-
2
-
-
19544383635
-
Identification and measurement of neighbor-dependent nucleotide substitution processes
-
PF Arndt T Hwa 2005 Identification and measurement of neighbor-dependent nucleotide substitution processes Bioinformatics 21 2322 2328
-
(2005)
Bioinformatics
, vol.21
, pp. 2322-2328
-
-
Arndt, P.F.1
Hwa, T.2
-
3
-
-
0242659321
-
DNA sequence evolution with neighbor-dependent mutation
-
PF Arndt CB Burge T Hwa 2003 DNA sequence evolution with neighbor-dependent mutation J Comput Biol 10 313 322
-
(2003)
J Comput Biol
, vol.10
, pp. 313-322
-
-
Arndt, P.F.1
Burge, C.B.2
Hwa, T.3
-
4
-
-
0026529344
-
Levels of naturally-occurring DNA polymorphism correlate with recombination rates in Drosophila melanogaster
-
DJ Begun CF Aquadro 1992 Levels of naturally-occurring DNA polymorphism correlate with recombination rates in Drosophila melanogaster Nature 356 519 520
-
(1992)
Nature
, vol.356
, pp. 519-520
-
-
Begun, D.J.1
Aquadro, C.F.2
-
5
-
-
0034705169
-
Reduced X-linked nucleotide polymorphism in Drosophila simulans
-
DJ Begun P Whitley 2000 Reduced X-linked nucleotide polymorphism in Drosophila simulans Proc Natl Acad Sci USA 97 5960 5965
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 5960-5965
-
-
Begun, D.J.1
Whitley, P.2
-
6
-
-
0031879857
-
Efficient repair of all types of single-base mismatches in recombination intermediates in Chinese hamster ovary cells: Competition between long-patch and G-T glycosylase-mediated repair of G-T mismatches
-
CA Bill WA Duran NR Miselis JA Nickoloff 1998 Efficient repair of all types of single-base mismatches in recombination intermediates in Chinese hamster ovary cells: competition between long-patch and G-T glycosylase-mediated repair of G-T mismatches Genetics 149 1935 1943
-
(1998)
Genetics
, vol.149
, pp. 1935-1943
-
-
Bill, C.A.1
Duran, W.A.2
Miselis, N.R.3
Nickoloff, J.A.4
-
7
-
-
0035986891
-
Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution
-
JA Birdsell 2002 Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution Mol Biol Evol 19 1181 1197
-
(2002)
Mol Biol Evol
, vol.19
, pp. 1181-1197
-
-
Birdsell, J.A.1
-
8
-
-
0026502711
-
Over- and under-representation of short oligonucleotides in DNA sequences
-
C Burge AM Campbell S Karlin 1992 Over- and under-representation of short oligonucleotides in DNA sequences Proc Natl Acad Sci USA 89 1358 1362
-
(1992)
Proc Natl Acad Sci USA
, vol.89
, pp. 1358-1362
-
-
Burge, C.1
Campbell, A.M.2
Karlin, S.3
-
9
-
-
0033551151
-
Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis
-
L Duret D Mouchiroud 1999 Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis Proc Natl Acad Sci USA 96 4482 4487
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 4482-4487
-
-
Duret, L.1
Mouchiroud, D.2
-
10
-
-
0037303814
-
Gene conversion drives GC content evolution in mammalian histones
-
N Galtier 2003 Gene conversion drives GC content evolution in mammalian histones Trends Genet 19 65 68
-
(2003)
Trends Genet
, vol.19
, pp. 65-68
-
-
Galtier, N.1
-
11
-
-
3242696303
-
Recombination, GC-content and the human pseudoautosomal boundary paradox
-
N Galtier 2004 Recombination, GC-content and the human pseudoautosomal boundary paradox Trends Genet 20 347 349
-
(2004)
Trends Genet
, vol.20
, pp. 347-349
-
-
Galtier, N.1
-
12
-
-
34248641119
-
Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution
-
N Galtier L Duret 2007 Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution Trends Genet 23 273 277
-
(2007)
Trends Genet
, vol.23
, pp. 273-277
-
-
Galtier, N.1
Duret, L.2
-
13
-
-
0034766004
-
GC-content evolution in mammalian genomes: The biased gene conversion hypothesis
-
N Galtier G Piganeau D Mouchiroud L Duret 2001 GC-content evolution in mammalian genomes: the biased gene conversion hypothesis Genetics 159 907 911
-
(2001)
Genetics
, vol.159
, pp. 907-911
-
