Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics
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 a...
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| Veröffentlicht in: | Briefings in bioinformatics 2014-11, Vol.15 (6), p.942-952 |
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| container_title | Briefings in bioinformatics |
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| creator | Kouskoumvekaki, Irene Shublaq, Nour Brunak, Søren |
| description | 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. |
| doi_str_mv | 10.1093/bib/bbt055 |
| format | Article |
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| ispartof | Briefings in bioinformatics, 2014-11, Vol.15 (6), p.942-952 |
| issn | 1467-5463 1477-4054 |
| language | eng |
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| source | MEDLINE; EBSCOhost Business Source Complete; Oxford Journals Open Access Collection; EZB-FREE-00999 freely available EZB journals; PubMed Central |
| subjects | Bioinformatics Biological Ontologies Biomedical research Computational Biology - methods Computational Biology - trends Data base management Data Interpretation, Statistical Database Management Systems Female High-Throughput Nucleotide Sequencing - statistics & numerical data Humans Information management Male Ontology Software Translational Medical Research Visualization |
| title | Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics |
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