DNA microarray analyses

Hihara, Y., A. Kamei, M. Kanehisa, A. Kaplan, and M. Ikeuchi (2001). DNA microarray analysis of cyanobac-terial gene expression during acclimation to high light. Plant Cell 13(4) 793-806. 

Le Berre, V. Trevisiol, E. Dagkessamanskaia, A. Sokol, S. Caminade, A. M. Majoral, J. P. Meunier, B. Francois, J., Dendrimeric coating of glass slides for sensitive DNA microarrays analysis, Nucleic Acids Res. 2003, 31, e88... 

Miyazato, A., et al., "Identification of Myelodysplastic Syndrome-Specific Genes by DNA Microarray Analysis with Purified Hematopoietic Stem Cell Fraction," Blood, 98, 422-427 (2001). 

Sugimoto N, Oida T, Hirota K, Nakamura K, Nomura T, Uchiyama T, Sakaguchi S Foxp3-dependent and -independent molecules specific for CD25+CD4+ natural regulatory T cells revealed by DNA microarray analysis. Int Immunol 2006 18 1197-1209. 

Gilbert RW, Costain WJ, Blanchard ME, Mullen K, Currie RW, et al. 2003. DNA microarray analysis of hippocampal gene expression measured 12 hours after hypoxia-ischemia in the mouse. J Cereb Blood Flow Metabol 23 1195. 

Schmidt-Kastner R, Zhang B, Belayev L, Khoutorova L, Amin R, et al. 2002. DNA microarray analysis of cortical gene expression during early recirculation after focal brain ischemia in rat. Brain Res Mol Brain Res 108 81. 

There is also a trend toward performing minimally invasive biopsy techniques such as needle/core biopsies and fine needle aspirates (FNAs). The amount of material available from such techniques, even if the bulk (non-microdissected) sample were to be used, can be very small. Traditional DNA microarray analysis requires a fairly substantial amount of material for analysis some 5-10 p.g of total RNA is usually required for analysis in the absence of amplification. In order to obtain this quantity of RNA from typical epithelial cells, as many as 5 x 10 or 1 x 10 cells are required. Clearly, this total RNA requirement poses a challenge when studying microdissected samples, but it also presents a challenge when using small, unique clinical samples, such as FNA biopsies. 

Khodursky AB, Peter BJ, Cozzarelli NR et al (2000) DNA microarray analysis of gene expression in response to physiological and genetic changes that affect tryptophan metabolism in Escherichia coli. Proc Natl Acad Sci USA 97 12170-12175... 

Iwamoto K, Bundo M, Kato T. Altered expression of mitochondria-related genes in postmortem brains of patients with bipolar disorder or schizophrenia, as revealed by large-scale DNA microarray analysis. Hum Mol Genet 2005 14(2) 241-253. 

Pope WB, Chen JH, Dong J, Carlson MR, Perlina A, Qoughesy TF, Liau LM, Mischel PS, Nghiemphu P, Lai A, Nelson SF (2008) Relationship between gene expression and enhancement in glioblastoma multiforme exploratory DNA microarray analysis. Radiology 249 268-277... 

Mischel PS, Cloughesy TF, Nelson SF. DNA-microarray analysis of brain cancer molecular classification for therapy. Nat. Rev. Neurosci. 2004 5 782-792. 

Evans S J, Choudary PV, Vawter MP, Li J, Meador-Woodruff JH, Lopez JE, Burke SM, Thompson RC, Myers RM, Jones EG, Bunney WE, Watson SJ, Akil H (2003) DNA microarray analysis of functionally discrete human brain regions reveals divergent transcriptional profiles. Neurobiol Dis 14 240-250. 

Chapter 2 Challenges and Future Trends in DNA Microarray Analysis ( 27 )... 

Cavalieri, D., Townsend, J.P., and Hard, D.L. 2000. Manifold anomalies in gene expression in a vineyard isolate of Saccharomyces cerevisiae revealed by DNA Microarray analysis. Proc. Natl. Acad. Sci. USA 97,12369-12374. 

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