Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

Bioinformatics (Oxford, England) - Tập 26 Số 7 - Trang 966-968 - 2010
Brendan MacLean1, Daniela M. Tomazela1, Nicholas Shulman1, Matthew Chambers1, Gregory L. Finney1, Barbara Frewen1, Randall Kern1, David L. Tabb1, D.C. Liebler1, Michael J. MacCoss1
11 Department of Genome Sciences, University of Washington, Seattle, WA 98195, 2 Department of Biomedical Informatics, Vanderbilt University, Nashville, TN 37232, 3 Microsoft Corporation, Redmond, WA 98195 and 4 Department of Biochemistry, Vanderbilt University, Nashville, TN 37232, USA

Tóm tắt

Abstract Summary: Skyline is a Windows client application for targeted proteomics method creation and quantitative data analysis. It is open source and freely available for academic and commercial use. The Skyline user interface simplifies the development of mass spectrometer methods and the analysis of data from targeted proteomics experiments performed using selected reaction monitoring (SRM). Skyline supports using and creating MS/MS spectral libraries from a wide variety of sources to choose SRM filters and verify results based on previously observed ion trap data. Skyline exports transition lists to and imports the native output files from Agilent, Applied Biosystems, Thermo Fisher Scientific and Waters triple quadrupole instruments, seamlessly connecting mass spectrometer output back to the experimental design document. The fast and compact Skyline file format is easily shared, even for experiments requiring many sample injections. A rich array of graphs displays results and provides powerful tools for inspecting data integrity as data are acquired, helping instrument operators to identify problems early. The Skyline dynamic report designer exports tabular data from the Skyline document model for in-depth analysis with common statistical tools. Availability: Single-click, self-updating web installation is available at http://proteome.gs.washington.edu/software/skyline. This web site also provides access to instructional videos, a support board, an issues list and a link to the source code project. Contact:  [email protected] Supplementary information:  Supplementary data are available at Bioinformatics online.

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Thông tin xuất bản

Bioinformatics (Oxford, England)

Tập 26 Số 7

966-968

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