Serial dilution curve: A new method for analysis of reverse phase protein array data

Bioinformatics

Volumn 25, Issue 5, 2009, Pages 650-654

  Zhang, Li ^a   Wei, Qingyi ^a   Mao, Li ^a   Liu, Wenbin ^a   Mills, Gordon B ^a   Coombes, Kevin ^a  

^a UNIVERSITY OF TEXAS MD ANDERSON CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA ACTIN;

ANALYTICAL PARAMETERS; ARTICLE; BIOINFORMATICS; CONTROLLED STUDY; DATA ANALYSIS; INTERMETHOD COMPARISON; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN MICROARRAY; QUANTITATIVE ANALYSIS; REVERSE PHASE PROTEIN ARRAY; SERIAL DILUTION CURVE; SIGNAL PROCESSING; STATISTICAL ANALYSIS;

EID: 61449136977     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btn663     Document Type: Article

References (20)

1. Amit,I. et al. (2007) A module of negative feedback regulators defines growth factor signaling. Nat. Genet., 39, 503-512.
2. Aoki,H. et al. (2007) Telomere 3′ overhang-specific DNA oligonucleotides induce autophagy in malignant glioma cells. Faseb. J., 21, 2918-2930.
3. Borrebaeck,C.A. and Wingren,C. (2007) High-throughput proteomics using antibody microarrays: An update. Expert. Rev. Mol. Diagn., 7 673-686.
4. Charboneau,L. et al. (2002) Utility of reverse phase protein arrays: Applications to signalling pathways and human body arrays. Brief Funct. Genomic. Proteomic., 1, 305-315.
5. Fan,Y.H. et al. (2007) In vitro expression levels of cell-cycle checkpoint proteins are associated with cellular DNA repair capacity in peripheral blood lymphocytes: A multivariate analysis. J. Proteome Res., 6, 1560-1567.
6. Glazer,M. et al. (2006) Kinetics of oligonucleotide hybridization to photolithographically patterned DNA arrays. Anal. Biochem., 358, 225-238.
7. Hu,J. et al. (2007) Non-parametric quantification of protein lysate arrays. Bioinformatics, 23, 1986-1994.
8. Ihaka,R. and Gentleman,R. (1996) R: A language for data analysis and graphics. J. Comput. Graph. Stat., 5, 299-314.
9. Kreutz,C. et al. (2007) An error model for protein quantification. Bioinformatics, 23, 2747-2753.
10. Lv,L.L. and Liu,B.C. (2007) High-throughput antibody microarrays for quantitative proteomic analysis. Expert Rev. Proteomics, 4, 505-513.
11. Mircean,C. et al. (2005) Robust estimation of protein expression ratios with lysate microarray technology. Bioinformatics, 21 1935-1942.
12. Pluder,F. et al. (2006) Proteome analysis to study signal transduction of G protein-coupled receptors. Pharmacol. Ther., 112, 1-11.
13. Poetz,O. et al. (2005) Protein microarrays: Catching the proteome. Mech. Ageing Dev., 126, 161-170.
14. Sahin,O. et al. (2007) Combinatorial RNAi for quantitative protein network analysis. Proc. Natl Acad. Sci. USA, 104, 6579-6584.
15. Seurynck-Servoss,S.L. et al. (2007) Evaluation of surface chemistries for antibody microarrays. Anal. Biochem., 371, 105-115.
16. Sheehan,K.M. et al. (2005) Use of reverse phase protein microarrays and reference standard development for molecular network analysis of metastatic ovarian carcinoma. Mol. Cell Proteomics, 4, 346-355.
17. Sips,R. (1948) On the structure of a catalyst surface. J. Chem. Phys. 16, 490-495.
18. Tibes,R. et al. (2006) Reverse phase protein array: Validation of a novel proteomic technology and utility for analysis of primary leukemia specimens and hematopoietic stem cells. Mol. Cancer Ther. 5, 2512-2521.
19. Vijayendran,R.A. and Leckband,D.E. (2001) A quantitative assessment of heterogeneity for surface-immobilized proteins. Anal. Chem., 73 471-480.
20. Yokoyama,T. et al. (2007) Roles of mTOR and STAT3 in autophagy induced by telomere 3′ overhang-specific DNA oligonucleotides. Autophagy, 3, 496-498.