Proteomics/Protein Chips/Online Resources

Online Resources:

Online Resources
There are many online resources available for additional information about protein chips. Below are a few of our favorites.

Databases

 * The NCBI's Protein Database
 * RCSB Protein Data Bank
 * Swiss-Prot

Journals

 * Protein Science
 * Proteomics
 * The Protein Journal

Related to Types
Bertone P, Snyder M. Advances in functional protein microarray technology. FEBS, 2005; 272(5400-5411).
 * The authors discuss the uses and construction of functional protein microarrays
 * Complete Article in FEBS (Free)

Zhu H, Bilgin M, Bangham R, Hall D, Casamayor A, Bertone P, Lan N, Jansen R, Bidlingmaier S, Houfek T et al. (2001) Global analysis of protein activities using proteome chips. Science 293, 2101–2105.
 * The authors develop a functional array for the yeast proteome
 * Complete Article in Science (Free)

Related To Analysis
Xu, Qingchai, Lam, Kit S. "Protein and Chemical Microarrays- Powerful Tools for Proteomics." Journal of Biomedicine and Biotechnology (2003) 5:257-266. Download the paper.

Related to Applications
LaBaer, Joshua & Ramachandran, Niroshan. "Protein Microarrays as Tools for Functional Proteomics." Current Opinion in Chemical Biology (2..05) 9:14-19. View the paper.

Duan L, Wang Y, Li SS, Wan Z, Zhai J. Rapid and simultaneous detection of human hepatitis B virus and hepatitis C virus antibodies based on a protein chip assay using nano-gold immunological amplification and silver staining method. BMC Infectious Diseases, 5 (2005).
 * An antigen-coated protein chip was used to detect the presence of hepatitis B and hepatitis C antibodies in human serum samples.
 * Article Abstract in PubMed
 * Complete Article in BMC Infectious Diseases

Ge H. UPA, a universal protein array system for quantitative detection of protein–protein, protein–DNA, protein–RNA and protein–ligand interactions. Nucleic Acids Research, 28 (2000).
 * The author created a functional type of protein chip to simultaneously study the interaction of proteins, DNA, RNA and ligand.
 * Article Abstract in PubMed
 * Complete Article in Nucleic Acids Research

Kozak KR, Amneus MW, Pusey SM, Su F, Luong MN, Luong SA, Reddy ST, Farias-Eisner R. Identification of biomarkers for ovarian cancer using strong anion-exchange ProteinChips: Potential use in diagnosis and prognosis. Proceedings of the National Academy of Sciences of the United States of America 100:12343–12348 (2003).
 * The authors combined strong anion-exchange protein chips with SELDI-TOF mass spectrometry to identify potential biomarkers for ovarian cancer.
 * Article Abstract in PubMed
 * Complete Article in Proceedings of the National Academy of Sciences of the United States of America

Related to Introduction/History
MacBeath G, Schreiber SL. Printing proteins as microarrays for high-throughput function determination. Science, 289: 1760-3 (2000).
 * The authors developed a way to rapidly create protein chips
 * Article Abstract in PubMed
 * Complete Article in Science (Subscription Required)

Related to Types
Jona G, Snyder M. Recent developments in analytical and functional protein microarrays. Curr Opin Mol Ther., 2003; 5(271-277).
 * The authors discuss the uses and construction of both analytical and functional protein microarrays
 * Abstract in Pubmed (Free)
 * Complete Article in Curr Opin Mol Ther. (Subscription)

Related to Analysis
Ferracci G, Seagar M, Joel C, Miquelis R, Leveque C. Real time analysis of intact organelles using surface plasmon resonance. Analytical Biochemistry, 334: 367-375 (2004).
 * The authors used Surface Plasmon Resonance to study organelles on a protein chip.
 * Article Abstract in PubMed
 * Complete Article in Analytical Biochemistry (Subscription Required)

Kim TJ, Cho HS, Park NY, Lee JI. Serodiagnostic comparison between two methods, ELISA and surface plasmon resonance for the detection of antibody titres of Mycoplasma hyopneumoniae. Journal of Veterinary Medicine Series B, 53: 87-90 (2006).
 * The authors compare the results of two analysis methods: surface plasmon resonance and ELISA
 * Article Abstract in PubMed

Zhu H, Snyder M. Protein Chip Technology. Current Opinion in Chemical Biology, 7: 55-63 (2003).
 * An excellent review article that contains a summary of detection methods used with protein chips
 * Article Abstract in PubMed
 * Complete Article in Current Opinion in Chemical Biology (Subscription Required)

Related to Applications
Fan G, Molstad M, Braziel RM, Standley M, Huang J, Rodgers W, Nagalla S. Proteomic profiling of mature CD10+ B-cell lymphomas. American Journal of Clinical Pathology, 124: 920-29 (2005).
 * The authors used protein chips coupled to SELDI-TOF mass spectrometry to classify different types of B-cell lymphomas.
 * Article Abstract in PubMed
 * Complete Article in American Journal of Clinical Pathology (Subscription Required)

Huelseweh B, Ehricht R, Marschall HJ. A simple and rapid protein array based method for the simultaneous detection of biowarfare agents. Proteomics, April 18, 2006.
 * The authors developed antibody coated protein chips to detect the presence of biowarfare agents. Their careful antibody selection allows them to use one chip to test for the presence of multiple agents.
 * Article Abstract in PubMed
 * Complete Article in Proteomics (Subscription Required)

Warren EN, Jiang J, Parker CE, Borchers CH. Absolute quantitation of cancer-related proteins using an MS-based peptide chip. Biotechniques, 38:S7-11 (2005).
 * The authors combined a protein chip with mass spectrometry to detect, identify and quantify proteins related to cancer.
 * Article Abstract in PubMed
 * Complete Article in Biotechniques (Subscription Required)

Tutorials and Information

 * A comparison of the types of manufacturing methods
 * Informational videos and animations provided by Ciphergen. Ciphergen is a protein chip manufacturer.  They have an online video showing the role of protein chips in clinical proteomics and an online animation about how protein chips are analyzed.
 * Protein Arrays Resource Page - Additional information and links provided by Genomic Solutions
 * Protein Chip Wikipedia entry
 * Latest news releases - covered by Laboratorytalk
 * A good example of a protein chip experiment. Zhu, H. et al. (2001) performed a protein chip experiment in order to analyze yeast protein kinases.

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