-
1
-
-
0041817645
-
Translational selection and yeast proteome evolution
-
Akashi H. 2003. Translational selection and yeast proteome evolution. Genetics 164: 1291-1303. (Pubitemid 37102197)
-
(2003)
Genetics
, vol.164
, Issue.4
, pp. 1291-1303
-
-
Akashi, H.1
-
2
-
-
1642344759
-
Structural/functional homology between the bacterial and eukaryotic cytoskeletons
-
Amos LA, van den Ent F, Lowe J. 2004. Structural/functional homology between the bacterial and eukaryotic cytoskeletons. Curr Opin Cell Biol 16: 24-31.
-
(2004)
Curr Opin Cell Biol
, vol.16
, pp. 24-31
-
-
Amos, L.A.1
Van Den Ent, F.2
Lowe, J.3
-
3
-
-
27144491328
-
Adaptive evolution of non-coding DNA in Drosophila
-
Andolfatto P. 2005. Adaptive evolution of non-coding DNA in Drosophila. Nature 437: 1149-1152.
-
(2005)
Nature
, vol.437
, pp. 1149-1152
-
-
Andolfatto, P.1
-
4
-
-
0020024572
-
Codon selection in yeast
-
Bennetzen JL, Hall BD. 1982. Codon selection in yeast. J Biol Chem 257: 3026-3031.
-
(1982)
J Biol Chem
, vol.257
, pp. 3026-3031
-
-
Bennetzen, J.L.1
Hall, B.D.2
-
5
-
-
3042544623
-
The genomic rate of adaptive amino acid substitution in Drosophila
-
DOI 10.1093/molbev/msh134
-
Bierne N, Eyre-Walker A. 2004. The genomic rate of adaptive amino acid substitution in Drosophila. Mol Biol Evol 21: 1350-1360. (Pubitemid 38823738)
-
(2004)
Molecular Biology and Evolution
, vol.21
, Issue.7
, pp. 1350-1360
-
-
Bierne, N.1
Eyre-Walker, A.2
-
6
-
-
44949129000
-
Assessing the evolutionary impact of amino acid mutations in the human genome
-
doi: 10.1371/journal.pgen.1000083
-
Boyko AR, Williamson SH, Indap AR, Degenhardt JD, Hernandez RD, Lohmueller KE, Adams MD, Schmidt S, Sninsky JJ, Sunyaev SR, et al. 2008. Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet 4: e1000083. doi: 10.1371/journal.pgen.1000083.
-
(2008)
PLoS Genet
, vol.4
-
-
Boyko, A.R.1
Williamson, S.H.2
Indap, A.R.3
Degenhardt, J.D.4
Hernandez, R.D.5
Lohmueller, K.E.6
Adams, M.D.7
Schmidt, S.8
Sninsky, J.J.9
Sunyaev, S.R.10
-
8
-
-
0000685226
-
The molecular clock and the relationship between population-size and generation time
-
Chao L, Carr DE. 1993. The molecular clock and the relationship between population-size and generation time. Evolution 47: 688-690.
-
(1993)
Evolution
, vol.47
, pp. 688-690
-
-
Chao, L.1
Carr, D.E.2
-
9
-
-
0028222304
-
The effect of background selection against deleterious mutations on weakly selected, linked variants
-
Charlesworth B. 1994. The effect of background selection against deleterious mutations on weakly selected, linked variants. Genet Res 63: 213-227. (Pubitemid 24221031)
-
(1994)
Genetical Research
, vol.63
, Issue.3
, pp. 213-227
-
-
Charlesworth, B.1
-
10
-
-
0029800853
-
Background selection and patterns of genetic diversity in Drosophila melanogaster
-
Charlesworth B. 1996. Background selection and patterns of genetic diversity in Drosophila melanogaster. Genet Res 68: 131-149. (Pubitemid 26391952)
-
(1996)
Genetical Research
, vol.68
, Issue.2
, pp. 131-149
-
-
Charlesworth, B.1
-
11
-
-
44649110284
-
The McDonald-Kreitman test and slightly deleterious mutations
-
Charlesworth J, Eyre-Walker A. 2008. The McDonald-Kreitman test and slightly deleterious mutations. Mol Biol Evol 25: 1007-1015.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1007-1015
-
-
Charlesworth, J.1
Eyre-Walker, A.2
-
12
-
-
0027305597
-
The effect of deleterious mutations on neutral molecular variation
-
Charlesworth B, Morgan MT, Charlesworth D. 1993. The effect of deleterious mutations on neutral molecular variation. Genetics 134: 1289-1303. (Pubitemid 23220050)
-
(1993)
Genetics
, vol.134
, Issue.4
, pp. 1289-1303
-
-
Charlesworth, B.1
Morgan, M.T.2
Charlesworth, D.3
-
13
-
-
0035130163
-
Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees
-
Chen FC, Li WH. 2001. Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am J Hum Genet 68: 444-456.
