Structuring research methods and data with the Research Object model: genomics workflows as a case study
Abstract
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 annotation 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.
Cite
@article{arxiv.1311.2789,
title = {Structuring research methods and data with the Research Object model: genomics workflows as a case study},
author = {Kristina M. Hettne and Harish Dharuri and Jun Zhao and Katherine Wolstencroft and Khalid Belhajjame and Stian Soiland-Reyes and Eleni Mina and Mark Thompson and Don Cruickshank and Lourdes Verdes-Montenegro and Julian Garrido and David de Roure and Oscar Corcho and Graham Klyne and Reinout van Schouwen and Peter A. C. 't Hoen and Sean Bechhofer and Carole Goble and Marco Roos},
journal= {arXiv preprint arXiv:1311.2789},
year = {2014}
}
Comments
35 pages, 10 figures, 1 table. Submitted to Journal of Biomedical Semantics on 2013-05-13, resubmitted after reviews 2013-11-09, 2014-06-27. Accepted in principle 2014-07-29. Published: 2014-09-18 http://www.jbiomedsem.com/content/5/1/41. Research Object homepage: http://www.researchobject.org/