcellular localisation; structured prediction; support vector machines

Document Type: Research Article

Affiliations: 1: Department of Computer Science and Engineering, Shanghai Jiao Tong University, Shanghai, China 2: Department of Computer Science and Engineering, Shanghai Jiao Tong University, Shanghai, China,MOE-Microsoft Laboratory for Intelligent Computing and Intelligent Systems of Shanghai Jiao Tong University, Shanghai, China 3: Department of Computer Science and Engineering, Hong Kong University of Science and Technology, Kowloon, Hong Kong

Publication date: March 1, 2011

More about this publication?
  • Access Key
  • Free content
  • Partial Free content
  • New content
  • Open access content
  • Partial Open access content
  • Subscribed content
  • Partial Subscribed content
  • Free trial content
Cookie Policy
X
Cookie Policy
Ingenta Connect website makes use of cookies so as to keep track of data that you have filled in. I am Happy with this Find out more