Abstract
Tetrahymena thermophila is a model eukaryotic organism. Functional genomic analyses in Tetrahymena present rich opportunities to address fundamental questions of cell and molecular biology. The Tetrahymena Gene Expression Database (TGED; available at http://tged.ihb.ac.cn) is the first expression database of a ciliated protozoan. It covers three major physiological and developmental states: growth, starvation, and conjugation, and can be accessed through a user-friendly web interface. The gene expression profiles and candidate co-expressed genes for each gene can be retrieved using Gene ID or Gene description searches. Descriptions of standardized methods of sample preparation and the opportunity to add new Tetrahymena microarray data will be of great interest to the Tetrahymena research community. TGED is intended to be a resource for all members of the scientific research community who are interested in Tetrahymena and other ciliates.
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References
Kruger K, Grabowski P J, Zaug A J, et al. Self-splicing RNA: Autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena. Cell, 1982, 31: 147–157, 1:CAS:528:DyaL3sXht1eguw%3D%3D, 10.1016/0092-8674(82)90414-7, 6297745
Greider C W, Blackburn E H. Identification of a specific telomere terminal transferase activity in Tetrahymena extracts. Cell, 1985, 43: 405–413, 1:CAS:528:DyaL28Xot12itQ%3D%3D, 10.1016/0092-8674(85)90170-9, 3907856
Asai D J, Forney J D, Willson L, et al. eds. Tetrahymena thermophila. Methods in Cell Biology, Vol. 62. New York: Academic press, 2000
Turkewitz A P, Orias E, Kapler G. Functional genomics: The coming of age for Tetrahymena thermophila. Trends Genet, 2002, 18: 35–40, 1:CAS:528:DC%2BD3MXpt1agsro%3D, 10.1016/S0168-9525(01)02560-4, 11750699
Martindale D W, Allis C D, Bruns P J. Conjugation in Tetrahymena thermophila. A temporal analysis of cytological stages. Exp Cell Res, 1982, 140: 227–236, 1:STN:280:DyaL383mtFyqsw%3D%3D, 10.1016/0014-4827(82)90172-0, 7106201
Eisen J A, Coyne R S, Wu M, et al. Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote. PLoS Biol, 2006, 4: e286, 10.1371/journal.pbio.0040286, 16933976
Stover N A, Krieger C J, Binkley G, et al. Tetrahymena Genome Database (TGD): A new genomic resource for Tetrahymena thermophila research. Nucleic Acids Res, 2006, 34: D500–503, 1:CAS:528:DC%2BD28XisFOlug%3D%3D, 10.1093/nar/gkj054, 16381920
Miao W, Xiong J, Bowen J, et al. Microarray analyses of gene expression during the Tetrahymena thermophila life cycle. PLoS One, 2009, 4: e4429, 10.1371/journal.pone.0004429, 19204800
Irizarry R A, Hobbs B, Collin F, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics, 2003, 4: 249–264, 10.1093/biostatistics/4.2.249, 12925520
Bhardwaj N, Lu H. Correlation between gene expression profiles and protein-protein interactions within and across genomes. Bioinformatics, 2005, 21: 2730–2738, 1:CAS:528:DC%2BD2MXks1eru7c%3D, 10.1093/bioinformatics/bti398, 15797912
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Xiong, J., Lu, X., Lu, Y. et al. Tetrahymena Gene Expression Database (TGED): A resource of microarray data and co-expression analyses for Tetrahymena. Sci. China Life Sci. 54, 65–67 (2011). https://doi.org/10.1007/s11427-010-4114-1
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DOI: https://doi.org/10.1007/s11427-010-4114-1