Current perspectives in protein array technology

Annals of Clinical Biochemistry

Volumn 43, Issue 6, 2006, Pages 457-467

  Kricka, Larry J ^a   Master, S R ^a   Joos, T O ^b   Fortina, P ^c,d  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

^b UNIVERSITY OF TÜBINGEN   (Germany)

^c THOMAS JEFFERSON UNIVERSITY   (United States)

^d SAPIENZA UNIVERSITY OF ROME   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

REAGENT;

ACCURACY; BIOLOGICAL ACTIVITY; BIOMEDICAL TECHNOLOGY ASSESSMENT; CHEMICAL REACTION; CLINICAL PRACTICE; DIAGNOSTIC TEST; INFORMATION PROCESSING; MEDICAL RESEARCH; METHODOLOGY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN FUNCTION; PROTEIN MICROARRAY; QUALITY CONTROL; REVIEW;

PROTEIN ARRAY ANALYSIS; REAGENT KITS, DIAGNOSTIC;

EID: 33751314788     PISSN: 00045632     EISSN: 00045632     Source Type: Journal    
DOI: 10.1258/000456306778904731     Document Type: Review

References (88)

1. Ekins RP. Ligand assays: from electrophoresis to miniaturized microarrays. Clin Chem 1998; 44: 2015-30
2. Angenendt P. Progress in protein and antibody microarray technology. Drug Disc Today 2005; 10: 503-11
3. Joos TO, Stoll D, Templin MF. Miniaturised multiplexed immunoassays. Curr Opin Chem Biol 2002; 6: 76-80
4. Kricka LJ, Joos T, Fortina P. Protein microarrays: a literature survey. Clin Chem 2003; 49: 2109
5. Lueking A, Cahill DJ, Mullner S. Protein biochips: a new and versatile platform technology for molecular medicine. Drug Disc Today 2005; 10: 789-94
6. MacBeath G. Protein microarrays and proteomics. Nat Genet 2002; 32(Suppl): 526-32
7. Min DH, Mrksich M. Peptide arrays: towards routine implementation. Curr Opin Chem Biol 2004; 8: 554-8
8. Poetz O, Schwenk JM, Kramer S, Stoll D, Templin MF, Joos TO. Protein microarrays: catching the proteome. Mech Ageing Develop 2005; 126: 161-70
9. Schena M, ed. Protein Microarrays. Sudbury, Massachusetts: Jones and Bartlett, 2005: 469
10. Stoll D, Templin MF, Bachmann J, Joos TO. Protein microarrays: applications and future challenges. Curr Opin Drug Disc Develop 2005; 8: 239-52
11. Templin MF, Stoll D, Bachmann J, Joos TO. Protein microarrays and multiplexed sandwich immunoassays: what beats the beads? Combinat Chem High Throughput Scr 2004; 7: 223-9
12. Templin MF, Stoll D, Schwenk JM, Potz O, Kramer S, Joos TO. Protein microarrays: promising tools for proteomic research. Proteomics 2003; 3: 2155-66
13. Templin MF, Stoll D, Schrenk M, Traub PC, Vohringer CF, Joos TO. Protein microarray technology. Drug Disc Today 2002; 7: 815-22
14. Utz PJ. Protein arrays for studying blood cells and their secreted products. Immunol Rev 2005; 204: 264-82
15. Zhu H, Snyder M. Protein chip technology. Curr Opin Chem Biol 2003; 7: 55-63
16. Zhu H, Bilgin M, Snyder M. Proteomics. Ann Rev Biochem 2003; 72: 783-812
17. Bruckbauer A, Zhou D, Kang DJ, Korchev YE, Abell C, Klenerman D. An addressable antibody nanoarray produced on a nanostructured surface. J Am Chem Soc 2004; 126: 6508-9
18. Lynch M, Mosher C, Huff J, Nettikadan S, Johnson J, Henderson E. Functional protein nanoarrays for biomarker profiling. Proteomics 2004; 4: 1695-702
19. Morozov VN. Protein microarrays: principles and limitations In: Schena M, ed. Protein Microarrays. Sudbury, Massachusetts: Jones and Bartlett, 2005; 71-105
20. Kusnezov W, Pulli T, Witt O, Hoheisel JO. Solid supports for protein microarrays and related devices In: Schena M, ed. Protein Microarrays. Sudbury, Massachusetts: Jones and Bartlett, 2005; 247-83
21. Tseng F-G, Lin S-C, Yao D-J, Huang H, Chieng C-C. Technological aspects of protein microarrays In: Schena M, ed. Protein Microarrays. Sudbury, Massachusetts: Jones and Bartlett, 2005; 305-37
22. Marquette CA, Imbert-Laurenceau E, Mallet F, Chaix C, Mandrand B, Blum LJ. Electroaddressed immobilization of recombinant HIV-1 P24 capsid protein onto screen-printed arrays for serological testing. Anal Biochem 2005; 340: 14-23
