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For: Duret L. The GC content of primates and rodents genomes is not at equilibrium: a reply to Antezana. J Mol Evol 2006;62:803-6. [PMID: 16752218 DOI: 10.1007/s00239-005-0228-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2005] [Accepted: 01/04/2006] [Indexed: 10/24/2022]
Number Cited by Other Article(s)
1
Jackson EK, Bellott DW, Skaletsky H, Page DC. GC-biased gene conversion in X-chromosome palindromes conserved in human, chimpanzee, and rhesus macaque. G3 GENES|GENOMES|GENETICS 2021;11:6317831. [PMID: 34849781 PMCID: PMC8981503 DOI: 10.1093/g3journal/jkab224] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 06/28/2021] [Indexed: 12/03/2022]
2
The red queen model of recombination hotspots evolution in the light of archaic and modern human genomes. PLoS Genet 2014;10:e1004790. [PMID: 25393762 PMCID: PMC4230742 DOI: 10.1371/journal.pgen.1004790] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2014] [Accepted: 10/01/2014] [Indexed: 12/17/2022]  Open
3
Goldstein RA. Population size dependence of fitness effect distribution and substitution rate probed by biophysical model of protein thermostability. Genome Biol Evol 2014;5:1584-93. [PMID: 23884461 PMCID: PMC3787666 DOI: 10.1093/gbe/evt110] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]  Open
4
Maeso I, Roy SW, Irimia M. Widespread recurrent evolution of genomic features. Genome Biol Evol 2012;4:486-500. [PMID: 22417916 PMCID: PMC3342872 DOI: 10.1093/gbe/evs022] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/06/2012] [Indexed: 12/12/2022]  Open
5
Panchin AY, Mitrofanov SI, Alexeevski AV, Spirin SA, Panchin YV. New words in human mutagenesis. BMC Bioinformatics 2011;12:268. [PMID: 21718472 PMCID: PMC3152918 DOI: 10.1186/1471-2105-12-268] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2010] [Accepted: 06/30/2011] [Indexed: 11/28/2022]  Open
6
Nevarez PA, DeBoever CM, Freeland BJ, Quitt MA, Bush EC. Context dependent substitution biases vary within the human genome. BMC Bioinformatics 2010;11:462. [PMID: 20843365 PMCID: PMC2945941 DOI: 10.1186/1471-2105-11-462] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2010] [Accepted: 09/15/2010] [Indexed: 01/16/2023]  Open
7
Duret L, Galtier N. Biased gene conversion and the evolution of mammalian genomic landscapes. Annu Rev Genomics Hum Genet 2009;10:285-311. [PMID: 19630562 DOI: 10.1146/annurev-genom-082908-150001] [Citation(s) in RCA: 496] [Impact Index Per Article: 31.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
8
Gaffney DJ, Keightley PD. Effect of the assignment of ancestral CpG state on the estimation of nucleotide substitution rates in mammals. BMC Evol Biol 2008;8:265. [PMID: 18826599 PMCID: PMC2576242 DOI: 10.1186/1471-2148-8-265] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2008] [Accepted: 09/30/2008] [Indexed: 12/03/2022]  Open
9
Squartini F, Arndt PF. Quantifying the stationarity and time reversibility of the nucleotide substitution process. Mol Biol Evol 2008;25:2525-35. [PMID: 18682605 DOI: 10.1093/molbev/msn169] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
10
Antezana MA, Jordan IK. Highly conserved regimes of neighbor-base-dependent mutation generated the background primary-structural heterogeneities along vertebrate chromosomes. PLoS One 2008;3:e2145. [PMID: 18478116 PMCID: PMC2366069 DOI: 10.1371/journal.pone.0002145] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2007] [Accepted: 03/17/2008] [Indexed: 01/01/2023]  Open
11
Duret L, Arndt PF. The impact of recombination on nucleotide substitutions in the human genome. PLoS Genet 2008;4:e1000071. [PMID: 18464896 PMCID: PMC2346554 DOI: 10.1371/journal.pgen.1000071] [Citation(s) in RCA: 259] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2007] [Accepted: 04/11/2008] [Indexed: 01/19/2023]  Open
12
Elango N, Kim SH, NISC Comparative Sequencing Program, Vigoda E, Yi SV. Mutations of different molecular origins exhibit contrasting patterns of regional substitution rate variation. PLoS Comput Biol 2008;4:e1000015. [PMID: 18463707 PMCID: PMC2265638 DOI: 10.1371/journal.pcbi.1000015] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2007] [Accepted: 01/30/2008] [Indexed: 11/19/2022]  Open
13
Karro JE, Peifer M, Hardison RC, Kollmann M, von Grünberg HH. Exponential decay of GC content detected by strand-symmetric substitution rates influences the evolution of isochore structure. Mol Biol Evol 2007;25:362-74. [PMID: 18042807 DOI: 10.1093/molbev/msm261] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
14
Directionality of point mutation and 5-methylcytosine deamination rates in the chimpanzee genome. BMC Genomics 2006;7:316. [PMID: 17166280 PMCID: PMC1764022 DOI: 10.1186/1471-2164-7-316] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2006] [Accepted: 12/13/2006] [Indexed: 12/02/2022]  Open
15
Duret L, Eyre-Walker A, Galtier N. A new perspective on isochore evolution. Gene 2006;385:71-4. [PMID: 16971063 DOI: 10.1016/j.gene.2006.04.030] [Citation(s) in RCA: 66] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2006] [Accepted: 04/07/2006] [Indexed: 11/30/2022]
16
Webster MT, Axelsson E, Ellegren H. Strong Regional Biases in Nucleotide Substitution in the Chicken Genome. Mol Biol Evol 2006;23:1203-16. [PMID: 16551647 DOI: 10.1093/molbev/msk008] [Citation(s) in RCA: 79] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
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