E-Science technologies in a workflow for personalized medicine using cancer screening as a case study

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Spjuth , O , Karlsson , A , Clements , M , Humphreys , K , Ivansson , E , Dowling , J , Eklund , M , Jauhiainen , A , Czene , K , Gronberg , H , Sparen , P , Wiklund , F , Cheddad , A , Palsdottir , P , Rantalainen , M , Abrahamsson , L , Laure , E , Litton , J-E & Palmgren , J 2017 , ' E-Science technologies in a workflow for personalized medicine using cancer screening as a case study ' , Journal of the American Medical Informatics Association , vol. 24 , no. 5 , pp. 950-957 . https://doi.org/10.1093/jamia/ocx038

Title: E-Science technologies in a workflow for personalized medicine using cancer screening as a case study
Author: Spjuth, Ola; Karlsson, Andreas; Clements, Mark; Humphreys, Keith; Ivansson, Emma; Dowling, Jim; Eklund, Martin; Jauhiainen, Alexandra; Czene, Kamila; Gronberg, Henrik; Sparen, Par; Wiklund, Fredrik; Cheddad, Abbas; Palsdottir, Porgerodur; Rantalainen, Mattias; Abrahamsson, Linda; Laure, Erwin; Litton, Jan-Eric; Palmgren, Juni
Contributor organization: Institute for Molecular Medicine Finland
University of Helsinki
Date: 2017-09
Language: eng
Number of pages: 8
Belongs to series: Journal of the American Medical Informatics Association
ISSN: 1067-5027
DOI: https://doi.org/10.1093/jamia/ocx038
URI: http://hdl.handle.net/10138/224483
Abstract: Objective: We provide an e-Science perspective on the workflow from risk factor discovery and classification of disease to evaluation of personalized intervention programs. As case studies, we use personalized prostate and breast cancer screenings. Materials and Methods: We describe an e-Science initiative in Sweden, e-Science for Cancer Prevention and Control (eCPC), which supports biomarker discovery and offers decision support for personalized intervention strategies. The generic eCPC contribution is a workflow with 4 nodes applied iteratively, and the concept of e-Science signifies systematic use of tools from the mathematical, statistical, data, and computer sciences. Results: The eCPC workflow is illustrated through 2 case studies. For prostate cancer, an in-house personalized screening tool, the Stockholm-3 model (S3M), is presented as an alternative to prostate-specific antigen testing alone. S3M is evaluated in a trial setting and plans for rollout in the population are discussed. For breast cancer, new biomarkers based on breast density and molecular profiles are developed and the US multicenter Women Informed to Screen Depending on Measures (WISDOM) trial is referred to for evaluation. While current eCPC data management uses a traditional data warehouse model, we discuss eCPC-developed features of a coherent data integration platform. Discussion and Conclusion: E-Science tools are a key part of an evidence-based process for personalized medicine. This paper provides a structured workflow from data and models to evaluation of new personalized intervention strategies. The importance of multidisciplinary collaboration is emphasized. Importantly, the generic concepts of the suggested eCPC workflow are transferrable to other disease domains, although each disease will require tailored solutions.
Subject: e-Science
personalized screening
data integration
113 Computer and information sciences
3122 Cancers
3111 Biomedicine
Peer reviewed: Yes
Rights: cc_by_nc
Usage restriction: openAccess
Self-archived version: publishedVersion

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