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EpiMetal : an open-source graphical web browser tool for easy statistical analyses in epidemiology and metabolomics |
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| Author: | Ekholm, Jussi1,2,3; Ohukainen, Pauli1,2,3; Kangas, Antti J.4; |
| Organizations: |
1Computational Medicine, Faculty of Medicine, University of Oulu, Oulu, Finland 2Biocenter Oulu, Oulu, Finland 3Center for Life Course Health Research, Faculty of Medicine, University of Oulu, Oulu, Finland
4Nightingale Health Ltd, Helsinki, Finland
5THL: National Institute for Health and Welfare, Helsinki, Finland 6Systems Epidemiology, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia 7Solita Ltd, Tampere, Finland 8Metabolomics, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia 9Laboratory Medicine Department, Faculty of Applied Medical Sciences, Umm Al-Qura University, Makkah, Kingdom of Saudi Arabia 10Metabolic and Vascular Physiology, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia 11Department of Clinical Physiology, Tampere University Hospital and Finnish Cardiovascular Research Center - Tampere, Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland 12Department of Clinical Chemistry, Fimlab Laboratories and Finnish Cardiovascular Research Center - Tampere, Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland 13Research Centre of Applied and Preventive Cardiovascular Medicine, University of Turku, Turku, Finland 14Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital, Turku, Finland 15Faculty of Medicine, University of Oulu, Oulu, Finland 16Unit of Primary Health Care, Oulu University Hospital, OYS, Oulu, Finland 17Department of Epidemiology and Biostatistics, MRC-PHE Centre for Environment and Health, Imperial College London, London, UK 18Department of Life Sciences, College of Health and Life Sciences, Brunel University London, London, UK 19NMR Metabolomics Laboratory, School of Pharmacy, University of Eastern Finland, Kuopio, Finland 20Medical Research Council Integrative Epidemiology Unit at the University of Bristol, Bristol, UK 21Population Health Science, Bristol Medical School, University of Bristol, Bristol, UK 22Department of Epidemiology and Preventive Medicine, School of Public Health and Preventive Medicine, Alfred Hospital, Monash University, Melbourne, VIC, Australia |
| Format: | article |
| Version: | published version |
| Access: | open |
| Online Access: | PDF Full Text (PDF, 0.6 MB) |
| Persistent link: | http://urn.fi/urn:nbn:fi-fe202101222379 |
| Language: | English |
| Published: |
Oxford University Press,
2020
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| Publish Date: | 2021-01-22 |
| Description: |
AbstractMotivation: An intuitive graphical interface that allows statistical analyses and visualizations of extensive data without any knowledge of dedicated statistical software or programming. Implementation: EpiMetal is a single-page web application written in JavaScript, to be used via a modern desktop web browser. General features: Standard epidemiological analyses and self-organizing maps for data-driven metabolic profiling are included. Multiple extensive datasets with an arbitrary number of continuous and category variables can be integrated with the software. Any snapshot of the analyses can be saved and shared with others via a www-link. We demonstrate the usage of EpiMetal using pilot data with over 500 quantitative molecular measures for each sample as well as in two large-scale epidemiological cohorts (N >10 000). Availability: The software usage exemplar and the pilot data are open access online at [http://EpiMetal.computationalmedicine.fi]. MIT licensed source code is available at the Github repository at [https://github.com/amergin/epimetal]. see all
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| Series: |
International journal of epidemiology |
| ISSN: | 0300-5771 |
| ISSN-E: | 1464-3685 |
| ISSN-L: | 0300-5771 |
| Volume: | 49 |
| Issue: | 4 |
| Pages: | 1075 - 1081 |
| DOI: | 10.1093/ije/dyz244 |
| OADOI: | https://oadoi.org/10.1093/ije/dyz244 |
| Type of Publication: |
A1 Journal article – refereed |
| Field of Science: |
113 Computer and information sciences 3142 Public health care science, environmental and occupational health |
| Subjects: | |
| Funding: |
M.A.K. is supported by a Senior Research Fellowship from the National Health and Medical Research Council (NHMRC) of Australia (APP1158958). He also works in a unit that is supported by the University of Bristol and UK Medical Research Council (MC_UU_12013/1). Q.W. is supported by the Novo Nordisk Foundation (NNF17OC0027034). B.A.K. is supported by a Senior Principal Research Fellowship from the NHMRC of Australia (APP1154331). The Sigrid Juselius Foundation and the Academy of Finland have also funded this work. The Northern Finland Birth Cohort 1966 and the Young Finns Study have been financially supported by multiple funding bodies (see the Supplement, available as Supplementary data at IJE online). The Baker Institute is supported in part by the Victorian Government’s Operational Infrastructure Support Program. |
| Copyright information: |
© The Author(s) 2020. Published by Oxford University Press on behalf of the International Epidemiological Association. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
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https://creativecommons.org/licenses/by-nc/4.0/ |