- Abstract:
-
MOTIVATION: It is well known that neighbouring nucleotides in DNA sequences do not mutate independently of each other. In this paper, we introduce a context-dependent substitution model and derive an algorithm to calculate the likelihood of sequences evolving under this model. We use this algorithm to estimate neighbour-dependent substitution rates, as well as rates for dinucleotide substitutions, using a Bayesian sampling procedure. The model is irreversible, giving an arrow to time, and al...
Expand abstract - Publication status:
- Published
- Publisher copy:
- 10.1093/bioinformatics/bth901
-
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- Journal:
- Bioinformatics (Oxford, England)
- Volume:
- 20 Suppl 1
- Issue:
- SUPPL. 1
- Pages:
- i216-i223
- Publication date:
- 2004-08-05
- DOI:
- EISSN:
-
1367-4811
- ISSN:
-
1367-4803
- URN:
-
uuid:a79598b5-8e8d-4b81-a721-c366199258d5
- Source identifiers:
-
68319
- Local pid:
- pubs:68319
- Copyright date:
- 2004
Journal article
A nucleotide substitution model with nearest-neighbour interactions.
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