23. Wee KW, Kang GY, Park J, et al. Novel electrical detection of label-free disease marker proteins using piezoresistive self-sensing micro-cantilevers. Biosens Bioelectron 2005; 20: 1932-8
24. Angenendt P, Nyarsik L, Szaflarski W, et al. Cell-free protein expression and functional assay in nanowell chip format. Anal Chem 2004; 76: 1844-9
25. Kang M, Trofin L, Mota MO, Martin CR. Protein capture in silica nanotube membrane 3-D microwell arrays. Anal Chem 2005; 77: 6243-9
26. Gutmann O, Kuehlewein R, Reinbold S, et al. Fast and reliable protein microarray production by a new drop-in-drop technique. Lab Chip 2005; 5: 675-81
27. Shin DS, Kim DH, Chung WJ, Lee YS. Combinatorial solid phase peptide synthesis and bioassays. J Biochem Mol Biol 2005; 38: 517-25
28. Leggett GJ. Biological nanostructures: platforms for analytical chemistry at the sub-zeptomolar level. Analyst 2005; 130: 259-64
29. Wilkop T, Wang Z, Cheng Q. Analysis of micro-contact printed protein patterns by SPR imaging with a LED light source. Langmuir 2004; 20: 11141-8
30. Schmalenberg KE, Buettner HM, Uhrich KE. Microcontact printing of proteins on oxygen plasma-activated poly(methyl methacrylate). Biomaterials 2004; 25: 1851-7
31. Avseenko NV, Morozova TYa, Attaullakhanov FI, Morozov VN. Immobilization of proteins in immunochemical microchips fabricated by electrospray deposition. Anal Chem 2001; 73: 6047-52
32. Avseenko NV, Morozova TY, Ataullakhanov FI, Morozov VN. Immunoassay with multicomponent protein microarrays fabricated by electrospray deposition. Anal Chem 2002; 74: 927-33
33. Washburn MP. Soft landing for protein chips. Nat Biotechnol 2003; 21: 1156-7
34. Ouyang Z, Takats Z, Blake TA, et al. Preparing protein microarrays by soft-landing of mass-selected ions. Science 2003; 301: 1351-4
35. Shin DS, Lee KN, Jang KH, et al. Protein patterning by maskless photolithography on hydrophilic polymer-grafted surface. Biosens Bioelectron 2003; 19: 485-94
36. Mirkin CA, Cioppa GD, Demers L, Lee K-B, Park S-J. Protein and peptide nanoarrays. US Patent Application 2003/0068446
37. Mirkin CA, Lim J-H, Ginger DS, et al. Peptide and protein arrays and direct-write lithographc printing of peptides and proteins. US Patent Application 2005/0009206
38. Nam JM, Han SW, Lee KB, Liu X, Ratner MA, Mirkin CA. Bioactive protein nanoarrays on nickel oxide surfaces formed by dip-pen nanolithography. Angew Chem Int 2004; 43: 1246-9
39. Lee KB, Park SJ, Mirkin CA, Smith JC, Mrksich M. Protein nanoarrays generated by dip-pen nanolithography. Science 2002; 295: 1702-5
40. Lee Y, Lee EK, Cho YW, et al. ProteoChip: a highly sensitive protein microarray prepared by a novel method of protein immobilization for application of protein-protein interaction studies. Proteomics 2003; 3: 2289-304
41. Steinhauer C, Ressine A, Marko-Varga G, Laurell T, Borrebaeck CA, Wingren C. Biocompatibility of surfaces for antibody microarrays: design of macroporous silicon substrates. Anal Biochem 2005; 341: 204-13
42. Angenendt P, Glokler J, Sobek J, Lehrach H, Cahill DJ. Next generation of protein microarray support materials: evaluation for protein and antibody microarray applications. J Chromatogr A 2003; 1009: 97-104
43. Cretich M, Pirri G, Damin F, Solinas I, Chiari M. A new polymeric coating for protein microarrays. Anal Biochem 2004; 332: 67-74
44. Ito Y, Nogawa M, Takeda M, Shibuya T. Photo-reactive polyvinylalcohol for photo-immobilized microarray. Biomaterials 2005; 26: 211-16
45. Charles PT, Goldman ER, Rangasammy JG, Schauer CL, Chen M-S, Taitt CR. Fabrication and characterization of 3D hydrogel microarrays to measure antigenicity and antibody functionality for biosensor applications. Biosens Bioelectron 2004; 20: 753-64
46. Peluso P, Wilson DS, Do D, et al. Optimizing antibody immobilization strategies for the construction of protein microarrays. Anal Biochem 2003; 312: 113-24