-
(2001)
Am J Hum Genet
, vol.68
, pp. 444-456
-
-
Chen, F.C.1
Li, W.H.2
-
14
-
-
84947318637
-
Locally weighted regression - An approach to regression-analysis by local fitting
-
Cleveland WS, Devlin SJ. 1988. Locally weighted regression - an approach to regression-analysis by local fitting. J Am Stat Assoc 83: 596-610.
-
(1988)
J Am Stat Assoc
, vol.83
, pp. 596-610
-
-
Cleveland, W.S.1
Devlin, S.J.2
-
15
-
-
38349172411
-
Recombination rate and protein evolution in yeast
-
doi: 10.1186/1471-2148-7-235
-
Connallon T, Knowles LL. 2007. Recombination rate and protein evolution in yeast. BMC Evol Biol 7: 235. doi: 10.1186/1471-2148-7-235.
-
(2007)
BMC Evol Biol
, vol.7
, pp. 235
-
-
Connallon, T.1
Knowles, L.L.2
-
17
-
-
18744395183
-
Numerous potentially functional but non-genic conserved sequences on human chromosome 21
-
DOI 10.1038/nature01251
-
Dermitzakis ET, Reymond A, Lyle R, Scamuffa N, Ucla C, Deutsch S, Stevenson BJ, Flegel V, Bucher P, Jongeneel CV, et al. 2002. Numerous potentially functional but non-genic conserved sequences on human chromosome 21. Nature 420: 578-582. (Pubitemid 35477051)
-
(2002)
Nature
, vol.420
, Issue.6915
, pp. 578-582
-
-
Dermitzakis, E.T.1
Reymond, A.2
Lyle, R.3
Scamuffa, N.4
Ucla, C.5
Deutsch, S.6
Stevenson, B.J.7
Flegel, V.8
Bucher, P.9
Jongeneel, C.V.10
Antonarakis, S.E.11
-
18
-
-
50849102293
-
A catalog of neutral and deleterious polymorphism in yeast
-
doi: 10.1371/journal.pgen.1000183
-
Doniger SW, Kim HS, Swain D, Corcuera D, Williams M, Yang SP, Fay JC. 2008. A catalog of neutral and deleterious polymorphism in yeast. PLoS Genet 4: e1000183. doi: 10.1371/journal.pgen.1000183.
-
(2008)
PLoS Genet
, vol.4
-
-
Doniger, S.W.1
Kim, H.S.2
Swain, D.3
Corcuera, D.4
Williams, M.5
Yang, S.P.6
Fay, J.C.7
-
19
-
-
30744441602
-
A single determinant dominates the rate of yeast protein evolution
-
DOI 10.1093/molbev/msj038
-
Drummond DA, Raval A, Wilke CO. 2006. A single determinant dominates the rate of yeast protein evolution. Mol Biol Evol 23: 327-337. (Pubitemid 43100047)
-
(2006)
Molecular Biology and Evolution
, vol.23
, Issue.2
, pp. 327-337
-
-
Drummond, D.A.1
Raval, A.2
Wilke, C.O.3
-
21
-
-
0036961560
-
Changing effective population size and the McDonald-Kreitman test
-
Eyre-Walker A. 2002. Changing effective population size and the McDonald-Kreitman test. Genetics 162: 2017-2024. (Pubitemid 36114681)
-
(2002)
Genetics
, vol.162
, Issue.4
, pp. 2017-2024
-
-
Eyre-Walker, A.1
-
22
-
-
33748473348
-
The genomic rate of adaptive evolution
-
Eyre-Walker A. 2006. The genomic rate of adaptive evolution. Trends Ecol Evol 21: 569-575.
