Heterogeneous biological network visualization system: Case study in context of medical image data

Erno Lindfors, Jussi Mattila, Peddinti Gopalacharyulu, Antti Pesonen, Jyrki Lötjönen, Matej Orešič

Research output: Chapter in Book/Report/Conference proceedingConference article in proceedingsScientificpeer-review

Abstract

We have developed a system called megNet for integrating and visualizing heterogeneous biological data in order to enable modeling biological phenomena using a systems approach. Herein we describe megNet, including a recently developed user interface for visualizing biological networks in three dimensions and a web user interface for taking input parameters from the user, and an in-house text mining system that utilizes an existing knowledge base. We demonstrate the software with a case study in which we integrate lipidomics data acquired in-house with interaction data from external databases, and then find novel interactions that could possibly explain our previous associations between biological data and medical images. The flexibility of megNet assures that the tool can be applied in diverse applications, from target discovery in medical applications to metabolic engineering in industrial biotechnology.
Original languageEnglish
Title of host publicationAdvances in Systems Biology
EditorsIgor I. Goryanin, Andrew B. Goryachev
PublisherSpringer
Chapter5
Pages95-118
ISBN (Electronic)978-1-4419-7210-1
ISBN (Print)978-1-4419-7209-5
DOIs
Publication statusPublished - 2012
MoE publication typeA4 Article in a conference publication
Event11th International Conference on Systems Biology, ICSB 2010 - Edinburgh, United Kingdom
Duration: 10 Oct 201016 Oct 2010

Publication series

SeriesAdvances in Experimental Medicine and Biology
Volume736
ISSN0065-2598

Conference

Conference11th International Conference on Systems Biology, ICSB 2010
CountryUnited Kingdom
CityEdinburgh
Period10/10/1016/10/10

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Lindfors, E., Mattila, J., Gopalacharyulu, P., Pesonen, A., Lötjönen, J., & Orešič, M. (2012). Heterogeneous biological network visualization system: Case study in context of medical image data. In I. I. Goryanin, & A. B. Goryachev (Eds.), Advances in Systems Biology (pp. 95-118). Springer. Advances in Experimental Medicine and Biology, Vol.. 736 https://doi.org/10.1007/978-1-4419-7210-1_5