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A nutrigenomics database – integrated repository for publications and associated microarray data in nutrigenomics research

Published online by Cambridge University Press:  08 March 2007

Kenji Saito,
Soichi Arai and
Hisanori Kato
Kenji Saito
Affiliation:
Department of Applied Biological Chemistry, Graduate School of Agriculture and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, Japan
Soichi Arai
Affiliation:
Department of Nutritional Science, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, Tokyo, Japan
Hisanori Kato*
Affiliation:
Department of Applied Biological Chemistry, Graduate School of Agriculture and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, Japan
*
*Corresponding author: Dr Hisanori Kato, fax +81 3 5841 5114, email akatoq@mail.ecc.u-tokyo.ac.jp
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Abstract

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In the current situation where microarray data in the field of nutritional genomics (nutrigenomics) are accumulating rapidly, there is imminent need for an efficient data infrastructure to support research workflow. We have established a web-based, integrated database of the publications and microarray expression data in the field of nutrigenomics. The registered data include links to external databases such as PubMed of the National Center for Biotechnology Information and public microarray databases that contain Minimum Information About a Microarray Experiment-compliant microarray expression data. Using this database, all data sets created will be effectively utilized and shared with other researchers. This database is built on an open-source database system and is freely accessible via the World Wide Web (http://a-yo5.ch.a.u-tokyo.ac.jp/index.phtml</url).

Keywords

MicroarrayDatabaseNutrigenomics

Information

Type
Short communication
Information
British Journal of Nutrition , Volume 94 , Issue 4 , October 2005, pp. 493 - 495
Copyright
Copyright © The Nutrition Society 2005

References

Brazma, A, Hingamp, P, Quackenbush, J et al. , (2001) Minimum Information About a Microarray Experiment (MIAME) – towards standards for microarray data. Nat Genet 29, 365–371.CrossRefGoogle Scholar
Datta, S & Datta, S (2003) Comparisons and validation of statistical clustering techniques for microarray gene expression data. Bioinformatics 19, 459–466.CrossRefGoogle ScholarPubMed
Endo, Y, Fu, Z, Abe, K, Arai, S & Kato, H (2002) Dietary protein quantity and quality affect rat hepatic gene expression. J Nutr 132, 3632–3637.CrossRefGoogle ScholarPubMed
Gardiner-Garden, M & Littlejohn, TG (2001) A comparison of microarray databases. Brief Bioinform 2, 143–158.CrossRefGoogle ScholarPubMed
Goodman, AL & Lory, S (2004) Analysis of regulatory networks in Pseudomonas aeruginosa by genomewide transcriptional profiling. Curr Opin Microbiol 7, 39–44.CrossRefGoogle ScholarPubMed
Gottardo, R, Pannucci, JA, Kuske, CR & Brettin, T (2003) Statistical analysis of microarray data: a Bayesian approach. Biostatistics 4, 597–620.CrossRefGoogle Scholar
Kato, H & Kimura, T (2003) Evaluation of the effects of the dietary intake of proteins and amino acids by DNA microarray technology. J Nutr 133, Suppl. 12073S–2077S.CrossRefGoogle ScholarPubMed
Mirnics, K & Pevsner, J (2004) Progress in the use of microarray technology to study the neurobiology of disease. Nat Neurosci 7, 434–439.CrossRefGoogle Scholar
Muller, M & Kersten, S (2003) Nutrigenomics: goals and strategies. Nat Rev Genet 4, 315–322.CrossRefGoogle ScholarPubMed
Quackenbush, J (2001) Computational analysis of microarray data. Nat Rev Genet 2, 418–427.CrossRefGoogle ScholarPubMed
Saal, LH, Troein, C, Vallon-Christersson, J, Gruvberger, S, Borg, A & Peterson, C (2002) BioArray Software Environment (BASE): a platform for comprehensive management and analysis of microarray data. Genome Biol 3, SOFTWARE0003.CrossRefGoogle Scholar
Schena, M, Shalon, D, Davis, RW & Brown, PO (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270, 467–470.CrossRefGoogle ScholarPubMed
Sreekumar, R, Unnikrishnan, J, Fu, A, Nygren, J, Short, KR, Schimke, J, Barazzoni, R & Nair, KS (2002) Impact of high-fat diet and antioxidant supplement on mitochondrial functions and gene transcripts in rat muscle. Am J Physiol Endocrinol Metab 282, E1055–E1061.CrossRefGoogle ScholarPubMed
Straume, M (2004) DNA microarray time series analysis: automated statistical assessment of circadian rhythms in gene expression patterning. Methods Enzymol 383, 149–166.CrossRefGoogle ScholarPubMed
Weindruch, R, Kayo, T, Lee, CK & Prolla, TA (2001) Microarray profiling of gene expression in aging and its alteration by caloric restriction in mice. J Nutr 131, Suppl., 918S–923S.CrossRefGoogle ScholarPubMed