Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace

Kun Qu, Sara Garamszegi, Felix Wu, Helga Thorvaldsdottir, Ted Liefeld, Marco Ocana, Diego Borges-Rivera, Nathalie Pochet, James T. Robinson, Barry Demchak, Tim Hull, Gil Ben-Artzi, Daniel Blankenberg, Galt P. Barber, Brian T. Lee, Robert M. Kuhn, Anton Nekrutenko, Eran Segal, Trey Ideker, Michael ReichAviv Regev, Howard Y Chang, Jill P. Mesirov

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Complex biomedical analyses require the use of multiple software tools in concert and remain challenging for much of the biomedical research community. We introduce GenomeSpace (http://www.genomespace.org), a cloud-based, cooperative community resource that currently supports the streamlined interaction of 20 bioinformatics tools and data resources. To facilitate integrative analysis by non-programmers, it offers a growing set of 'recipes', short workflows to guide investigators through high-utility analysis tasks.

Original languageEnglish (US)
Pages (from-to)245-247
Number of pages3
JournalNature methods
Volume13
Issue number3
DOIs
StatePublished - Feb 25 2016

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All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Biochemistry
  • Molecular Biology
  • Cell Biology

Cite this

Qu, K., Garamszegi, S., Wu, F., Thorvaldsdottir, H., Liefeld, T., Ocana, M., ... Mesirov, J. P. (2016). Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace. Nature methods, 13(3), 245-247. https://doi.org/10.1038/nmeth.3732
Qu, Kun ; Garamszegi, Sara ; Wu, Felix ; Thorvaldsdottir, Helga ; Liefeld, Ted ; Ocana, Marco ; Borges-Rivera, Diego ; Pochet, Nathalie ; Robinson, James T. ; Demchak, Barry ; Hull, Tim ; Ben-Artzi, Gil ; Blankenberg, Daniel ; Barber, Galt P. ; Lee, Brian T. ; Kuhn, Robert M. ; Nekrutenko, Anton ; Segal, Eran ; Ideker, Trey ; Reich, Michael ; Regev, Aviv ; Y Chang, Howard ; Mesirov, Jill P. / Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace. In: Nature methods. 2016 ; Vol. 13, No. 3. pp. 245-247.
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Qu, K, Garamszegi, S, Wu, F, Thorvaldsdottir, H, Liefeld, T, Ocana, M, Borges-Rivera, D, Pochet, N, Robinson, JT, Demchak, B, Hull, T, Ben-Artzi, G, Blankenberg, D, Barber, GP, Lee, BT, Kuhn, RM, Nekrutenko, A, Segal, E, Ideker, T, Reich, M, Regev, A, Y Chang, H & Mesirov, JP 2016, 'Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace', Nature methods, vol. 13, no. 3, pp. 245-247. https://doi.org/10.1038/nmeth.3732

Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace. / Qu, Kun; Garamszegi, Sara; Wu, Felix; Thorvaldsdottir, Helga; Liefeld, Ted; Ocana, Marco; Borges-Rivera, Diego; Pochet, Nathalie; Robinson, James T.; Demchak, Barry; Hull, Tim; Ben-Artzi, Gil; Blankenberg, Daniel; Barber, Galt P.; Lee, Brian T.; Kuhn, Robert M.; Nekrutenko, Anton; Segal, Eran; Ideker, Trey; Reich, Michael; Regev, Aviv; Y Chang, Howard; Mesirov, Jill P.

In: Nature methods, Vol. 13, No. 3, 25.02.2016, p. 245-247.

Research output: Contribution to journalArticle

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AU - Lee, Brian T.

AU - Kuhn, Robert M.

AU - Nekrutenko, Anton

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AU - Ideker, Trey

AU - Reich, Michael

AU - Regev, Aviv

AU - Y Chang, Howard

AU - Mesirov, Jill P.

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Qu K, Garamszegi S, Wu F, Thorvaldsdottir H, Liefeld T, Ocana M et al. Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace. Nature methods. 2016 Feb 25;13(3):245-247. https://doi.org/10.1038/nmeth.3732