A coalescent-based method for detecting and estimating recombination from gene sequences

Genetics

Volumn 160, Issue 3, 2002, Pages 1231-1241

  McVean, Gil ^a,c   Awadalla, Philip ^b   Fearnhead, Paul ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c Department of Statistics ^*  (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; MITOCHONDRIAL DNA; VIRUS DNA;

ARTICLE; BACTERIUM; EVOLUTION; GENE SEQUENCE; GENEALOGY; GENETIC RECOMBINATION; GENETIC VARIABILITY; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS 2; MATHEMATICAL GENETICS; MUTATION; NONHUMAN; POPULATION GENETICS; PRIORITY JOURNAL; VIRUS;

ANIMALS; EVOLUTION, MOLECULAR; HUMANS; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MUTATION; RECOMBINATION, GENETIC; SEQUENCE ANALYSIS, DNA;

BACTERIA (MICROORGANISMS); DNA VIRUSES; HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS 2;

EID: 0036199914     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (44)

1. Linkage disequilibrium and recombination in hominid mitochondrial DNA
2. Questioning evidence for recombination in human mitochondrial DNA - Reply
3. The hitchhiking effect on the site-frequency spectrum of DNA polymorphisms
4. The power to detect recombination using the coalescent
5. High recombination rate in natural populations of Plasmodium falciparum
6. Estimating recombination rates from population genetic data
7. Gene conversion and different population histories may explain the contrast between polymorphism and linkage disequilibrium levels
8. A likelihood method for the detection of selection and recombination using nucleotide sequences
9. Ancestral inferences from samples of DNA sequences with recombination
10. An ancestral recombination graph
11. Dating the humanape splitting by a molecular clock of mitochondrial DNA
12. Human mitochondrial DNA recombination: Can it be true?
13. A coalescent estimator of the population recombination rate
14. Meiotic gene conversion tract length distribution within the rosy locus of Drosophila melanogaster
15. Estimating the recombination parameter of a finite population model without selection
16. Gene genealogies and the coalescent process
17. Two-locus sampling distributions and their application
18. Statistical properties of the number of recombination events in the history of a sample of DNA sequences
19. Gene trees with background selection
20. Mitochondrial genome variation and the origin of modern humans
21. The coalescent
22. Maximum likelihood estimation of recombination rates from population data
23. The interaction of selection and linkage. I. General considerations; heterotic models
24. The detection and measurement of recombination from sequence data
25. Detecting recombination from gene trees
26. How clonal are bacteria?
27. A Bayesian model for detecting past recombination in DNA multiple alignments
28. What do patterns of genetic variability reveal about mitochondrial recombination?
29. The correlation between linkage disequilibrium and distance. Implications for recombination in Hominid mitochondria
30. Molecular and phenotypic variation of the white locus region in Drosophila melanogaster
31. Some genetic aspects of sex
32. The relation of recombination to mutational advance
33. Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene
34. Linkage disequilibrium in humans models and data
35. Human inmlunodeficiency viruses. Phylogeny and origin of HIV-1
36. Consequences of recombination on traditional phylogenetic analysis
37. Free recombination within Helicobacter pylori
38. A comparison of estimators of the population recombination rate
39. Recombination in human mitochondrial DNA?
40. Immune and artificial selection in the hemagglutinin (h) glycoprotein of measles virus
41. A novel approach to detecting and measuring recombination: New insights into evolution in viruses, bacteria and mitochondria
42. Widespread intraserotype recombination in natural populations of dengue virus