47. Wacker R, Schroder H, Niemeyer CM. Performance of antibody microarrays fabricated by either DNA-directed immobilization, direct spotting, or streptavidin-biotin attachment: a comparative study. Anal Biochem 2004; 330: 281-7
48. Lee C-S, Lee S-H, Park S-S, Kim Y-K, Kim B-G. Protein patterning on silicon-based surface using background hydrophobic thin film. Biosens Biolelectron 2003; 18: 437-44
49. Ruiz-Taylor LA, Martin TL, Zaugg FG, et al. Monolayers of derivatized poly(L-lysine)-grafted poly(ethylene glycol) on metal oxides as a class of biomolecular interfaces. Proc Nat Acad Sci USA 2001; 98: 852-7
50. Barry R, Soloviev M. Quantitative protein profiling using antibody arrays. Proteomics 2004; 4: 3717-26
51. Haab BB, Dunham MJ, Brown PO. Protein microarrays for highly parallel detection and quantitation of specific proteins and antibodies in complex solutions. Genome Biol 2001; 2: Research0004.Epub 2001 January 22
52. Miller JC, Zhou HJ, Kwekel J, et al. Antibody microarray profiling of human prostate cancer sera: antibody screening and identification of potential biomarkers. Proteomics 2003; 3: 56-63
53. Levit-Binnun N, Lindner AB, Zik O, Eshhar Z, Moses E. Quantitative detection of protein arrays. Anal Chem 2003; 75: 1436-41
54. Huff JL, Lynch MP, Nettikadan S, Johnson JC, Vengasandra S, Henderson E. Label-free protein and pathogen detection using the atomic force microscope. J Biomol Scr 2004; 9: 491-7
55. Kanda V, Kariuki JK, Harrison DJ, McDermott MT. Label-free reading of microarray-based immunoassays with surface plasmon resonance imaging. Anal Chem 2004; 76: 7257-62
56. Wegner GJ, Lee HJ, Corn RM. Characterization and optimization of peptide arrays for the study of epitope-antibody interactions using surface plasmon resonance imaging. Anal Chem 2002; 74: 5161-8
57. Unfricht DW, Colpitts SL, Fernandez SM, Lynes MA. N Grating-coupled surface plasmon resonance: a cell and protein microarray platform. Proteomics 2005; 5: 4432-42
58. Jung SO, Ro HS, Kho BH, Shin YB, Kim MG, Chung BH. Surface plasmon resonance imaging-based protein arrays for high-throughput screening of protein-protein interaction inhibitors. Proteomics 2005; 5: 4427-31
59. Kim MG, Shin YB, Jung JM, Ro HS, Chung BH. Enhanced sensitivity of surface plasmon resonance (SPR) immunoassays using a peroxidase-catalyzed precipitation reaction and its application to a protein microarray. J Immunol Methods 2005; 297: 125-32
60. Majumdar A. Bioassays based on molecular nanomechanics. Dis Markers 2002; 18: 167-74
61. Nordstrom M, Calleja M, Boisen A. Polymeric micro-channel-based functionalisation system for micro-cantilevers. Ultramicroscopy 2005; 105: 215-22
62. Wee KW, Kang GY, Park J, et al. Novel electrical detection of label-free disease marker proteins using piezoresistive self-sensing micro-cantilevers. Biosens Bioelectron 2005; 20: 1932-8
63. Yu X, Xu D, Xu D, Lv R, Liu Z. An impedance biosensor array for label-free detection of multiple antigen-antibody reactions. Front Biosci 2006; 11: 983-90
64. Banks RE, Stanley AJ, Cairns DA, et al. Influences of blood sample processing on low-molecular-weight proteome identified by surface-enhanced laser desorption/ionization mass spectrometry. Clin Chem 2005; 51: 1637-49
65. Marshall J, Kupchak P, Zhu W, et al. Processing of serum proteins underlies the mass spectral fingerprinting of myocardial infarction. J Proteome Res 2003; 2: 361-72
66. Schaub S, Wilkins J, Weiler T, Sangster K, Rush D, Nickerson P. Urine protein profiling with surface-enhanced laser-desorption/ionization time-of-flight mass spectrometry. Kidney Int 2004; 65: 323-32
67. Kricka LJ, Master SR. Validation and quality control of protein microarray-based analytical methods In: Joos TO, Fortina P, eds. Microarrays in Clinical Diagnostics. Totowa, New Jersey: Humana Press, 2005; 233-55
