Abstract
There has recently been increased interest in the potential for microarray technologies to study protein networks in a whole cell system within a single experiment. Protein-detecting microarrays are composed of numerous agents immobilized within a tiny area on solid surfaces to capture targeted proteins and to detect interactions in a high-throughput fashion. In this chapter, in order to extend the usability of peptide microarrays, we describe a novel dry peptide microarray format to obtain protein fingerprint (PFP) data sets and a statistical PFP data manipulation technique to quantitatively analyze targeted proteins.
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References
Kambhampati, D. (2003) Protein Microarray Technology. Wiley-VCH, Weinheim.
Fung, E. T. (2004) Protein Arrays: Methods and Protocols; Methods in Molecular Biology vol 264. Humana Press, New Jersey.
Tomizaki, K.-Y., Usui, K., Mihara, H. (2005) Protein-detecting microarrays: Current accomplishments and requirements. ChemBioChem 6, 782–799.
Kodadek, T. (2001) Protein microarrays: Prospects and problems. Chem. Biol. 8, 105–115.
Uttamchandani, M., Wang, J., Yao, S. Q. (2006) Protein and small molecule microarrays: Powerful tools for high-throughput proteomics. Mol. BioSyst. 2, 58–68.
Usui, K., Tomizaki, K.-Y., Ohyama, T., Nokihara, K., Mihara, H. (2006) A novel peptide microarray for protein detection and analysis utilizing a dry peptide array system. Mol. Biosyst. 2, 113–121.
Takahashi, M., Nokihara, K., Mihara, H. (2003) Construction of a protein-detection system using a loop peptide library with a fluorescence label. Chem. Biol. 10, 53–60.
Usui, K., Takahashi, M., Nokihara, K., Mihara, H. (2004) Peptide arrays with designed alpha-helical structures for characterization of proteins from FRET fingerprint patterns. Mol. Divers. 8, 209–218.
Usui, K., Ojima, T., Takahashi, M., Nokihara, K., Mihara, H. (2004) Peptide arrays with designed secondary structures for protein characterization using fluorescent fingerprint patterns. Biopolymers 76, 129–139.
Usui, K., Ojima, T., Tomizaki, K.-Y., Mihara, H. (2005) A designed glycopeptide array for characterization of sugar-binding proteins toward a glycopeptide chip technology. NanoBiotechnology 1, 191–200.
Usui, K., Tomizaki, K.-Y., Mihara, H. (2006) Protein-fingerprint data mining of a designed alpha-helical peptide array. Mol. Biosyst. 2, 417–420.
Usui, K., Tomizaki, K.-Y., Mihara, H. (2007) Screening of alpha-helical peptide ligands controlling a calcineurin-phosphatase activity. Bioorg. Med. Chem. Lett. 17, 167–171.
Chan, W. C., White, P. D. (2000) Fmoc solid phase peptide synthesis: A practical approach. New York, Oxford University Press.
Wahler, D., Badalassi, F., Crotti, P., Reymond, J. L. (2002) Enzyme fingerprints of activity, and stereo- and enantioselectivity from fluorogenic and chromogenic substrate arrays. Chemistry 8, 3211–3228.
Cox, J. A., Comte, M., Fitton, J. E., DeGrado, W. F. (1985) The interaction of calmodulin with amphiphilic peptides. J. Biol. Chem. 260, 2527–2534.
O'Neil, K. T., DeGrado, W. F. (1990) How calmodulin binds its targets: sequence independent recognition of amphiphilic alpha-helices. Trends. Biochem. Sci. 15, 59–64.
Maulet, Y., Cox, J. A. (1983) Structural changes in melittin and calmodulin upon complex formation and their modulation by calcium. Biochemistry 22, 5680–5686.
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Usui, K., Tomizaki, Ky., Mihara, H. (2009). A Designed Peptide Chip: Protein Fingerprinting Technology with a Dry Peptide Array and Statistical Data Mining. In: Cretich, M., Chiari, M. (eds) Peptide Microarrays. Methods in Molecular Biology™, vol 570. Humana Press. https://doi.org/10.1007/978-1-60327-394-7_13
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DOI: https://doi.org/10.1007/978-1-60327-394-7_13
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