*biointelligence 25th feb 2010 Pandora, a PAthway and Network DiscOveRy Approach based on common biological evidence*
Many biological phenomena involve extensive interactions between many of the biological pathways present in cells. However, extraction of all the inherent biological pathways remains a major challenge in systems biology. With the advent of high-throughput functional genomic techniques, it is now possible to infer biological pathways and pathway organization in a systematic way by integrating disparate biological information. Results: Here, we propose a novel integrated approach that uses network topology to predict biological pathways. We integrated four types of biological evidence (protein–protein interaction, genetic interaction, domain–domain interaction and semantic similarity of Gene Ontology terms) to generate a functionally associated network. This network was then used to develop a new pathway finding algorithm to predict biological pathways in yeast. Our approach discovered 195 biological pathways and 31 functionally redundant pathway pairs in yeast. By comparing our identified pathways to three public pathway databases (KEGG, BioCyc and Reactome), we observed that our approach achieves a maximum positive predictive value of 12.8% and improves on other predictive approaches. This study allows us to reconstruct biological pathways and delineates cellular machinery in a systematic view. Availability: The method has been implemented in Perl and is available for downloading from http://www.oicr.on.ca/research/ouellette/pandora. It is distributed under the terms of GPL ( http://opensource.org/licenses/gpl-2.0.php) Regards, Team Biointelligence *Biointelligence* *Getting started with biosciences* *Website: **www.biointelligence.in* *Email: **i...@biointelligence.in** Tel: +91-731-425-7930* * **P please consider the environment before printing this email. Thank you.2* -- Biofriend is now more functional http://www.biofriend.info/ http://www.cbclickbank.com/bioinformatics/company.htm List of the biotech company and address. Invite your friends http://www.biofriend.info/ Support Us to Help Others http://in.linkedin.com/in/satishchauk Biofriend India Team ========================================= " No email " Click the link, signin to Account and Click Edit My Membership http://groups.google.co.in/group/biofriend_india
