A New Scoring Scheme for Peptide Sequence Tagging via Doubly Charged MS/MS Spectra

Author

Sun, Hanchang ; Zhang, Jiyang ; Liu, Hui ; Zhang, Wei ; Xu, Changming ; Wang, Tengjiao ; Xie, Hongwei

Author_Institution

Coll. of Mechatron. & Autom., Nat. Univ. of Defense Technol., Changsha, China

fYear

2011

fDate

10-12 May 2011

Firstpage

1

Lastpage

4

Abstract

Peptide sequence tagging (PST) is one of the basic problems in computational proteomics. It is a flexible method which has been widely used in protein identification as well as mapping post-translational modifications (PTM) to peptides. In this work, we present a new scoring scheme for peptide sequence tagging via doubly charged tandem mass spectra. Four public datasets from different types of mass spectrometers (Thermo LTQ-FT, LTQ and LCQ, Waters/Micromass QTOF) are applied to test our scoring scheme and the results are compared with the widely used PST algorithm InsPecT. The results show that our method achieves higher accuracy and better performance than InsPecT. Based on the scoring scheme, we have developed a software tool named TVNovoTag, which is available at http://www.bprc.ac.cn/TVNovoTag/.

Keywords

biology computing; identification technology; mass spectrometers; mass spectroscopy; proteomics; software tools; InsPecT; TVNovoTag; computational proteomics; doubly charged MS-MS spectra; doubly charged tandem mass spectra; mass spectrometers; peptide sequence tagging; post-translational modifications; protein identification; public datasets; software tool; Accuracy; Databases; Peptides; Proteins; Proteomics; Spectroscopy; Tagging;

fLanguage

English

Publisher

ieee

Conference_Titel

Bioinformatics and Biomedical Engineering, (iCBBE) 2011 5th International Conference on

Conference_Location

Wuhan

ISSN

2151-7614

Print_ISBN

978-1-4244-5088-6

Type

conf

DOI

10.1109/icbbe.2011.5780016

Filename

5780016