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PRINCIPLE: a tool for associating genes with diseases via network propagation
Assaf Gottlieb1, Oded Magger, Igor Berman
1The Balavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel. assafgot@tau.ac.il
Bioinformatics (Oxford, England)
|October 22, 2011
Summary
PRINCIPLE prioritizes disease-related genes using protein-protein interaction networks. This Java application, a Cytoscape plug-in, identifies genes linked to similar disease phenotypes for better genetic insights.
Area of Science:
- Bioinformatics
- Computational Biology
- Systems Biology
Background:
- The PRINCIPLE application is a Java-based Cytoscape plug-in.
- It is built upon the previously established PRINCE algorithm.
- The software is compatible with Cytoscape version 2.7 and newer.
Purpose of the Study:
- To prioritize disease-related genes.
- To leverage protein-protein interaction networks for gene prioritization.
- To identify genes associated with phenotypically similar disorders.
Main Methods:
- Utilizes a protein-protein interaction network.
- Implements the PRINCE algorithm within a Cytoscape plug-in framework.
- Prioritizes genes based on network proximity to known disease genes.
Main Results:
- Identifies and ranks genes relevant to a query disease.
- Provides a method for discovering potential disease-associated genes through network analysis.
- Facilitates the exploration of gene relationships in the context of disease phenotypes.
Conclusions:
- PRINCIPLE offers a computational approach for disease gene prioritization.
- The tool enhances biological network analysis for genetic research.
- It aids in understanding the genetic underpinnings of diseases by network proximity analysis.
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Overview