-
(2006)
Trends Ecol Evol
, vol.21
, pp. 569-575
-
-
Eyre-Walker, A.1
-
23
-
-
34447546660
-
The distribution of fitness effects of new mutations
-
DOI 10.1038/nrg2146, PII NRG2146
-
Eyre-Walker A, Keightley PD. 2007. The distribution of fitness effects of new mutations. Nat Rev Genet 8: 610-618. (Pubitemid 47077280)
-
(2007)
Nature Reviews Genetics
, vol.8
, Issue.8
, pp. 610-618
-
-
Eyre-Walker, A.1
Keightley, P.D.2
-
24
-
-
0036900082
-
Quantifying the slightly deleterious mutation model of molecular evolution
-
Eyre-Walker A, Keightley PD, Smith NG, Gaffney D. 2002. Quantifying the slightly deleterious mutation model of molecular evolution. Mol Biol Evol 19: 2142-2149. (Pubitemid 35440450)
-
(2002)
Molecular Biology and Evolution
, vol.19
, Issue.12
, pp. 2142-2149
-
-
Eyre-Walker, A.1
Keightley, P.D.2
Smith, N.G.C.3
Gaffney, D.4
-
25
-
-
33745347447
-
The distribution of fitness effects of new deleterious amino acid mutations in humans
-
DOI 10.1534/genetics.106.057570
-
Eyre-Walker A, Woolfit M, Phelps T. 2006. The distribution of fitness effects of newdeleterious amino acid mutations in humans. Genetics 173: 891-900. (Pubitemid 43945904)
-
(2006)
Genetics
, vol.173
, Issue.2
, pp. 891-900
-
-
Eyre-Walker, A.1
Woolfit, M.2
Phelps, T.3
-
26
-
-
0041817568
-
Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies
-
Falush D, Stephens M, Pritchard JK. 2003. Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies. Genetics 164: 1567-1587. (Pubitemid 37102217)
-
(2003)
Genetics
, vol.164
, Issue.4
, pp. 1567-1587
-
-
Falush, D.1
Stephens, M.2
Pritchard, J.K.3
-
27
-
-
33645096818
-
Evidence for domesticated and wild populations of Sacchoromyces cerevisiae
-
Fay JC, Benavides JA. 2005. Evidence for domesticated and wild populations of Sacchoromyces cerevisiae. PLoS Genet 1: 66-71.
-
(2005)
PLoS Genet
, vol.1
, pp. 66-71
-
-
Fay, J.C.1
Benavides, J.A.2
-
28
-
-
0034924997
-
Positive and negative selection on the human genome
-
Fay JC, Wyckoff GJ, Wu CI. 2001. Positive and negative selection on the human genome. Genetics 158: 1227-1234. (Pubitemid 32667107)
-
(2001)
Genetics
, vol.158
, Issue.3
, pp. 1227-1234
-
-
Fay, J.C.1
Wyckoff, G.J.2
Wu, C.-I.3
-
29
-
-
0037186608
-
Testing the neutral theory of molecular evolution with genomic data from Drosophila
-
Fay JC, Wyckoff GJ, Wu CI. 2002. Testing the neutral theory of molecular evolution with genomic data from Drosophila. Nature 415: 1024-1026.
-
(2002)
Nature
, vol.415
, pp. 1024-1026
-
-
Fay, J.C.1
Wyckoff, G.J.2
Wu, C.I.3
-
30
-
-
45849116820
-
Selection on amino acid substitutions in Arabidopsis
-
DOI 10.1093/molbev/msn079
-
Foxe JP, Dar VU, Zheng H, Nordborg M, Gaut BS, Wright SI. 2008. Selection on amino acid substitutions in Arabidopsis. Mol Biol Evol 25: 1375-1383. (Pubitemid 351882009)
-
(2008)
Molecular Biology and Evolution
, vol.25
, Issue.7
, pp. 1375-1383
-
-
Foxe, J.P.1
Dar, V.-U.-N.2
Zheng, H.3
Nordborg, M.4
Gaut, B.S.5
Wright, S.I.6
-
31
-
-
2942678187
-
Evolutionary rate depends on number of protein-protein interactions independently of gene expression level
-
doi: 10.1186/1147-2148-4-13
-
Fraser HB, Hirsh AE. 2004. Evolutionary rate depends on number of protein-protein interactions independently of gene expression level. BMC Evol Biol 4: 13. doi: 10.1186/1147-2148-4-13.
-
(2004)
BMC Evol Biol
, vol.4
, pp. 13
-
-
Fraser, H.B.1
Hirsh, A.E.2
-
32
-
-
0037271322
-
Cross-species sequence comparisons: A review of methods and available resources
-
Frazer KA, Elnitski L, Church DM, Dubchak I, Hardison RC. 2003. Cross-species sequence comparisons: A review of methods and available resources. Genome Res 13: 1-12.
