Large-Scale Quantification of Single Amino-Acid Variations by a Variation-Associated Database Search Strategy

	Large-Scale Quantification of Single Amino-Acid Variations by a Variation-Associated Database Search Strategy
	Song, Chunxia 1,2; Wang, Fangjun 1; Cheng, Kai 1; Wei, Xiaoluan 1; Bian, Yangyang 1; Wang, Keyun 1; Tan, Yexiong 3; Wang, Hongyang 3; Ye, Mingliang 1; Zou, Hanfa 1
刊名	journal of proteome research
	2014
卷号	13 期号:1 页码:241-248
关键词	single amino-acid variations quantification proteomics liver cancer
ISSN号	1535-3893
通讯作者	叶明亮 ; 邹汉法
产权排序	待补充
合作状况	英
英文摘要	global quantification of the single amino-acid variations (saavs) is essential to investigate the roles of saavs in disease progression. however, few efforts have been made on this issue due to the lack of high throughput approach. here we presented a strategy by integration of the stable isotope dimethyl labeling with variation-associated database search to globally quantify the saavs at the first time. a protein database containing 87 745 amino acid variant sequences and 73 910 uniprotkb/swiss-prot canonical protein entries was constructed for database search, and higher energy collisional dissociation combined with collision-induced dissociation fragmentation modes were applied to improve the quantification coverage of saavs. compared with target proteomics in which only a few sites could be quantified, as many as 282 unique saavs sites were quantified between hepatocellular carcinoma (hcc) and normal human liver tissues-by our strategy. the variation rates in different samples were evaluated, and some interesting saavs with significant increase normalized quantification ratios, such as t1406n in cps1 and s197r in htatip2, were observed to highly associate with hcc progression. therefore, the newly developed strategy enables the large-scale comparative analysis of variations at the protein level and holds a promising future in the research related to variations.
学科主题	物理化学
WOS标题词	science & technology ; life sciences & biomedicine
类目[WOS]	biochemical research methods
研究领域[WOS]	biochemistry & molecular biology
关键词[WOS]	genome-wide association ; hepatocellular-carcinoma ; phosphoproteome analysis ; peptide identification ; shotgun proteomics ; cell-lines ; susceptibility ; expression ; mutations ; growth
收录类别	SCI
资助信息	1，1
原文出处	248
语种	英语
WOS记录号	WOS:000329472700024
公开日期	2014-09-11
内容类型	期刊论文
源URL	[http://159.226.238.44/handle/321008/119756]
专题	大连化学物理研究所_中国科学院大连化学物理研究所
作者单位	1.Chinese Acad Sci, Dalian Inst Chem Phys, Natl Chromatog R&A Ctr, CAS Key Lab Separat Sci Analyt Chem, Dalian 116023, Peoples R China 2.SINOPEC Res Inst Petr Proc, Beijing 100083, Peoples R China 3.Second Mil Med Univ, Int Cooperat Lab Signal Transduct, Eastern Hepatobiliary Surg Inst, Shanghai 200438, Peoples R China
推荐引用方式 GB/T 7714	Song, Chunxia,Wang, Fangjun,Cheng, Kai,et al. Large-Scale Quantification of Single Amino-Acid Variations by a Variation-Associated Database Search Strategy[J]. journal of proteome research,2014,13(1):241-248.
APA	Song, Chunxia.,Wang, Fangjun.,Cheng, Kai.,Wei, Xiaoluan.,Bian, Yangyang.,...&Zou, Hanfa.(2014).Large-Scale Quantification of Single Amino-Acid Variations by a Variation-Associated Database Search Strategy.journal of proteome research,13(1),241-248.
MLA	Song, Chunxia,et al."Large-Scale Quantification of Single Amino-Acid Variations by a Variation-Associated Database Search Strategy".journal of proteome research 13.1(2014):241-248.