A Population-Size Model for Protein Spot Detection in Proteomic Studies

doi:10.1007/s13253-015-0221-6

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	A Population-Size Model for Protein Spot Detection in Proteomic Studies
	Mao, Chang Xuan 1; Chen, Sining 2; Yang, Yitong 1
刊名	JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS
	2016-03
卷号	21 期号:1 页码:170-180
关键词	Binomial mixture Capture-recapture Lower bounds Nonidentifiability
ISSN号	1085-7117
DOI	10.1007/s13253-015-0221-6
英文摘要	In proteomic studies, a population of proteins are often examined on a gel using a technique called two-dimensional gel eletrophoresis. The technique separates the protein population into individual protein spots on a two-dimensional gel by isoelectric charge and molecular weight. The resulting gel images are then processed by a software system for spot detection and subsequent analysis. The performance of a spot-detection program is evaluated by the total number of spots that are detected. A popular spot-detection program uses the "master-slave" approach, where all spots on "slave images" are subsets of the spots on the "master image." We argue that this approach potentially misses a large proportion of proteins and propose a model that quantifies the lack of performance. We provide nonparametric estimators for the protein population size and the expected number of proteins to be detected if a "fusion-gel" approach was used. Using the data from a rat liver proteome study, we estimate that more than half of the protein population is missed by the master-slave approach.
WOS研究方向	Life Sciences & Biomedicine - Other Topics ; Mathematical & Computational Biology ; Mathematics
语种	英语
出版者	SPRINGER
WOS记录号	WOS:000374695400010
内容类型	期刊论文
源URL	[http://10.2.47.112/handle/2XS4QKH4/1330]
专题	上海财经大学
通讯作者	Mao, Chang Xuan
作者单位	1.Shanghai Univ Finance & Econ, Sch Stat & Management, Shanghai 200433, Peoples R China; 2.Bell Labs, Dept Stat & Learning, 600 Mt Ave, Murray Hill, NJ 07974 USA
推荐引用方式 GB/T 7714	Mao, Chang Xuan,Chen, Sining,Yang, Yitong. A Population-Size Model for Protein Spot Detection in Proteomic Studies[J]. JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS,2016,21(1):170-180.
APA	Mao, Chang Xuan,Chen, Sining,&Yang, Yitong.(2016).A Population-Size Model for Protein Spot Detection in Proteomic Studies.JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS,21(1),170-180.
MLA	Mao, Chang Xuan,et al."A Population-Size Model for Protein Spot Detection in Proteomic Studies".JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS 21.1(2016):170-180.