Abstract
DNA microarray analysis enables us to provide a considerable amount of information on glyco-chain expression (Brazma et al. 2001; Ide et al. 2006). DNA microarray experiments are developed to obtain overall transcriptome of cells using DNAs spotted on a slide glass as probes and fluorescently labeled DNAs derived from mRNA samples. DNA microarray experiments require high-quality RNA. Thus, it is advisable to prepare RNA as intact as possible. The quality of RNA is usually assessed by the intactness of the peaks and the lack of degradation of RNA by capillary electrophoresis. This step is essential for the reliable final readout of microarray experiments. Following is the normal procedure operated in our laboratory for the DNA microarray experiments using RIKEN human and mouse glyco-chain-related DNA microarrays version 2 (human version: GEO platform GPL 3465 http://www.ncbi.nlm.nih.gov/geo/), which were designed by us and spotted by Takara Bio Inc.
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References
Brazma A, Hingamp P, Quackenbush J, Sherlock G, Spellman P, Stoeckert C, Aach J, Ansorge W, Ball CA, Causton HC, Gaasterland T, Glenisson P, Holstege FC, Kim IF, Markowitz V, Matese JC, Parkinson H, Robinson A, Sarkans U, Schulze-Kremer S, Stewart J, Taylor R, Vilo J, Vingron M (2001) Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat Genet 29:365–371
Ide Y, Miyoshi E, Nakagawa T, Gu J, Tanemura M, Nishida T, Ito T, Yamamoto H, Kozutsumi Y, Taniguchi N (2006) Aberrant expression of N-acetylglucosaminyltransferase-IVa and IVb (GnT-IVa and b) in pancreatic cancer. Biochem Biophys Res Commun 341:478–482
Koike T, Kimura N, Miyazaki K, Yabuta T, Kumamoto K, Takenoshita S, Chen J, Kobayashi M, Hosokawa M, Taniguchi A, Kojima T, Ishida N, Kawakita M, Yamamoto H, Takematsu H, Suzuki A, Kozutsumi Y, Kannagi R (2004) Hypoxia induces adhesion molecules on cancer cells: a missing link between Warburg effect and induction of selectin-ligand carbohydrates. Proc Natl Acad Sci USA 101:8132–8137
Naito Y, Takematsu H, Koyama S, Miyake S, Yamamoto H, Fujinawa R, Sugai M, Okuno Y, Tsujimoto G, Yamaji T, Hashimoto Y, Itohara S, Kawasaki T, Suzuki A, Kozutsumi Y (2007) Germinal center marker GL7 probes activation-dependent repression of N-glycolylneuraminic acid, a sialic acid species involved in the negative modulation of B cell activation. Mol Cell Biol 23:3008–3022
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Yamamoto, H., Takematsu, H., Kozutsumi, Y. (2008). DNA Microarray in Glycobiology. In: Taniguchi, N., Suzuki, A., Ito, Y., Narimatsu, H., Kawasaki, T., Hase, S. (eds) Experimental Glycoscience. Springer, Tokyo. https://doi.org/10.1007/978-4-431-77922-3_108
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DOI: https://doi.org/10.1007/978-4-431-77922-3_108
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