Journal article
Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics
Department of Systems Biology, Technical University of Denmark1
Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark2
University College London3
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark4
CFB - Metagenomic Systems Biology, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark5
As both the amount of generated biological data and the processing compute power increase, computational experimentation is no longer the exclusivity of bioinformaticians, but it is moving across all biomedical domains. For bioinformatics to realize its translational potential, domain experts need access to user-friendly solutions to navigate, integrate and extract information out of biological databases, as well as to combine tools and data resources in bioinformatics workflows.
In this review, we present services that assist biomedical scientists in incorporating bioinformatics tools into their research.We review recent applications of Cytoscape, BioGPS and DAVID for data visualization, integration and functional enrichment. Moreover, we illustrate the use of Taverna, Kepler, GenePattern, and Galaxy as open-access workbenches for bioinformatics workflows.
Finally, we mention services that facilitate the integration of biomedical ontologies and bioinformatics tools in computational workflows.
Language: | English |
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Publisher: | Oxford University Press |
Year: | 2014 |
Pages: | 942-952 |
ISSN: | 14774054 and 14675463 |
Types: | Journal article |
DOI: | 10.1093/bib/bbt055 |
ORCIDs: | 0000-0003-0316-5866 |
Biological Ontologies Computational Biology Data Interpretation, Statistical Database Management Systems Female High-Throughput Nucleotide Sequencing Humans Male Papers Software Translational Research, Biomedical biological networks biomedical ontologies data integration scientific workflows translational bioinformatics