Validation of tandem mass spectrometry database search results using DTASelect

Current Protocols in Bioinformatics
Daniel CociorvaJohn R Yates

Abstract

DTASelect provides a means by which complex SEQUEST results can be filtered, organized, and viewed. A single sample may produce tens of thousands of tandem mass spectra. Manually perusing and selecting SEQUEST matches among such a mass of data carries a risk of inconsistency. DTASelect allows the user to set complex criteria for acceptance or rejection of individual spectrum results. It also features rules for dealing with multiple, identical peptide matches and for removing proteins that are insufficiently evidenced. It provides its sorted and filtered summary as HTML and text documents for easy review and also offers several auxiliary reports. DTASelect is a powerful tool for automatic analysis of complex mixture tandem mass spectrometry.

References

Nov 25, 2003·Analytical Chemistry·Alexey I NesvizhskiiRuedi Aebersold
Nov 1, 1994·Journal of the American Society for Mass Spectrometry·J K EngJ R Yates

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Citations

Jan 10, 2013·Journal of Proteome Research·Catherine C L WongJohn R Yates
Nov 20, 2012·Nature Methods·Bryan R FonslowJohn R Yates
Jan 15, 2013·Nature Structural & Molecular Biology·Nicholas A LyonsDavid O Morgan
Jan 13, 2009·Molecular & Cellular Proteomics : MCP·Farnusch KaschaniRenier A L van der Hoorn
Feb 23, 2010·Molecular & Cellular Proteomics : MCP·T N C RamyaJames C Paulson
Jun 3, 2011·Molecular Biology of the Cell·Yutian PengGeorjana Barnes
Aug 18, 2009·Bioinformatics·Paulo C CarvalhoJohn R Yates
Oct 17, 2012·Glycobiology·T N C RamyaJames C Paulson
Feb 4, 2012·Science·Jeffrey N SavasMartin W Hetzer
Jul 3, 2009·Journal of Virology·Yutaka AmakoAleem Siddiqui
Sep 7, 2012·PloS One·Rhishikesh BargajeBeena Pillai
Oct 18, 2013·Proceedings of the National Academy of Sciences of the United States of America·Yansong MiaoDavid G Drubin
Aug 15, 2014·Journal of Proteome Research·Lucio Matias SchiapparelliHollis T Cline
Oct 8, 2015·Journal of Proteome Research·Daniel B McClatchyJohn R Yates
Oct 5, 2016·Journal of Proteome Research·Katelyn E Caslavka ZempelSteven G Clarke
Apr 25, 2017·Journal of Proteome Research·Yuanhui MaJohn R Yates
Jun 1, 2014·Molecular & Cellular Proteomics : MCP·Felipe V LeprevostPaulo C Carvalho
Oct 4, 2016·Cellular Microbiology·Allan L ChenPeter J Bradley
May 21, 2011·Antioxidants & Redox Signaling·Sebastian KehrKatja Becker
May 15, 2010·Molecular & Cellular Proteomics : MCP·Natalia de MiguelPatricia J Johnson
Feb 11, 2014·The Journal of Biological Chemistry·Ruchi ChaubeJonathan S Stamler
Dec 11, 2019·Nature Chemical Biology·Thomas F MartinezAlan Saghatelian
Dec 10, 2017·Cellular and Molecular Life Sciences : CMLS·Yesica R NievasNatalia de Miguel

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