The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
Microbial gene identification using interpolated Markov models
Open accessAbstract
This paper describes a new system, GLIMMER, for finding genes in microbial genomes. In a series of tests on Haemophilus influenzae , Helicobacter pylori and other complete microbial genomes, this system has proven to be very accurate at locating virtually all the genes in these sequences, outperforming previous methods. A conservative estimate based on experiments on H.pylori and H. influenzae is that the system finds >97% of all genes. GLIMMER uses interpolated Markov models (IMMs) as a framework for capturing dependencies between nearby nucleotides in a DNA sequence. An IMM-based method makes predictions based on a variable context; i.e., a variable-length oligomer in a DNA sequence. The context used by GLIMMER changes depending on the local composition of the sequence. As a result, GLIMMER is more flexible and more powerful than fixed-order Markov methods, which have previously been the primary content-based technique for finding genes in microbial DNA.
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Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669
The complete genome sequence of the gastric pathogen Helicobacter pylori
Tomb, J.-F., White, O., Kerlavage, A. R., Clayton, R. A., Sutton, G. G., Fleischmann, R. D., Ketchum, K. A., Klenk, H. P., Gill, S., Dougherty, B. A., et al. (1997) · Nature · doi:10.1038/41483 · Cited by 3,529
Self-citation
Cited by
Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi
Fraser, C. M., Casjens, S., Huang, W. M., Sutton, G. G., Clayton, R., Lathigra, R., White, O., Ketchum, K. A., Dodson, R., Hickey, E. K., et al. (1997) · Nature · doi:10.1038/37551 · Cited by 2,108
Self-citationGene prediction with a hidden Markov model and a new intron submodel
Stanke, M., & Waack, S. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg1080 · Cited by 1,439
Wu, M., Sun, L. V., Vamathevan, J., Riegler, M., Deboy, R., Brownlie, J. C., McGraw, E. A., Martin, W., Esser, C., Ahmadinejad, N., et al. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0020069 · Cited by 851
“An initial set of ORFs likely to encode proteins (CDS) was identified with GLIMMER (Salzberg et al. 1998).”
Ma, J., Campbell, A., & Karlin, S. (2002) · Journal of Bacteriology · doi:10.1128/jb.184.20.5733-5745.2002 · Cited by 314
Retapamulin-Assisted Ribosome Profiling Reveals the Alternative Bacterial Proteome
Meydan, S., Marks, J., Klepacki, D., Sharma, V., Baranov, P. V., Firth, A. E., Margus, T., Kefi, A., Vázquez-Laslop, N., & Mankin, A. S. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.02.017 · Cited by 184
Metadata
- Authors
- Salzberg, S. L., Delcher, A. L., Kasif, S., & White, O.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 1998-01-01
- Volume
- 26
- Issue
- 2
- Pages
- 544-548
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2032870665
- Cited by
- 996
- References
- 2
- FWCI
- 10.47
- Type
- journal article
- Language
- en
- Open access
- green
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- Salzberg, S. L., Delcher, A. L., Kasif, S., & White, O. (1998). Microbial gene identification using interpolated Markov models. Nucleic Acids Research. https://doi.org/10.1093/nar/26.2.544
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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