-
(2003)
Genome Res
, vol.13
, pp. 1-12
-
-
Frazer, K.A.1
Elnitski, L.2
Church, D.M.3
Dubchak, I.4
Hardison, R.C.5
-
33
-
-
0034633494
-
Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae
-
Gerton JL, DeRisi J, Shroff R, Lichten M, Brown PO, Petes TD. 2000. Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc Natl Acad Sci 97: 11383-11390.
-
(2000)
Proc Natl Acad Sci
, vol.97
, pp. 11383-11390
-
-
Gerton, J.L.1
DeRisi, J.2
Shroff, R.3
Lichten, M.4
Brown, P.O.5
Petes, T.D.6
-
35
-
-
49749083390
-
Positive and negative selection on noncoding DNA in Drosophila simulans
-
Haddrill PR, Bachtrog D, Andolfatto P. 2008. Positive and negative selection on noncoding DNA in Drosophila simulans. Mol Biol Evol 25: 1825-1834.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1825-1834
-
-
Haddrill, P.R.1
Bachtrog, D.2
Andolfatto, P.3
-
36
-
-
33745612972
-
Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison
-
Halligan DL, Keightley PD. 2006. Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison. Genome Res 16: 875-884.
-
(2006)
Genome Res
, vol.16
, pp. 875-884
-
-
Halligan, D.L.1
Keightley, P.D.2
-
37
-
-
1242296827
-
Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila
-
DOI 10.1101/gr.1329204
-
Halligan DL, Eyre-Walker A, Andolfatto P, Keightley PD. 2004. Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila. Genome Res 14: 273-279. (Pubitemid 38219840)
-
(2004)
Genome Research
, vol.14
, Issue.2
, pp. 273-279
-
-
Halligan, D.L.1
Eyre-Walker, A.2
Andolfatto, P.3
Keightley, P.D.4
-
38
-
-
0001935493
-
Gene genealogies and the coalescent process
-
Oxford University Press, Oxford, UK
-
Hudson RR. 1990. Gene genealogies and the coalescent process. In Oxford surveys in evolutionary biology, Vol. 1, pp. 1-14. Oxford University Press, Oxford, UK.
-
(1990)
Oxford Surveys in Evolutionary Biology
, vol.1
, pp. 1-14
-
-
Hudson, R.R.1
-
39
-
-
40849134461
-
Population genetics of polymorphism and divergence under fluctuating selection
-
DOI 10.1534/genetics.107.073361
-
Huerta-Sanchez E, Durrett R, Bustamante CD. 2008. Population genetics of polymorphism and divergence under fluctuating selection. Genetics 178: 325-337. (Pubitemid 351398750)
-
(2008)
Genetics
, vol.178
, Issue.1
, pp. 325-337
-
-
Huerta-Sanchez, E.1
Durrett, R.2
Bustamante, C.D.3
-
40
-
-
0034644576
-
Deleterious mutations and the evolution of sex
-
Keightley PD, Eyre-Walker A. 2000. Deleterious mutations and the evolution of sex. Science 290: 331-333.
-
(2000)
Science
, vol.290
, pp. 331-333
-
-
Keightley, P.D.1
Eyre-Walker, A.2
-
41
-
-
37249042614
-
Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies
-
DOI 10.1534/genetics.107.080663
-
Keightley PD, Eyre-Walker A. 2007. Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies. Genetics 177: 2251-2261. (Pubitemid 350277004)
-
(2007)
Genetics
, vol.177
, Issue.4
, pp. 2251-2261
-
-
Keightley, P.D.1
Eyre-Walker, A.2
-
42
-
-
0344824015
-
Functional constraints and frequency of deleterious mutations in noncoding DNA of rodents
-
Keightley PD, Gaffney DJ. 2003. Functional constraints and frequency of deleterious mutations in noncoding DNA of rodents. Proc Natl Acad Sci 100: 13402-13406.
-
(2003)
Proc Natl Acad Sci
, vol.100
, pp. 13402-13406
-
-
Keightley, P.D.1
Gaffney, D.J.2
-
43
-
-
0038349948
-
Sequencing and comparison of yeast species to identify genes and regulatory elements
-
Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES. 2003. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-254.
-
(2003)
Nature
, vol.423
, pp. 241-254
-
-
Kellis, M.1
Patterson, N.2
Endrizzi, M.3
Birren, B.4
Lander, E.S.5
-
45
-
-
0015132143
-
Pattern of neutral polymorphism in a geographically structured population
-
Kimura M, Maruyama T. 1971. Pattern of neutral polymorphism in a geographically structured population. Genet Res 18: 125-131.
