Preprocessing Significantly Improves the Peptide/Protein Identification Sensitivity of High-resolution Isobarically Labeled Tandem Mass Spectrometry Data

	Preprocessing Significantly Improves the Peptide/Protein Identification Sensitivity of High-resolution Isobarically Labeled Tandem Mass Spectrometry Data
	Sheng, QH; Li, RX; Dai, J; Li, QR; Su, ZD; Guo, Y; Li, C; Shyr, Y; Zeng, R
刊名	MOLECULAR & CELLULAR PROTEOMICS
	2015
卷号	14 期号:2 页码:405-417
通讯作者	Zeng, R (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Res Ctr Proteome Anal, 320 YueYang Rd, Shanghai 200031, Peoples R China.,yu.shyr@vanderbilt.edu ; zr@sibs.ac.cn
英文摘要	Isobaric labeling techniques coupled with high-resolution mass spectrometry have been widely employed in proteomic workflows requiring relative quantification. For each high-resolution tandem mass spectrum (MS/MS), isobaric labeling techniques can be used not only to quantify the peptide from different samples by reporter ions, but also to identify the peptide it is derived from. Because the ions related to isobaric labeling may act as noise in database searching, the MS/MS spectrum should be preprocessed before peptide or protein identification. In this article, we demonstrate that there are a lot of high-frequency, high-abundance isobaric related ions in the MS/MS spectrum, and removing isobaric related ions combined with deisotoping and deconvolution in MS/MS preprocessing procedures significantly improves the peptide/protein identification sensitivity. The userfriendly software package TurboRaw2MGF (v2.0) has been implemented for converting raw TIC data files to mascot generic format files and can be downloaded for free from https://github.com/shengqh/RCPA.Tools/releases as part of the software suite ProteomicsTools. The data have been deposited to the ProteomeXchange with identifier PXD000994.
学科主题	Biochemistry & Molecular Biology
类目[WOS]	Biochemical Research Methods
关键词[WOS]	SHOTGUN PROTEOMICS ; QUANTITATIVE PROTEOMICS ; PEPTIDE IDENTIFICATION ; PROTEIN IDENTIFICATION ; QUANTIFICATION ; MS/MS ; SPECTRA ; SEARCH ; TAGS ; TOOL
收录类别	SCI
语种	英语
WOS记录号	WOS:000349144000012
内容类型	期刊论文
版本	出版稿
源URL	[http://202.127.25.143/handle/331003/24]
专题	上海生化细胞研究所_上海生科院生化细胞研究所
推荐引用方式 GB/T 7714	Sheng, QH,Li, RX,Dai, J,et al. Preprocessing Significantly Improves the Peptide/Protein Identification Sensitivity of High-resolution Isobarically Labeled Tandem Mass Spectrometry Data[J]. MOLECULAR & CELLULAR PROTEOMICS,2015,14(2):405-417.
APA	Sheng, QH.,Li, RX.,Dai, J.,Li, QR.,Su, ZD.,...&Zeng, R.(2015).Preprocessing Significantly Improves the Peptide/Protein Identification Sensitivity of High-resolution Isobarically Labeled Tandem Mass Spectrometry Data.MOLECULAR & CELLULAR PROTEOMICS,14(2),405-417.
MLA	Sheng, QH,et al."Preprocessing Significantly Improves the Peptide/Protein Identification Sensitivity of High-resolution Isobarically Labeled Tandem Mass Spectrometry Data".MOLECULAR & CELLULAR PROTEOMICS 14.2(2015):405-417.