Facing current quantification challenges in protein microarrays

Journal of Biomedicine and Biotechnology

Volumn 2012, Issue , 2012, Pages

  Wellhausen, Robert ^a,b,c   Seitz, Harald ^a,b  

^a FRAUNHOFER INSTITUTE FOR BIOMEDICAL ENGINEERING   (Germany)

^b MAX PLANCK INSTITUTE FOR MOLECULAR GENETICS   (Germany)

^c FREIE UNIVERSITÄT BERLIN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

APTAMER; MICRORNA; PROTEOME; PROTEIN;

ANTIBODY DETECTION; DNA MICROARRAY; ENZYME ACTIVITY; MICROARRAY ANALYSIS; PEPTIDE MICROARRAY; PROTEIN MICROARRAY; REVERSE PHASE PROTEIN MICROARRAY; REVIEW; SIGNAL NOISE RATIO; HUMAN; METHODOLOGY; PROTEOMICS; SENSITIVITY AND SPECIFICITY;

HUMANS; PROTEIN ARRAY ANALYSIS; PROTEINS; PROTEOMICS; SENSITIVITY AND SPECIFICITY;

EID: 84861074861     PISSN: 11107243     EISSN: 11107251     Source Type: Journal    
DOI: 10.1155/2012/831347     Document Type: Review

References (42)

