Software:Skyline
From HandWiki
| Developer(s) | Brendan X. MacLean et al. |
|---|---|
| Initial release | 17 February 2009 |
| Stable release | 21.2
|
| Written in | C# |
| Operating system | Windows |
| Type | Bioinformatics / Mass spectrometry software |
| License | Apache license 2.0 |
| Website | Skyline Homepage |
Skyline is an open source software for targeted proteomics[1][2] and metabolomics[3] data analysis. It runs on Microsoft Windows and supports the raw data formats from multiple mass spectrometric vendors. It contains a graphical user interface to display chromatographic data for individual peptide or small molecule analytes.
Skyline supports multiple workflows including selected reaction monitoring (SRM) / multiple reaction monitoring (MRM),[4] parallel reaction monitoring (PRM),[5][6] data-independent acquisition (DIA/SWATH)[7] and targeted data-dependent acquisition.[8]
See also
- ProteoWizard
- OpenMS
- Trans-Proteomic Pipeline
- Mass spectrometry software
References
- ↑ "Skyline: an open source document editor for creating and analyzing targeted proteomics experiments". Bioinformatics 26 (7): 966–8. 2010. doi:10.1093/bioinformatics/btq054. PMID 20147306.
- ↑ "The Skyline ecosystem: Informatics for quantitative mass spectrometry proteomics". Mass Spectrometry Reviews 39 (3): 229-244. 2017. doi:10.1002/mas.21540. PMID 28691345.
- ↑ "Skyline for Small Molecules: A Unifying Software Package for Quantitative Metabolomics". Journal of Proteome Research 19 (4): 1447–1458. 2020. doi:10.1021/acs.jproteome.9b00640. PMID 31984744.
- ↑ "Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma". Mol Cell Proteomics 14 (9): 2357-74. 2015. doi:10.1074/mcp.M114.047050. PMID 25693799.
- ↑ "Label-free quantitation of protein modifications by pseudo selected reaction monitoring with internal reference peptides". Journal of Proteome Research 11 (6): 3467-79. 2012. doi:10.1021/pr201240a. PMID 22559222.
- ↑ "Multiplexed, Scheduled, High-Resolution Parallel Reaction Monitoring on a Full Scan QqTOF Instrument with Integrated Data-Dependent and Targeted Mass Spectrometric Workflows". Analytical Chemistry 87 (20): 10222-9. 2015. doi:10.1021/acs.analchem.5b02983. PMID 26398777.
- ↑ "A multicenter study benchmarks software tools for label-free proteome quantification". Nature Biotechnology 34 (11): 1130-1136. 2016. doi:10.1038/nbt.3685. PMID 27701404.
- ↑ "Platform-independent and label-free quantitation of proteomic data using MS1 extracted ion chromatograms in skyline: application to protein acetylation and phosphorylation". Mol Cell Proteomics 11 (5): 202–214. 2012. doi:10.1074/mcp.M112.017707. PMID 22454539.
External links
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