Is subcellular localization informative for modeling protein-protein interaction signal?

Authors:
Junfeng Liu;Hongyu Zhao;Jun Tan;Dajie Luo;Weichuan Yu;E. James Harner;Weichung Joe Shih
Affiliations:
Division of Biometrics, The Cancer Institute of New Jersey, New Brunswick, NJ and Department of Biostatistics, School of Public Health, University of Medicine and Dentistry of New Jersey, Piscataw ...;Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT;Department of Statistics, West Virginia University, Morgantown, WV;Department of Statistics, West Virginia University, Morgantown, WV;Department of Electronic and Computer Engineering, The Hong Kong University of Sciences and Technology, Kowloon, Hong Kong, China;Department of Statistics, West Virginia University, Morgantown, WV;Division of Biometrics, The Cancer Institute of New Jersey, New Brunswick, NJ and Department of Biostatistics, School of Public Health, University of Medicine and Dentistry of New Jersey, Piscataw ...
Venue:
Research Letters in Signal Processing
Year:
2008

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ICIC'06 Proceedings of the 2006 international conference on Computational Intelligence and Bioinformatics - Volume Part III

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Abstract

Statistical methods have been intensively applied in genomic signal processing (Dougherty et al. 2005). For budding yeast Saccharomyces cerevisiae with around 6000 proteins, genome-wide protein-protein-interaction (PPI) (Fromont-Racine et al. 2000, Ito et al. 2001, Newman et al. 2000, and Uetz et al. 2000 among others) and protein subcellular localization (PSL) (Huh et al. 2003) data recently became available and for the latter the presence of 4152 proteins is experimentally tested in each of the 22 subcellular compartments. Recent work shows that multiple biological sources are helpful for both PSL and PPI predictions, and this paper studies statistical feasibility of modeling PPI from PSL since PSLs may play different marginal or joint roles in the complex regulatory network. However, our results indicate that PSL may be controversial for this purpose as an independent source.