1. Bssow K., Cahill D., Nietfeld W., Bancroft D., Scherzinger E., Lehrach H., Walter G., A method for global protein expression and antibody screening on high-density filters of an arrayed cDNA library Nucleic Acids Research 1998 26 21 5007 5008 (Pubitemid 28491184)
2. Lueking A., Horn M., Eickhoff H., Bssow K., Lehrach H., Walter G., Protein microarrays for gene expression and antibody screening Analytical Biochemistry 1999 270 1 103 111 (Pubitemid 29230726)
3. Fung E. T., Delehanty J. B., Printing functional protein microarrays using piezoelectric capillaries Protein Arrays 2004 Humana Press 135 143
4. Lbke C., Laible M., Rappl C., Ruschhaupt M., Sahin.., Arlt D., Wiemann S., Poustka A., Sltmann H., Korf U., Contact spotting of protein microarrays coupled with spike-in of normalizer protein permits time-resolved analysis of ERBB receptor signaling Proteomics 2008 8 8 1586 1594 (Pubitemid 351580205)
5. Tibes R., Qiu Y. H., Lu Y., Hennessy B., Andreeff M., Mills G. B., Kornblau S. M., Reverse phase protein array: validation of a novel proteomic technology and utility for analysis of primary leukemia specimens and hematopoietic stem cells Molecular Cancer Therapeutics 2006 5 10 2512 2521 (Pubitemid 44650915)
6. Miklos G. L. G., Maleszka R., Protein functions and biological contexts Proteomics 2001 1 2 169 178 (Pubitemid 33586712)
7. Hultschig C., Kreutzberger J., Seitz H., Konthur Z., Bssow K., Lehrach H., Recent advances of protein microarrays Current Opinion in Chemical Biology 2006 10 1 4 10 (Pubitemid 43202281)
8. Collett J. R., Eun J. C., Ellington A. D., Production and processing of aptamer microarrays Methods 2005 37 1 4 15 (Pubitemid 41443371)
9. Lian W., Wu D., Lim D. V., Jin S., Sensitive detection of multiplex toxins using antibody microarray Analytical Biochemistry 2010 401 2 271 279
10. Shi W., Meng Z., Chen Z., Luo J., Liu L., Proteome analysis of human pancreatic cancer cell lines with highly liver metastatic potential by antibody microarray Molecular and Cellular Biochemistry 2011 347 1 117 125
11. Gao J., Liu C., Liu D., Wang Z., Dong S., Antibody microarray-based strategies for detection of bacteria by lectin-conjugated gold nanoparticle probes Talanta 2010 81 4-5 1816 1820
12. Uttamchandani M., A peptide microarray for detecting protein kinase activity in cell lysates Small Molecule Microarrays 2010 Humana Press 183 194
13. Hueber W., Kidd B. A., Tomooka B. H., Lee B. J., Bruce B., Fries J. F., Snderstrup G., Monach P., Drijfhout J. W., Van Venrooij W. J., Utz P. J., Genovese M. C., Robinson W. H., Antigen microarray profiling of autoantibodies in rheumatoid arthritis Arthritis and Rheumatism 2005 52 9 2645 2655 (Pubitemid 41369092)
14. Matysiak S., Reuthner F., Hoheisel J. D., Automating parallel peptide synthesis for the production of PNA library arrays BioTechniques 2001 31 4 896 904 (Pubitemid 32963605)
15. Frank R., The SPOT-synthesis technique: synthetic peptide arrays on membrane supportsprinciples and applications Journal of Immunological Methods 2002 267 1 13 26 (Pubitemid 34804809)
16. Kimura N., Okegawa T., Yamazaki K., Matsuoka K., Site-specific, covalent attachment of poly(dT)-modified peptides to solid surfaces for microarrays Bioconjugate Chemistry 2007 18 6 1778 1785 (Pubitemid 350219975)
17. Hastie C. J., McLauchlan H. J., Cohen P., Assay of protein kinases using radiolabeled ATP: a protocol Nature Protocols 2006 1 2 968 971
18. Allen J. J., Li M., Brinkworth C. S., Paulson J. L., Wang D., Hbner A., Chou W. H., Davis R. J., Burlingame A. L., Messing R. O., Katayama C. D., Hedrick S. M., Shokat K. M., A semisynthetic epitope for kinase substrates Nature Methods 2007 4 6 511 516 (Pubitemid 46852077)
19. Gaseitsiwe S., Valentini D., Mahdavifar S., Reilly M., Ehrnst A., Maeurer M., Peptide microarray-based identification of Mycobacterium tuberculosis epitope binding to HLA-DRB10101, DRB11501, and DRB10401 Clinical and Vaccine Immunology 2010 17 1 168 175
20. Spurrier B., Washburn F. L., Asin S., Ramalingam S., Nishizuka S., Antibody screening database for protein kinetic modeling Proteomics 2007 7 18 3259 3263 (Pubitemid 47517941)
21. Wu H., Ge J., Yang P.-Y., Wang J., Uttamchandani M., Yao S. Q., A peptide aldehyde microarray for high-throughput profiling of cellular events Journal of the American Chemical Society 2011 133 6 1946 1954
22. Inoue Y., Mori T., Yamanouchi G., Han X., Sonoda T., Niidome T., Katayama Y., Surface plasmon resonance imaging measurements of caspase reactions on peptide microarrays Analytical Biochemistry 2008 375 1 147 149
23. Andresen H., Grtzinger C., Zarse K., Kreuzer O. J., Ehrentreich-Frster E., Bier F. F., Functional peptide microarrays for specific and sensitive antibody diagnostics Proteomics 2006 6 5 1376 1384
