mirage

Integration of multiple data sources to prioritize candidate genes using discounted rating system

DSpace/Manakin Repository

 

Search DR-NTU


Advanced Search Subject Search

Browse

My Account

Integration of multiple data sources to prioritize candidate genes using discounted rating system

Show full item record

Title: Integration of multiple data sources to prioritize candidate genes using discounted rating system
Author: Li, Yongjin; Patra, Jagdish Chandra
Copyright year: 2010
Abstract: Identifying disease gene from a list of candidate genes is an important task in bioinformatics. The main strategy is to prioritize candidate genes based on their similarity to known disease genes. Most of existing gene prioritization methods access only one genomic data source, which is noisy and incomplete. Thus, there is a need for the integration of multiple data sources containing different information. In this paper, we proposed a combination strategy, called discounted rating system (DRS). We performed leave one out cross validation to compare it with N-dimensional order statistics (NDOS) used in Endeavour. Results showed that the AUC (Area Under the Curve) values achieved by DRS were comparable with NDOS on most of the disease families. But DRS worked much faster than NDOS, especially when the number of data sources increases. When there are 100 candidate genes and 20 data sources, DRS works more than 180 times faster than NDOS. In the framework of DRS, we give different weights for different data sources. The weighted DRS achieved significantly higher AUC values than NDOS. The proposed DRS algorithm is a powerful and effective framework for candidate gene prioritization. If weights of different data sources are proper given, the DRS algorithm will perform better.
Subject: DRNTU::Engineering::Computer science and engineering::Computer applications::Life and medical sciences.
Type: Journal Article
Series/ Journal Title: BMC bioinformatics
School: School of Computer Engineering
Rights: © 2010 Li and Patra.
Version: Published version

Files in this item

Files Size Format View
2010Jan18_BMC_Bioinformatics_Yongjin.pdf 675.9Kb PDF View/Open
   

DOI Query

- Get published version (via Digital Object Identifier)
   

This item appears in the following Collection(s)

Show full item record

Statistics

Total views

All Items Views
Integration of multiple data sources to prioritize candidate genes using discounted rating system 381

Total downloads

All Bitstreams Views
2010Jan18_BMC_Bioinformatics_Yongjin.pdf 242

Top country downloads

Country Code Views
United States of America 70
China 67
Singapore 55
Ukraine 7
Russian Federation 5

Top city downloads

city Views
Mountain View 60
Singapore 55
Beijing 44
Taichung 5
Southampton 4

Downloads / month

  2014-09 2014-10 2014-11 total
2010Jan18_BMC_Bioinformatics_Yongjin.pdf 0 0 6 6