We found a match
Your institution may have access to this item. Find your institution then sign in to continue.
- Title
Microbial gene identification using interpolated Markov models.
- Authors
Salzberg, S L; Delcher, A L; Kasif, S; White, O
- Abstract
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.
- Publication
Nucleic acids research, 1998, Vol 26, Issue 2, p544
- ISSN
0305-1048
- Publication type
Journal Article
- DOI
10.1093/nar/26.2.544