24. Chan S. M., Ermann J., Su L., Fathman C. G., Utz P. J., Protein microarrays for multiplex analysis of signal transduction pathways Nature Medicine 2004 10 12 1390 1396 (Pubitemid 40022723)
25. Pjaweletz C. P., Charboneau L., Bichsel V. E., Simone N. L., Chen T., Gillespie J. W., Emmert-Buck M. R., Roth M. J., Petricoin E. F., Liotta L. A., Reverse phase protein microarrays which capture disease progression show activation of pro-survival pathways at the cancer invasion front Oncogene 2001 20 16 1981 1989 (Pubitemid 32458030)
26. Swameye I., Mller T. G., Timmer J., Sandra O., Klingmller U., Identification of nucleocytoplasmic cycling as a remote sensor in cellular signaling by databased modeling Proceedings of the National Academy of Sciences of the United States of America 2003 100 3 1028 1033 (Pubitemid 36183949)
27. Zhang Y., Wolf-Yadlin A., Ross P. L., Pappin D. J., Rush J., Lauffenburger D. A., White F. M., Time-resolved mass spectrometry of tyrosine phosphorylation sites in the epidermal growth factor receptor signaling network reveals dynamic modules Molecular and Cellular Proteomics 2005 4 9 1240 1250 (Pubitemid 41448712)
28. Korf U., Derdak S., Tresch A., Henjes F., Schumacher S., Schmidt C., Hahn B., Lehmann W. D., Poustka A., Beissbarth T., Klingmller U., Quantitative protein microarrays for time-resolved measurements of protein phosphorylation Proteomics 2008 8 21 4603 4612
29. Leivonen S. K., Mkel R., stling P., Kohonen P., Haapa-Paananen S., Kleivi K., Enerly E., Aakula A., Hellstrm K., Sahlberg N., Kristensen V. N., Brresen-Dale A. L., Saviranta P., Perl M., Kallioniemi O., Protein lysate microarray analysis to identify microRNAs regulating estrogen receptor signaling in breast cancer cell lines Oncogene 2009 28 44 3926 3936
30. Romeo M. J., Wunderlich J., Ngo L., Rosenberg S. A., Steinberg S. M., Berman D. M., Measuring tissue-based biomarkers by immunochromatography coupled with reverse-phase lysate microarray Clinical Cancer Research 2006 12 8 2463 2467
31. Dupuy L., Gauthier C., Durand G., Musnier A., Heitzler D., Herledan A., Sakanyan V., Crépieux P., Reiter E., A highly sensitive near-infrared fluorescent detection method to analyze signalling pathways by reverse-phase protein array Proteomics 2009 9 24 5446 5454
32. MacBeath G., Protein microarrays and proteomics Nature Genetics 2002 32 5 526 532 (Pubitemid 35435157)
33. Garcia B. H. II, Hargrave A., Morgan A., Kilmer G., Hommema E., Nahrahari J., Webb B., Wiese R., Antibody microarray analysis of inflammatory mediator release by human leukemia T-cells and human non small cell lung cancer cells Journal of Biomolecular Techniques 2007 18 4 245 251
34. Ambroz K. L. H., Zhang Y., Schutz-Geschwender A., Olive D. M., Blocking and detection chemistries affect antibody performance on reverse phase protein arrays Proteomics 2008 8 12 2379 2383
35. Espina V., Woodhouse E. C., Wulfkuhle J., Asmussen H. D., Petricoin E. F., Liotta L. A., Protein microarray detection strategies: focus on direct detection technologies Journal of Immunological Methods 2004 290 1-2 121 133 (Pubitemid 38917135)
36. Major S. M., Nishizuka S., Morita D., Rowland R., Sunshine M., Shankavaram U., Washburn F., Asin D., Kouros-Mehr H., Kane D., Weinstein J. N., AbMiner: a bioinformatic resource on available monoclonal antibodies and corresponding gene identifiers for genomic, proteomic, and immunologic studies BMC Bioinformatics 2006 7, article 192
37. Haab B. B., Dunham M. J., Brown P. O., Protein microarrays for highly parallel detection and quantitation of specific proteins and antibodies in complex solutions Genome Biology 2001 2 2
38. Hsieh H. Y., Wang P. C., Wu C. L., Huang C. W., Chieng C. C., Tseng F. G., Effective enhancement of fluorescence detection efficiency in protein microarray assays: application of a highly fluorinated organosilane as the blocking agent on the background surface by a facile vapor-phase deposition process Analytical Chemistry 2009 81 19 7908 7916
39. Alhamdani M. S. S., Schrder C., Hoheisel J. D., Analysis conditions for proteomic profiling of mammalian tissue and cell extracts with antibody microarrays Proteomics 2010 10 17 3203 3207
40. Rampal J. B., Forward-phase and reverse-phase protein microarray Microarrays 2007 Humana Press 363 373
41. Kusnezow W., Syagailo Y. V., Rffer S., Klenin K., Sebald W., Hoheisel J. D., Gauer C., Goychuk I., Kinetics of antigen binding to antibody microspots: strong limitation by mass transport to the surface Proteomics 2006 6 3 794 803 (Pubitemid 43260205)
42. Zhu X., Guo A., The critical role of surface chemistry in protein microarrays Functional Protein Microarrays in Drug Discovery 2007 CRC Press 53 71