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

Content Provider	Springer Nature Link
Author	Mao, Chang Xuan Chen, Sining Yang, Yitong
Copyright Year	2015
Abstract	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.
Starting Page	170
Ending Page	180
Page Count	11
File Format	PDF
ISSN	10857117
Journal	Journal of Agricultural, Biological, and Environmental Statistics
Volume Number	21
Issue Number	1
e-ISSN	15372693
Language	English
Publisher	Springer US
Publisher Date	2015-09-14
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Binomial mixture Capture–recapture Lower bounds Nonidentifiability Statistics for Life Sciences, Medicine, Health Sciences Agriculture Environmental Monitoring/Analysis Biostatistics
Content Type	Text
Resource Type	Article
Subject	Applied Mathematics Statistics and Probability Environmental Science Agricultural and Biological Sciences Statistics, Probability and Uncertainty

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