Annotating sequence data using genotator
In this postgenomic era, it is no longer necessary to argue the need for automated methods for sequence annotation. Many researchers have designed tools for analyzing DNA sequences, but running multiple tools and interpreting the results can be tedious and confusing. In the last few years, many analysis workbenches have been developed to help streamline the process of sequence annotation. Genotator, developed in 1996, is still a popular choice owing to its ease of use and its configurability. This article will review annotating sequence data using the Genotator.
Index EntriesGenotator sequence analysis
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- 3.Helt, G. (1997) Data visualization and gene discovery in Drosophila melanogaster. PhD thesis, University of California at Berkeley.Google Scholar
- 4.Kulp, D., Haussler, D., Reese, M. G., and Eeckman, F. H. (1996) A generalized hidden Markov model for the recognition of human genes in DNA. Proc. Conf. on Intelligent Systems in Molecular Biology '96, St. Louis, Missouri, AAAI/MIT Press.Google Scholar
- 5.Xu, Y., Mural, R. J., Shah, M. B., and Uberbacher, E. C. (1994) Recognizing exons in genomic sequence using GRAIL II, in Genetic Engineering: Principles and Methods, Jane Setlow (ed.), Plenum Press, Vol. 15.Google Scholar
- 12.Reese, M. G. and Eeckman, F. H. (1994) New neural network algorithms for improved eukaryotic promoter site recognition. The Seventh International Genome Sequencing and Analysis Conference, Hilton Head Island, South Carolina, September 16–20, 1995.Google Scholar
- 13.Reese, M. G., Eeckman, F. H., Kulp, D., and Haussler, D. (1997) Improved splice site detection in Genie. RECOMB (First Annual International Conference on Computational Molecular Biology, 1997). M. Waterman, ed., Santa Fe.Google Scholar
- 15.Sonnhammer, E. L. L. and Durbin, R. (1994) A workbench for large scale sequence homology analysis. Comput. Applic. Biosci., 10, 301–307.Google Scholar
- 16.Rozen, S. and Skaletsky, H. J. (1996) Primer3. Code available at http://www-genome.wi.mit.edu/genome_software/other/primer3.htmlGoogle Scholar
- 17.Upton, C., Hogg, D., Perrin, D., Boone, M., and Harris, N. (in preparation). Viral Genome Organizer: A system for analyzing complete viral genomes.Google Scholar