Developing new analysis functions for a translational research platform: Extending the cBioPortal for cancer genomics

Unberath P, Knell C, Prokosch HU, Christoph J (2019)

Publication Type: Conference contribution

Publication year: 2019

Journal

Studies in health technology and informatics IOS Press; 1999

Publisher: IOS Press

Series: Studies in Health Technology and Informatics

City/Town: Amsterdam

Book Volume: 258

Pages Range: 46-50

Conference Proceedings Title: Proceedings of the EFMI 2019 Special Topic Conference

Event location: Hannover DE

DOI: 10.3233/978-1-61499-959-1-46

Abstract

Background: The cBioPortal is a prevalent open-source translational research platform, allowing private instances and extensions. Objective: Our aim was to build up an own instance of cBioPortal, identify missing functionality by interviewing researchers, and implementing these extensions. Methods: We examined the code base of the cBioPortal and conducted a requirements analysis with researchers. Then an own extension was implemented and a usability evaluation was performed. Results: We developed a new tab in the results view of cBioPortal adding the option to analyze the correlation of gene expression and mutation patterns. Conclusion: While extending the cBioPortal is possible, there are still some challenges to overcome. A plug-in concept and a more detailed documentation would greatly facilitate the development of own extensions.

Authors with CRIS profile

Philipp Unberath Lehrstuhl für Medizinische Informatik Christian Knell Lehrstuhl für Medizinische Informatik Hans-Ulrich Prokosch Lehrstuhl für Medizinische Informatik Jan Christoph Lehrstuhl für Medizinische Informatik

How to cite

APA:

Unberath, P., Knell, C., Prokosch, H.-U., & Christoph, J. (2019). Developing new analysis functions for a translational research platform: Extending the cBioPortal for cancer genomics. In Amnon Shabo, Inge Madsen, Thomas M. Deserno, Matthias Lobe, Kristiina Hayrinen, Hans-Ulrich Prokosch, Fernando Martin-Sanchez, Klaus-Hendrik Wolf (Eds.), Proceedings of the EFMI 2019 Special Topic Conference (pp. 46-50). Hannover, DE: Amsterdam: IOS Press.

MLA:

Unberath, Philipp, et al. "Developing new analysis functions for a translational research platform: Extending the cBioPortal for cancer genomics." Proceedings of the ICT for Health Science Research, EFMI 2019, Hannover Ed. Amnon Shabo, Inge Madsen, Thomas M. Deserno, Matthias Lobe, Kristiina Hayrinen, Hans-Ulrich Prokosch, Fernando Martin-Sanchez, Klaus-Hendrik Wolf, Amsterdam: IOS Press, 2019. 46-50.

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