68. Carlisle AJ, Prabhu VV, Elkahloun A, et al. Development of a prostate cDNA microarray and statistical gene expression analysis package. Mol Carcinogen 200; 28: 12-22
69. Haab BB, Dunham MJ, Brown PO. Protein microarrays for highly parallel detection and quantitation of specific proteins and antibodies in complex solutions. Genome Biol 2001; 2: 1-13
70. Grubb RL, Calvert VS, Wulkuhle JD, et al. Signal pathway profiling of prostate cancer using reverse phase protein arrays. Proteomics 2003; 3: 2142-6
71. Charles PT, Goldman ER, Rangasammy JG, Schauer CL, Chen M-S, Taitt CR. Fabrication and characterization of 3D hydrogen microarrays to measure antigenicity and antibody functionality for biosensor applications. Biosens Bioelectron 2004; 20: 753-64
72. Nam MJ, Madoz-Gurpide KJ, Wang H, et al. Molecular profiling of the immune response in colon cancer using protein microarrays: occurrence of autoantibodies to ubiquitin C-terminal hydrolase L3. Proteomics 2003; 3: 2108-15
73. Nielsen UB, Cardone MH, Sinskey AJ, MacBeath G, Sorger PK. Profiling receptor tyrosine kinase activation by using Ab microarrays. Proc Natl Acad Sci USA 2003; 100: 9330-5
74. Neuman de Vegvar HE, Amara RR, Steinman L, Utz PJ, Robinson HL, Robinson WH. Microarray profiling of antibody responses against simian-human immunodeficiency virus: postchallenge convergence of reactivities independent of host histocompatibility type and vaccine regimen. J Virol 2003; 7: 11125-38
75. Angenendt P, Glokler J, Sobek J, Lehrach H, Cahill DJ. Next generation of protein microarray support materials: evaluation for protein and antibody microarray applications. J Chromatogr A 2003; 1009: 97-104
76. Ge H. UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA and protein-ligand interactions. Nucleic Acids Res 2000; 28: e3
77. Ekins RP, Chu F, Biggart E. Fluorescence spectroscopy and its application to a new generation of high sensitivity, multi-microspot, multianalyte, immunoassay. Clin Chim Acta 1990; 194: 91-114
78. Wulfkuhle JD, Aquino JA, Calvert VS, et al. Signal pathway profiling of ovarian cancer from human tissue specimens using reverse-phase protein microarrays. Proteomics 2003; 3: 2085-90
79. Bouwman K, Qiu J, Zhou H, et al. Microarrays of tumor cell derived proteins uncover a distinct pattern of prostate cancer serum immunoreactivity. Proteomics 2003; 3: 2200-7
80. Sheridan C. Protein chip companies turn to biomarkers. Nature Biotechnol 2005; 23: 3-4
81. Brown CR, Higgins KW, Frazer K, et al. Simultaneous determination of total IgE and allergen-specific IgE in serum by the MAST chemiluminescent assay system. Clin Chem 1985; 31: 1500-5
82. Fitzgerald SP, Lamont JV, McConnell RI, Benchikh el O. Development of a high-throughput automated analyzer using biochip array technology. Clin Chem 2005; 51: 1165-76
83. Lomnytska M, Dubrovska A, Hellman U, Volodko N, Souchelnytskyi S. Increased expression of cSHMT, Tbx3 and utrophin in plasma of ovarian and breast cancer patients. Int J Cancer 2006; 118: 412-21
84. Melle C, Ernst G, Schimmel B, et al. Discovery and identification of alpha-defensins as low abundant, tumor-derived serum markers in colorectal cancer. Gastroenterology 2005; 129: 66-73
85. Le Page C, Ouellet V, Madore J, et al. From gene profiling to diagnostic markers: IL-18 and FGF-2 complement CA125 as serum-based markers in epithelial ovarian cancer. Int J Cancer 2006; 118: 1750-8
86. Lee SJ, Lee SY. Microarrays of peptides elevated on the protein layer for efficient protein kinase assay. Anal Biochem 2004; 330: 311-16
87. Kersten B, Possling A, Blaesing F, Mirgorodskaya E, Gobom J, Seitz H. Protein microarray technology and ultraviolet crosslinking combined with mass spectrometry for the analysis of protein-DNA interactions. Anal Biochem 2004; 331: 303-13
88. Hu Y, Uttamchandani M, Yao SQ. Microarray: a versatile platform for high-throughput functional proteomics. Comb Chem High Throughput Screen 2006; 9: 203-12