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Literature DB >> 3607200

Asynchronous distance between homologous DNA sequences.

Abstract

The distance between homologous DNA sequences of two species is proposed to be -1/4 ln[det(P)], where P is the conditional probability matrix specifying the proportions of the various nucleotides in the second sequence, corresponding to each of the four nucleotides in the first sequence. A probability model is described which supports this choice of distance. Distance measures based on a constant evolutionary rate assumption are described and compared with the proposed measure. Sampling properties of both types of distance are examined and we conclude by applying the distance measures to mitochondrial DNA sequences of the hominoids.

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Substances：
DNA

Year: 1987 PMID： 3607200

Source DB: PubMed Journal: Biometrics ISSN： 0006-341X Impact factor: 2.571

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Cited

13 in total

1. Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model.

Authors: Peter D Jarvis; Jeremy G Sumner
Journal: J Math Biol Date: 2015-12-11 Impact factor: 2.259

2. A general additive distance with time-reversibility and rate variation among nucleotide sites.

Authors: X Gu; W H Li
Journal: Proc Natl Acad Sci U S A Date: 1996-05-14 Impact factor: 11.205

3. Estimation of evolutionary distances from protein spatial structures.

Authors: N V Grishin
Journal: J Mol Evol Date: 1997-10 Impact factor: 2.395

4. Estimation of evolutionary distances under stationary and nonstationary models of nucleotide substitution.

Authors: X Gu; W H Li
Journal: Proc Natl Acad Sci U S A Date: 1998-05-26 Impact factor: 11.205

5. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea.

Authors: H Kishino; M Hasegawa
Journal: J Mol Evol Date: 1989-08 Impact factor: 2.395

Asynchronous distance between homologous DNA sequences.

1. Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model.

2. A general additive distance with time-reversibility and rate variation among nucleotide sites.

3. Estimation of evolutionary distances from protein spatial structures.

4. Estimation of evolutionary distances under stationary and nonstationary models of nucleotide substitution.

5. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea.

6. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances.

7. Conservation of neutral substitution rate and substitutional asymmetries in mammalian genes.

8. A universal scaling law determines time reversibility and steady state of substitutions under selection.

9. Rooting gene trees without outgroups: EP rooting.

10. Estimation of phylogeny using a general Markov model.