-
Galtier, N.1
Piganeau, G.2
Mouchiroud, D.3
Duret, L.4
-
14
-
-
0035049521
-
Genome-scale compositional comparisons in eukaryotes
-
AJ Gentles S Karlin 2001 Genome-scale compositional comparisons in eukaryotes Genome Res 11 540 546
-
(2001)
Genome Res
, vol.11
, pp. 540-546
-
-
Gentles, A.J.1
Karlin, S.2
-
17
-
-
0028294455
-
Wide variations in neighbor-dependent substitution rates
-
ST Hess JD Blake RD Blake 1994 Wide variations in neighbor-dependent substitution rates J Mol Biol 236 1022 1033
-
(1994)
J Mol Biol
, vol.236
, pp. 1022-1033
-
-
Hess, S.T.1
Blake, J.D.2
Blake, R.D.3
-
18
-
-
0036188913
-
Interactions between natural selection, recombination and gene density in the genes of Drosophila
-
J Hey RM Kliman 2002 Interactions between natural selection, recombination and gene density in the genes of Drosophila Genetics 160 595 608
-
(2002)
Genetics
, vol.160
, pp. 595-608
-
-
Hey, J.1
Kliman, R.M.2
-
19
-
-
0029060923
-
Dinucleotide relative abundance extremes: A genomic signature
-
S Karlin C Burge 1995 Dinucleotide relative abundance extremes: a genomic signature Trends Genet 11 283 290
-
(1995)
Trends Genet
, vol.11
, pp. 283-290
-
-
Karlin, S.1
Burge, C.2
-
20
-
-
0028606501
-
Comparisons of eukaryotic genomic sequences
-
S Karlin I Ladunga 1994 Comparisons of eukaryotic genomic sequences Proc Natl Acad Sci USA 91 12832 12836
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 12832-12836
-
-
Karlin, S.1
Ladunga, I.2
-
21
-
-
0030923586
-
Compositional differences within and between eukaryotic genomes
-
S Karlin J Mrazek 1997 Compositional differences within and between eukaryotic genomes Proc Natl Acad Sci USA 94 10227 10232
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 10227-10232
-
-
Karlin, S.1
Mrazek, J.2
-
22
-
-
33744941840
-
GC content evolution of the human and mouse genomes: Insights from the study of processed pseudogenes in regions of different recombination rates
-
A Khelifi J Meunier L Duret D Mouchiroud 2006 GC content evolution of the human and mouse genomes: insights from the study of processed pseudogenes in regions of different recombination rates J Mol Evol 62 745 752
-
(2006)
J Mol Evol
, vol.62
, pp. 745-752
-
-
Khelifi, A.1
Meunier, J.2
Duret, L.3
Mouchiroud, D.4
-
23
-
-
0027383354
-
Reduced natural selection associated with low recombination in Drosophila melanogaster
-
RM Kliman J Hey 1993 Reduced natural selection associated with low recombination in Drosophila melanogaster Mol Biol Evol 10 1239 1258
-
(1993)
Mol Biol Evol
, vol.10
, pp. 1239-1258
-
-
Kliman, R.M.1
Hey, J.2
-
25
-
-
0036270017
-
The relative abundance of dinucleotides in transposable elements in five species
-
E Lerat P Capy C Biémont 2002 The relative abundance of dinucleotides in transposable elements in five species Mol Biol Evol 19 964 967
-
(2002)
Mol Biol Evol
, vol.19
, pp. 964-967
-
-
Lerat, E.1
Capy, P.2
Biémont, C.3
-
26
-
-
0036640951
-
Human SNP variability and mutation rate are higher in regions of high recombination
-
MJ Lercher LD Hurst 2002 Human SNP variability and mutation rate are higher in regions of high recombination Trends Genet 18 337 340
-
(2002)
Trends Genet
, vol.18
, pp. 337-340
-
-
Lercher, M.J.1
Hurst, L.D.2
-
27
-
-
0030596612
-
The relation between condon usage, base correlation and gene expression level in Escherichia coli and yeast
-
H Li L Luo 1996 The relation between condon usage, base correlation and gene expression level in Escherichia coli and yeast J Theor Biol 181 111 124
-
(1996)
J Theor Biol
, vol.181
, pp. 111-124
-
-
Li, H.1
Luo, L.2
-
28
-
-
0001366379
-
Statistical correlation of nucleotides in a DNA sequence
-
L Luo W Lee L Jia F Ji L Tsai 1998 Statistical correlation of nucleotides in a DNA sequence Phys Rev E 58 861 871
-
(1998)
Phys Rev e
, vol.58
, pp. 861-871
-
-
Luo, L.1
Lee, W.2
Jia, L.3
Ji, F.4
