With vast increases in biological data generation, mechanisms for data storage and analysis have become limiting. A data structure, semantically typed data hypercubes (SDCubes), that combines hierarchical data format version 5 (HDF5) and extensible markup language (XML) file formats, now permits the flexible storage, annotation and retrieval of large and heterogenous datasets.
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References
High Level Expert Group on Scientific Data. Riding the wave: how Europe can gain from the rising tide of scientific data (http://cordis.europa.eu/fp7/ict/e-infrastructure/docs/hlg-sdi-report.pdf) (European Union, 2010).
Millard, B.L., Niepel, M., Menden, M.P., Muhlich, J. & Sorger, P.K. Nat. Methods 8, 487–492 (2011).
Brazma, A. et al. Nat. Genet. 29, 365–371 (2001).
Spellman, P.T. et al. Genome Biol. 3, 0046 (2002).
Goldberg, I.G. et al. Genome Biol. 6, R47 (2005).
Deutsch, E.W. et al. Nat. Biotechnol. 26, 305–312 (2008).
Taylor, C.F. et al. Nat. Biotechnol. 26, 889–896 (2008).
Ashburner, M. et al. Nat. Genet. 25, 25–29 (2000).
Hull, D. et al. Nucleic Acids Res. 34, W729–W732 (2006).
Goble, C.A. et al. Nucleic Acids Res. 38, W677–82 (2010).
Gray, J. et al. Proc. ACM SIGMOD Int. Conf. Manag. Data 34, 35–41 (2005).
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J.R.S. founded and directs the Open Microscopy Environment and Glencoe Software, Inc., which build data management solutions for imaging in the life sciences. C.B. is employed by Google UK, Ltd., which delivers search and data tools for the world community.
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Swedlow, J., Zanetti, G. & Best, C. Channeling the data deluge. Nat Methods 8, 463–465 (2011). https://doi.org/10.1038/nmeth.1616
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DOI: https://doi.org/10.1038/nmeth.1616
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