參考文獻 |
Bader,G.D. and Hogue,C.W.V. (2002) Analyzing yeast protein–protein interaction data obtained from different sources. Nat Biotechnol., 20, 991–997.
Bu,D., Zhao,Y., Cai,L., Xue,H., Zhu,X., Lu,H., Zhang,J., Sun,S., Ling,L., Zhang,N., Li,G. and Chen,R. (2003) Topological structure analysis of the protein–protein interaction network in budding yeast. Nucleic Acids Res., 31, 2443–2450.
Chin,C.S. and Samanta,M.P. (2003) Global snapshot of a protein interaction network—a percolation based approach. Bioinformatics, 19, 2413-2419.
Criekinge,W.V. and Beyaert,R. (1999) Yeast two-hybrid: State of the art. BiolProced Online, 2, 1-38.
Deane,C.M., Salwinski,L., Xenarios,I. and Eisenberg,D. (2002) Protein interactions: two methods for assessment of the reliability of high throughput observations. Cell Proteomics, 1, 349–356.
Deng,M., Sun,F., and Chen,T. (2003) Assessment of the reliability of protein-protein interactions and protein function prediction. Pac Symp Biocomput, 140-151.
Egan,J. (1975) Signal Detection Theory and ROC Analysis, Academic Press, New York.
Estrada,E., (2006) Virtual identification of essential proteins within the protein interaction network of yeast. Proteomics 2006, 6, 35–40.
Estrada,E. and Rodriguez-Velazquez,J.A., (2005) Subgraph centrality in complex networks. Physical Review E., 71, 056103.
Gagneur,J., Krause,R., Bouwmeester,T. and Casari,G., (2004) Modular decomposition of protein-protein interaction networks. Genome Biology, 5, R57.
Gavin,A.C., Bosche,M., Krause,R., Grandi,P., Marzioch,M. et al. (2002) Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature, 415, 141–147.
Giaever,G., Chu,A.M., Ni,L., Connelly,C., Riles,L., Ve´ronneau,S., et al. (2002) Functional profiling of the Saccharomyces cerevisiae genome. Nature, 418, 387-391.
Ho,Y., Gruhler,A., Heilbut,A., Bader,G.D., Moore,L., Adams,S.L., et al. (2002) Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectroscopy. Nature, 415, 180–183.
Hyle,J.W., Randal,J.S. and Reines,D. (2003) Functional Distinctions between IMP Dehydrogenase Genes in Providing Mycophenolate Resistance and Guanine Prototrophy to Yeast. The Journal Of Biological Chemistry, 278, 31, 28470–28478.
Ito,T., Chiba,T., Ozawa,R., Yoshida,M., Hattori,M. and Sakaki,Y. (2001) A comprehensive two-hybrid analysis to explore the yeast protein interactome. Natl Acad. Sci. USA, 98, 4569–4574.
Jeong,H., Mason,S.P., Barabasi,A.L. and Oltvai,Z.N. (2001) Lethality and centrality in protein networks. Nature, 411, 41–42.
John,C.G. and Kaufman,P.D. (1999)Role of Saccharomyces cerevisiae Chromatin Assembly Factor-Iin Repair of Ultraviolet Radiation Damage in Vivo. Genetics 151, 485–497.
Liebler,D.C. (2002) Introduction to Proteomics-Tools for the New Biology. Humana Press Inc. New Jersey.
Lockshon,D., Narayan,V., Srinivasan,M., Pochart,P. et al. (2000) A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature, 403, 623–627.
Mangus,D.A., Amrani,N. and Jacobson,A. (1998) Pbp1p, a Factor Interacting with Saccharomyces cerevisiae Poly(A)-Binding Protein, Regulates Polyadenylation. Molecular and cellular biology, 18, 12, 7383-7396.
Pržulj,N., .Wigle,D.A. and Jurisica,I. (2003) Functional topology in a network of protein interactions. Bioinformatics, 20, 340-348.
Saito,R., Suzuki,H., and Hayashizaki,Y. (2003) Construction of reliable protein–protein interaction networks with a new interaction generality measure. Bioinformatics, 19, 756–763.
Saito,R., Suzuki,H., and Hayashizaki,Y. (2002) Interaction generality, a measurement to assess the reliability of a protein–protein interaction. Nucleic Acids Res., 30, 1163–1168.
Samanta,M.P., and Liang,S. (2003) Redundancies in large-scale protein interaction networks Proc. Natl Acad. Sci., 100, 12579–12583.
Smith,D., Gerstein,M., Reed,M.A. and Snyder,M. (2000) Analysis of yeast protein kinases using protein chips. Nat. Genet., 26, 283–289.
Sprinzak,E., Sattath,S. and Margalit,H. (2003) How reliable are experimental protein–protein interaction data? J. Mol. Biol., 327, 919–923.
Stauffer,D. and Aharony,A. (1994) Introduction to Percolation Theory. Taylor and Francis, London.
Uetz,P., Giot,L., Cagney,G., Mansfield,T.A., Judson,R.S., Knight,J.R., et al. (2002) Specificity and stability in topology of protein networks. Science, 296, 910.
von Mering,C.V., Krause,R., Snel,B., Cornell,M., Oliver,S.G., Fields S. and Bork P., (2002) Comparative assessment of largescale data sets of protein–protein interactions. Nature, 417, 399–403
Winzeler,E.A., Shoemaker,D.D., Astromoff,A., Liang,H., Keith Anderson,B., et al. (1999) Functional characterization of the Saccharomyces cerevisiae genome by gene deletion and parallel analysis. Science, 285, 901–906. |