Tsai, L.5
-
29
-
-
0034735780
-
DNA methylation in Drosophila melanogaster
-
F Lyko BH Ramashoye R Jaenisch 2000 DNA methylation in Drosophila melanogaster Nature 408 538 540
-
(2000)
Nature
, vol.408
, pp. 538-540
-
-
Lyko, F.1
Ramashoye, B.H.2
Jaenisch, R.3
-
30
-
-
0032079514
-
Suppression of crossing-over by DNA methylation in Ascobolus
-
L Maloisel JL Rossignol 1998 Suppression of crossing-over by DNA methylation in Ascobolus Genes Dev 12 1381 1389
-
(1998)
Genes Dev
, vol.12
, pp. 1381-1389
-
-
Maloisel, L.1
Rossignol, J.L.2
-
31
-
-
0037458086
-
Genome evolution: Recombination speeds up adaptive evolution
-
G Marais B Charlesworth 2003 Genome evolution: recombination speeds up adaptive evolution Curr Biol 13 68 70
-
(2003)
Curr Biol
, vol.13
, pp. 68-70
-
-
Marais, G.1
Charlesworth, B.2
-
32
-
-
0035826858
-
Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes
-
G Marais D Mouchiroud L Duret 2001 Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes Proc Natl Acad Sci USA 98 5688 5692
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 5688-5692
-
-
Marais, G.1
Mouchiroud, D.2
Duret, L.3
-
33
-
-
0037648944
-
Neutral effect of recombination on base composition in Drosophila
-
G Marais D Mouchiroud L Duret 2003 Neutral effect of recombination on base composition in Drosophila Genet Res 81 79 87
-
(2003)
Genet Res
, vol.81
, pp. 79-87
-
-
Marais, G.1
Mouchiroud, D.2
Duret, L.3
-
34
-
-
2442651458
-
Recombination drives the evolution of GC-content in the human genome
-
J Meunier L Duret 2004 Recombination drives the evolution of GC-content in the human genome Mol Biol Evol 12 984 990
-
(2004)
Mol Biol Evol
, vol.12
, pp. 984-990
-
-
Meunier, J.1
Duret, L.2
-
36
-
-
16844377748
-
Fine-scale recombination patterns differ between chimpanzees and humans
-
SE Ptak DA Hinds K Koehler B Nickel N Patil DG Ballinger M Przeworski KA Frazer S Pääbo 2005 Fine-scale recombination patterns differ between chimpanzees and humans Nat Genet 37 429 434
-
(2005)
Nat Genet
, vol.37
, pp. 429-434
-
-
Ptak, S.E.1
Hinds, D.A.2
Koehler, K.3
Nickel, B.4
Patil, N.5
Ballinger, D.G.6
Przeworski, M.7
Frazer, K.A.8
Pääbo, S.9
-
37
-
-
15544387147
-
Genomic heterogeneity of background substitutional patterns in Drosophila melanogaster
-
ND Singh PF Arndt DA Petrov 2005 Genomic heterogeneity of background substitutional patterns in Drosophila melanogaster Genetics 169 709 722
-
(2005)
Genetics
, vol.169
, pp. 709-722
-
-
Singh, N.D.1
Arndt, P.F.2
Petrov, D.A.3
-
38
-
-
25144452814
-
Codon bias and non-coding GC content correlate negatively with recombination rate on the Drosophila X chromosome
-
ND Singh JC Davis A Dmitri DA Petrov 2005 Codon bias and non-coding GC content correlate negatively with recombination rate on the Drosophila X chromosome J Mol Evol 61 315 324
-
(2005)
J Mol Evol
, vol.61
, pp. 315-324
-
-
Singh, N.D.1
Davis, J.C.2
Dmitri, A.3
Petrov, D.A.4
-
39
-
-
0004239562
-
-
Available at: Accessed 4 Sept 2008
-
Smit AFA, Green P (2008) RepeatMasker. Available at: http://www. repeatmasker.org. Accessed 4 Sept 2008
-
(2008)
RepeatMasker
-
-
Smit, A.F.A.1
Green, P.2
-
40
-
-
0025129834
-
DNA mismatch repair in Xenopus egg extracts:repair efficiency and DNA repair synthesis for all single base-pair mismatches
-
I Varlet M Radman P Brooks 1990 DNA mismatch repair in Xenopus egg extracts:repair efficiency and DNA repair synthesis for all single base-pair mismatches Proc Natl Acad Sci USA 87 7883 7887
-
(1990)
Proc Natl Acad Sci USA
, vol.87
, pp. 7883-7887
-
-
Varlet, I.1
Radman, M.2
Brooks, P.3
-
41
-
-
0345306317
-
Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes
-
Z Zhang M Gerstein 2003 Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes Nucleic Acids Res 31 5338 5348
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 5338-5348
-
-
Zhang, Z.1
Gerstein, M.2
|