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E-Science technologies in a workflow for personalized medicine using cancer screening as a case study
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- Spjuth, Ola, 1977- (author)
- Uppsala universitet,Institutionen för farmaceutisk biovetenskap,Science for Life Laboratory, SciLifeLab,Department of Medical Epidemiology and Biostatistics and Swedish e-Science Research Centre, Karolinska Institutet, Stockholm, Sweden.
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- Karlsson, Andreas (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Clements, Mark (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Humphreys, Keith (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Ivansson, Emma (author)
- Karolinska Institutet, SWE
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- Dowling, Jim (author)
- KTH,Programvaruteknik och Datorsystem, SCS,Royal Institute of Technology, SWE
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- Eklund, Martin (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Jauhiainen, Alexandra (author)
- AstraZeneca AB R&D, SWE
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- Czene, Kamila (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Grönberg, Henrik (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Sparén, Pär (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Wiklund, Fredrik (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Abbas, Cheddad (author)
- Blekinge Tekniska Högskola,Institutionen för datalogi och datorsystemteknik,Big Data
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- Pálsdóttir, Þorgerður (author)
- Nordic Information for Action e-Science Center, SWE
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- Rantalainen, Mattias (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Abrahamsson, Linda (author)
- Karolinska Institutet,Karolinska Institutet, SWE
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- Laure, Erwin (author)
- Royal Institute of Technology, SWE
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- Litton, Jan-Eric (author)
- Karolinska Institutet,European Research Infrastructure Consortium, AUT
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- Palmgren, Juni (author)
- Karolinska Institutet,Helsinki University, FIN
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Palsdottir, P (author)
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(creator_code:org_t)
- 2017-04-21
- 2017
- English.
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In: JAMIA Journal of the American Medical Informatics Association. - : Oxford University Press. - 1067-5027 .- 1527-974X. ; 24:5, s. 950-957
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Abstract
Subject headings
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- 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 headings
- NATURVETENSKAP -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Bioinformatics (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Datavetenskap (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Computer Sciences (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Radiologi och bildbehandling (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Radiology, Nuclear Medicine and Medical Imaging (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Cancer och onkologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Cancer and Oncology (hsv//eng)
Keyword
- cancer
- data integration
- e-Science
- modeling
- personalized screening
- simulation
- Bioinformatik
- Bioinformatics
- Medical Informatics
- Medicinsk informatik
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Spjuth, Ola, 197 ...
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Karlsson, Andrea ...
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Clements, Mark
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Humphreys, Keith
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Ivansson, Emma
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Dowling, Jim
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show more...
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Eklund, Martin
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Jauhiainen, Alex ...
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Czene, Kamila
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Grönberg, Henrik
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Sparén, Pär
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Wiklund, Fredrik
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Abbas, Cheddad
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Pálsdóttir, Þorg ...
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Rantalainen, Mat ...
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Abrahamsson, Lin ...
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Laure, Erwin
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Litton, Jan-Eric
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Palmgren, Juni
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Palsdottir, P
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Computer and Inf ...
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and Bioinformatics
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Computer and Inf ...
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and Computer Science ...
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Clinical Medicin ...
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and Radiology Nuclea ...
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Clinical Medicin ...
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and Cancer and Oncol ...
- Articles in the publication
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JAMIA Journal of ...
- By the university
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Uppsala University
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Royal Institute of Technology
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Karolinska Institutet
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Blekinge Institute of Technology