Reverse Phase Protein Microarrays: Fluorometric and Colorimetric Detection

Methods in Molecular Biology

Volumn 723, Issue , 2011, Pages 275-301

  Gallagher, Rosa I ^a   Silvestri, Alessandra ^a,b   Petricoin, Emanuel F ^a   Liotta, Lance A ^a   Espina, Virginia ^a  

^a GEORGE MASON UNIVERSITY   (United States)

^b CENTRO DI RIFERIMENTO ONCOLOGICO   (Italy)

Author keywords

Colorimetric; Detection; Fluorometric; Image acquisition; Immunostaining; Microarray analysis; Protein; Reverse phase protein microarray

Indexed keywords

BENZIDINE; BENZIDINE DERIVATIVE; ORGANOMETALLIC COMPOUND; PROTEIN; SYPRO RUBY;

ARTICLE; CHEMISTRY; COLORIMETRY; COMPUTER PROGRAM; FLUOROMETRY; METABOLISM; METHODOLOGY; PROTEIN MICROARRAY; STAINING; STATISTICS;

BENZIDINES; COLORIMETRY; FLUOROMETRY; ORGANOMETALLIC COMPOUNDS; PROTEIN ARRAY ANALYSIS; PROTEINS; SOFTWARE; STAINING AND LABELING; STATISTICS AS TOPIC;

EID: 79958244322     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-043-0_18     Document Type: Chapter

References (46)

