ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity
Joint Authors
Sheng, Yu
Ganegoda, Gamage Upeksha
Wang, Jianxin
Source
Issue
Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-11, 11 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2015-08-03
Country of Publication
Egypt
No. of Pages
11
Main Subjects
Abstract EN
Predicting disease genes for a particular genetic disease is very challenging in bioinformatics.
Based on current research studies, this challenge can be tackled via network-based approaches.
Furthermore, it has been highlighted that it is necessary to consider disease similarity along with the protein’s proximity to disease genes in a protein-protein interaction (PPI) network in order to improve the accuracy of disease gene prioritization.
In this study we propose a new algorithm called proximity disease similarity algorithm (ProSim), which takes both of the aforementioned properties into consideration, to prioritize disease genes.
To illustrate the proposed algorithm, we have conducted six case studies, namely, prostate cancer, Alzheimer’s disease, diabetes mellitus type 2, breast cancer, colorectal cancer, and lung cancer.
We employed leave-one-out cross validation, mean enrichment, tenfold cross validation, and ROC curves to evaluate our proposed method and other existing methods.
The results show that our proposed method outperforms existing methods such as PRINCE, RWR, and DADA.
American Psychological Association (APA)
Ganegoda, Gamage Upeksha& Sheng, Yu& Wang, Jianxin. 2015. ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity. BioMed Research International،Vol. 2015, no. 2015, pp.1-11.
https://search.emarefa.net/detail/BIM-1054653
Modern Language Association (MLA)
Ganegoda, Gamage Upeksha…[et al.]. ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity. BioMed Research International No. 2015 (2015), pp.1-11.
https://search.emarefa.net/detail/BIM-1054653
American Medical Association (AMA)
Ganegoda, Gamage Upeksha& Sheng, Yu& Wang, Jianxin. ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity. BioMed Research International. 2015. Vol. 2015, no. 2015, pp.1-11.
https://search.emarefa.net/detail/BIM-1054653
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1054653