Abstract
One of the major challenges facing scientists dealing with gene expression data is how to integrate, explore and analyze vast quantities of related data, often residing in multiple heterogeneous data repositories. In this paper we describe the problems involved in managing gene expression data and discuss how these problems have been addressed in the context of Gene Logic’s GeneExpress system. The GeneExpress system provides support for the integration of gene expression, gene annotation and sample (clinical) data with various degrees of heterogeneity, and for effective exploration of these data.
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References
Affymterix, “Affymetrix Analysis Data Model”, http://www.affymetrix.com/support/-aadm/aadm.html.
Chaudhuri, S., and Dayal, U., An Overview of Data Warehousing and OLAP Technology, SIGMOD Record, 1999.
Eckman, B.A., Kosky, A.S., and Laroco, L.A., Extending Traditional Query-Based Integration Approaches for Functional Characterization of Post-Geomic Data, Journal of Bioinformatics, 17:587–601, 2001.
Lockhart D.J., Dong, H., Byrne, M.C., Follettie, M.T., Gallo, M.V., Chee, M.S., Mittmann, M., Wang C., Kobayashi, M., Horton, H. and Brown, E.L., Expression Monitoring by Hybridization to High-Density Oligonucleotide Arrays, Nature Biotechnology, 14:1675–1680, 1996.
Lockhart D.J., and Winzeler, A.E., Genomics, Gene Expression, and DNA Arrays, Nature, 405:827–836, 2000.
Markowitz V.M., and Topaloglou, T., Applying Data Warehousing Concepts to Gene Expression Data Management. Proceedings of the 2nd IEEE International Symposium on Bioinformatics and Bioengineering, November 2001.
Markowitz V.M. (ed), Special Section on Heterogeneous Molecular Biology Databases, Journal of Computational Biology, Vol 2, No. 4, 1995.
Pearson, H., Biology’s name game, Nature, 417, pp. 631–632, 2001.
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Markowitz, V.M., Chen, IM.A., Kosky, A. (2002). Gene Expression Data Management: A Case Study. In: Jensen, C.S., et al. Advances in Database Technology — EDBT 2002. EDBT 2002. Lecture Notes in Computer Science, vol 2287. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-45876-X_45
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DOI: https://doi.org/10.1007/3-540-45876-X_45
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