1. Ekins R, Chu F, Biggart E (1990) Multispot, multianalyte, immunoassay. Ann Biol Clin (Paris) 48:655–666
2. Liotta LA, Espina V, Mehta AI, Calvert V, Rosenblatt K et al (2003) Protein microarrays: meeting analytical challenges for clinical applications. Cancer Cell 3:317–325
3. Haab BB (2001) Advances in protein microarray technology for protein expression and interaction profiling. Curr Opin Drug Discov Devel 4:116–123
4. Paweletz CP, Charboneau L, Bichsel VE, Simone NL, Chen T et al (2001) Reverse phase protein microarrays which capture disease progression show activation of pro-survival pathways at the cancer invasion front. Oncogene 20:1981–1989
5. Tonkinson JL, Stillman BA (2002) Nitrocellulose: a tried and true polymer finds utility as a post-genomic substrate. Front Biosci 7:c1–c12
6. Zhu H, Snyder M (2003) Protein chip technology. Curr Opin Chem Biol 7:55–63
7. MacBeath G, Schreiber SL (2000) Printing proteins as microarrays for high-throughput function determination. Science 289: 1760–1763
8. Espina V, Mehta AI, Winters ME, Calvert V, Wulfkuhle J et al (2003) Protein microarrays: molecular profiling technologies for clinical specimens. Proteomics 3:2091–2100
9. Espina V, Woodhouse EC, Wulfkuhle J, Asmussen HD, Petricoin EF III et al (2004) Protein microarray detection strategies: focus on direct detection technologies. J Immunol Methods 290:121–133
10. Celis JE, Gromov P (2003) Proteomics in translational cancer research: toward an integrated approach. Cancer Cell 3:9–15
11. Hunyady B, Krempels K, Harta G, Mezey E (1996) Immunohistochemical signal amplification by catalyzed reporter deposition and its application in double immunostaining. J Histochem Cytochem 44:1353–1362
12. Bobrow MN, Harris TD, Shaughnessy KJ, Litt GJ (1989) Catalyzed reporter deposition, a novel method of signal amplification. Application to immunoassays. J Immunol Methods 125:279–285
13. Bobrow MN, Shaughnessy KJ, Litt GJ (1991) Catalyzed reporter deposition, a novel method of signal amplification. II. Application to membrane immunoassays. J Immunol Methods 137:103–112
14. Bobrow MN, Litt GJ, Shaughnessy KJ, Mayer PC, Conlon J (1992) The use of catalyzed reporter deposition as a means of signal amplification in a variety of formats. J Immunol Methods 150:145–149
15. King G, Payne S, Walker F, Murray GI (1997) A highly sensitive detection method for immunohistochemistry using biotinylated tyramine. J Pathol 183:237–241
16. Wiese R (2003) Analysis of several fluorescent detector molecules for protein microarray use. Luminescence 18:25–30
17. Panchuk-Voloshina N, Haugland RP, Bishop-Stewart J, Bhalgat MK, Millard PJ et al (1999) Alexa dyes, a series of new fluorescent dyes that yield exceptionally bright, photostable conjugates. J Histochem Cytochem 47: 1179–1188
18. Lesaicherre ML, Uttamchandani M, Chen GY, Yao SQ (2002) Antibody-based fluorescence detection of kinase activity on a peptide array. Bioorg Med Chem Lett 12:2085–2088
19. Ekins R, Chu F, Biggart E (1990) Fluorescence spectroscopy and its application to a new generation of high sensitivity, multi-microspot, multianalyte, immunoassay. Clin Chim Acta 194:91–114
20. Bacarese-Hamilton T, Mezzasoma L, Ingham C, Ardizzoni A, Rossi R et al (2002) Detection of allergen-specific IgE on microarrays by use of signal amplification techniques. Clin Chem 48:1367–1370
21. Templin MF, Stoll D, Schrenk M, Traub PC, Vohringer CF et al (2002) Protein microarray technology. Trends Biotechnol 20:160–166
22. VanMeter AJ, Rodriguez AS, Bowman ED, Jen J, Harris CC et al (2008) Laser capture microdissection and protein microarray analysis of human non-small cell lung cancer: differential epidermal growth factor receptor (EGPR) phosphorylation events associated with mutated EGFR compared with wild type. Mol Cell Proteomics 7:1902–1924
23. Gulmann C, Sheehan KM, Conroy RM, Wulfkuhle JD, Espina V et al (2009) Quantitative cell signalling analysis reveals down-regulation of MAPK pathway activation in colorectal cancer. J Pathol 218: 514–519
24. Gulmann C, Espina V, Petricoin E III, Longo DL, Santi M et al (2005) Proteomic analysis of apoptotic pathways reveals prognostic factors in follicular lymphoma. Clin Cancer Res 11:5847–5855
25. Petricoin EF III, Espina V, Araujo RP, Midura B, Yeung C et al (2007) Phosphoprotein pathway mapping: Akt/mammalian target of rapamycin activation is negatively associated with childhood rhabdomyosarcoma survival. Cancer Res 67:3431–3440
26. Wulfkuhle JD, Speer R, Pierobon M, Laird J, Espina V et al (2008) Multiplexed cell signaling analysis of human breast cancer applications for personalized therapy. J Proteome Res 7:1508–1517
27. Hsu SM, Soban E (1982) Color modification of diaminobenzidine (DAB) precipitation by metallic ions and its application for double immunohistochemistry. J Histochem Cytochem 30:1079–1082
28. Pawley JB (1995) Handbook of biological confocal microscopy. Plenum, New York
29. Berggren K, Steinberg TH, Lauber WM, Carroll JA, Lopez MF et al (1999) A luminescent ruthenium complex for ultrasensitive detection of proteins immobilized on membrane supports. Anal Biochem 276:129–143
30. Berggren KN, Schulenberg B, Lopez MF, Steinberg TH, Bogdanova A et al (2002) An improved formulation of SYPRO Ruby protein gel stain: comparison with the original formulation and with a ruthenium II tris (bathophenanthroline disulfonate) formulation. Proteomics 2:486–498
31. Mackintosh JA, Choi HY, Bae SH, Veal DA, Bell PJ et al (2003) A fluorescent natural product for ultra sensitive detection of proteins in one-dimensional and two-dimensional gel electrophoresis. Proteomics 3: 2273–2288
32. Fowler S (1996) Protein staining and immu-nodetection using colloidal gold. In: Walker J (ed) Protein protocols handbook. Humana, Totowa, NJ, pp 275–287
33. Switzer RC III, Merril CR, Shifrin S (1979) A highly sensitive silver stain for detecting proteins and peptides in polyacrylamide gels. Anal Biochem 98:231–237
34. Huels C, Muellner S, Meyer HE, Cahill DJ (2002) The impact of protein biochips and microarrays on the drug development process. Drug Discov Today 7:S119–S124
35. Grote T, Siwak DR, Fritsche HA, Joy C, Mills GB et al (2008) Validation of reverse phase protein array for practical screening of potential biomarkers in serum and plasma: accurate detection of CA19-9 levels in pancreatic cancer. Proteomics 8:3051–3060
36. Korf U, Derdak S, Tresch A, Henjes F, Schumacher S et al (2008) Quantitative protein microarrays for time-resolved measurements of protein phosphorylation. Proteomics 8:4603–4612
37. Korf U, Wiemann S (2005) Protein microarrays as a discovery tool for studying protein-protein interactions. Expert Rev Proteomics 2:13–26
38. Espina V, Liotta LA, Petricoin EF III (2009) Reverse-phase protein microarrays for thera-nostics and patient tailored therapy. Methods Mol Biol 520:89–105
39. Zhou G, Li H, DeCamp D, Chen S, Shu H et al (2002) 2D differential in-gel electrophoresis for the identification of esophageal scans cell cancer-specific protein markers. Mol Cell Proteomics 1:117–124
40. Washburn MP, Ulaszek R, Deciu C, Schieltz DM, Yates JR III (2002) Analysis of quantitative proteomic data generated via multidimensional protein identification technology. Anal Chem 74:1650–1657
41. Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH et al (1999) Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat Biotechnol 17:994–999
42. Gorg A, Obermaier C, Boguth G, Harder A, Scheibe B et al (2000) The current state of two-dimensional electrophoresis with immobilized pH gradients. Electrophoresis 21:1037–1053
43. Tibes R, Qiu Y, Lu Y, Hennessy B, Andreeff M 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
44. Stanislaus R, Carey M, Deus HF, Coombes K, Hennessy BT et al (2008) RPPAML/RIMS: a metadata format and an information management system for reverse phase protein arrays. BMC Bioinformatics 9:555
45. Newland J, Jones J (1980) Fluorometry. In: Hicks R, Schenken JR, Steinrauf MA (eds) Laboratory instrumentation. Harper & Row, Hagerstown, MD, pp 61–66
46. VanMeter A, Signore M, Pierobon M, Espina V, Liotta LA et al (2007) Reverse-phase protein microarrays: application to biomarker discovery and translational medicine. Expert Rev Mol Diagn 7:625–633