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Structuring research methods and data with the research object model: genomics workflows as a case study

Kristina M Hettne, Harish Dharuri, Jun Zhao, Katherine Wolstencroft, Khalid Belhajjame, Stian Soiland-Reyes, Eleni Mina, Mark Thompson, Don Cruickshank, Lourdes Verdes-Montenegro, Julian Garrido, David de Roure (+7 others)
2014 Journal of Biomedical Semantics  

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Other Versions

2013 pre-print
arXiv:1311.2789v1 fatcat:eifwcvk4ozbzhkgizukvlbpzry
2014 pre-print
arXiv:1311.2789v2 fatcat:qrmshfoa5bdippacrumrqagtay
2014 accepted
arXiv:1311.2789v3 fatcat:r277o6fm3jgz5myh5o45q4ihoa
One of the main challenges for biomedical research lies in the computer-assisted integrative study of large and increasingly complex combinations of data in order to understand molecular mechanisms. The preservation of the materials and methods of such computational experiments with clear annotations is essential for understanding an experiment, and this is increasingly recognized in the bioinformatics community. Our assumption is that offering means of digital, structured aggregation and
more » ... tion of the objects of an experiment will provide necessary meta-data for a scientist to understand and recreate the results of an experiment. To support this we explored a model for the semantic description of a workflow-centric Research Object (RO), where an RO is defined as a resource that aggregates other resources, e.g., datasets, software, spreadsheets, text, etc. We applied this model to a case study where we analysed human metabolite variation by workflows.
doi:10.1186/2041-1480-5-41 pmid:25276335 pmcid:PMC4177597 fatcat:ejlb76ytordqvh57q4ho6xtev4
DOAJ Multiple Versions
Citation

Kristina M Hettne, Harish Dharuri, Jun Zhao, Katherine Wolstencroft, Khalid Belhajjame, Stian Soiland-Reyes, Eleni Mina, Mark Thompson, Don Cruickshank, Lourdes Verdes-Montenegro, Julian Garrido, David de Roure, Oscar Corcho, Graham Klyne, Reinout van Schouwen, Peter A C 't Hoen, Sean Bechhofer, Carole Goble, Marco Roos. "Structuring research methods and data with the research object model: genomics workflows as a case study." Journal of Biomedical Semantics 5.1 (2014) 41