A linked data approach to sharing workflows and workflow results

Marco Roos*, Sean Bechhofer, Jun Zhao, Paolo Missier, David R. Newman, David De Roure, M. Scott Marshall

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

A bioinformatics analysis pipeline is often highly elaborate, due to the inherent complexity of biological systems and the variety and size of datasets. A digital equivalent of the 'Materials and Methods' section in wet laboratory publications would be highly beneficial to bioinformatics, for evaluating evidence and examining data across related experiments, while introducing the potential to find associated resources and integrate them as data and services. We present initial steps towards preserving bioinformatics 'materials and methods' by exploiting the workflow paradigm for capturing the design of a data analysis pipeline, and RDF to link the workflow, its component services, run-time provenance, and a personalized biological interpretation of the results. An example shows the reproduction of the unique graph of an analysis procedure, its results, provenance, and personal interpretation of a text mining experiment. It links data from Taverna, myExperiment.org, BioCatalogue.org, and ConceptWiki.org. The approach is relatively 'light-weight' and unobtrusive to bioinformatics users.

Original languageEnglish
Title of host publicationLeveraging Applications of Formal Methods, Verification, and Validation - 4th International Symposium on Leveraging Applications, ISoLA 2010, Proceedings
Pages340-354
Number of pages15
EditionPART 1
DOIs
Publication statusPublished - 2010
Event4th International Symposium on Leveraging Applications, ISoLA 2010 - Heraklion, Crete, Greece
Duration: 18 Oct 201021 Oct 2010

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
NumberPART 1
Volume6415 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference4th International Symposium on Leveraging Applications, ISoLA 2010
Country/TerritoryGreece
CityHeraklion, Crete
Period18/10/1021/10/10

Keywords

  • Concept Web
  • Digital preservation
  • Linked Data
  • Provenance
  • Semantic Web
  • Workflow

ASJC Scopus subject areas

  • Theoretical Computer Science
  • General Computer Science

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