Embracing an integromic approach to tissue biomarker research in cancer: Perspectives and lessons learned. (1st June 2016)

• Record Type: Journal Article
• Authors: Li, Gerald; Bankhead, Peter; Dunne, Philip D; O'Reilly, Paul G; James, Jacqueline A; Salto-Tellez, Manuel; Hamilton, Peter W; McArt, Darragh G
• Is Part Of: Briefings in bioinformatics. Volume 18:Number 4(2017:Jul.)
• Page Start: 634
• Page End: 646
• Publication Date: 2016-06-01
• Subjects: integromics -- big data -- biomarkers -- omics -- digital pathology -- interdisciplinary teamwork; Genetics -- Data processing -- Periodicals; Molecular biology -- Data processing -- Periodicals; Genomes -- Data processing -- Periodicals; 572.80285
• DOI: 10.1093/bib/bbw044
• Languages: English
• ISSNs: 1467-5463

Abstract

Abstract: Modern approaches to biomedical research and diagnostics targeted towards precision medicine are generating 'big data' across a range of high-throughput experimental and analytical platforms. Integrative analysis of this rich clinical, pathological, molecular and imaging data represents one of the greatest bottlenecks in biomarker discovery research in cancer and other diseases. Following on from the publication of our successful framework for multimodal data amalgamation and integrative analysis, Pathology Integromics in Cancer (PICan), this article will explore the essential elements of assembling an integromics framework from a more detailed perspective. PICan, built around a relational database storing curated multimodal data, is the research tool sitting at the heart of our interdisciplinary efforts to streamline biomarker discovery and validation. While recognizing that every institution has a unique set of priorities and challenges, we will use our experiences with PICan as a case study and starting point, rationalizing the design choices we made within the context of our local infrastructure and specific needs, but also highlighting alternative approaches that may better suit other programmes of research and discovery. Along the way, we stress that integromics is not just a set of tools, but rather a cohesive paradigm for how modern bioinformatics can be enhanced. Successful implementation of an integromics framework is a collaborative team effort that is built with an eye to the future and greatly accelerates the processes of biomarker discovery, validation and translation into clinical practice.