-
(1971)
Genet Res
, vol.18
, pp. 125-131
-
-
Kimura, M.1
Maruyama, T.2
-
46
-
-
1542272747
-
Comparative genomics, minimal gene-sets and the last universal common ancestor
-
Koonin EV. 2003. Comparative genomics, minimal gene-sets and the last universal common ancestor. Nat Rev Microbiol 1: 127-136.
-
(2003)
Nat Rev Microbiol
, vol.1
, pp. 127-136
-
-
Koonin, E.V.1
-
47
-
-
33751235592
-
The spatial scale of genetic differentiation in a model organism: The wild yeast Saccharomyces paradoxus
-
Koufopanou V, Hughes J, Bell G, Burt A. 2006. The spatial scale of genetic differentiation in a model organism: The wild yeast Saccharomyces paradoxus. Philos Trans R Soc B-Biol Sci 361: 1941-1946.
-
(2006)
Philos Trans R Soc B-Biol Sci
, vol.361
, pp. 1941-1946
-
-
Koufopanou, V.1
Hughes, J.2
Bell, G.3
Burt, A.4
-
48
-
-
55449107183
-
Variations in stress sensitivity and genomic expression in diverse S. cerevisiae isolates
-
doi: 10.1371/journal.pgen.1000223
-
Kvitek DJ, Will JL, Gasch AP. 2008. Variations in stress sensitivity and genomic expression in diverse S. cerevisiae isolates. PLoS Genet 4: e1000223. doi: 10.1371/journal.pgen.1000223.
-
(2008)
PLoS Genet
, vol.4
-
-
Kvitek, D.J.1
Will, J.L.2
Gasch, A.P.3
-
49
-
-
34248192358
-
Bread, beer and wine: Saccharomyces cerevisiae diversity reflects human history
-
DOI 10.1111/j.1365-294X.2007.03266.x
-
Legras JL, Merdinoglu D, Cornuet JM, Karst F. 2007. Bread, beer and wine: Saccharomyces cerevisiae diversity reflects human history. Mol Ecol 16: 2091-2102. (Pubitemid 46718913)
-
(2007)
Molecular Ecology
, vol.16
, Issue.10
, pp. 2091-2102
-
-
Legras, J.-L.1
Merdinoglu, D.2
Cornuet, J.-M.3
Karst, F.4
-
50
-
-
0023074036
-
An evaluation of the molecular clock hypothesis using mammalian DNA sequences
-
Li WH, Tanimura M, Sharp PM. 1987. An evaluation of the molecular clock hypothesis using mammalian DNA sequences. J Mol Evol 25: 330-342.
-
(1987)
J Mol Evol
, vol.25
, pp. 330-342
-
-
Li, W.H.1
Tanimura, M.2
Sharp, P.M.3
-
51
-
-
33750437730
-
Sequence diversity, reproductive isolation and species concepts in saccharomyces
-
DOI 10.1534/genetics.106.062166
-
Liti G, Barton DB, Louis EJ. 2006. Sequence diversity, reproductive isolation and species concepts in Saccharomyces. Genetics 174: 839-850. (Pubitemid 44656472)
-
(2006)
Genetics
, vol.174
, Issue.2
, pp. 839-850
-
-
Liti, G.1
Barton, D.B.H.2
Louis, E.J.3
-
52
-
-
62649089109
-
Population genomics of domestic and wild yeasts
-
Liti G, Carter DM, Moses AM, Warringer J, Parts L, James SA, Davey RP, Roberts IN, Burt A, Koufopanou V, et al. 2009. Population genomics of domestic and wild yeasts. Nature 458: 337-341.
-
(2009)
Nature
, vol.458
, pp. 337-341
-
-
Liti, G.1
Carter, D.M.2
Moses, A.M.3
Warringer, J.4
Parts, L.5
James, S.A.6
Davey, R.P.7
Roberts, I.N.8
Burt, A.9
Koufopanou, V.10
-
53
-
-
33748649262
-
Inferring the distribution of mutational effects on fitness in Drosophila
-
DOI 10.1098/rsbl.2006.0481
-
Loewe L, Charlesworth B. 2006. Inferring the distribution of mutational effects on fitness in Drosophila. Biol Lett 2: 426-430. (Pubitemid 44387380)
-
(2006)
Biology Letters
, vol.2
, Issue.3
, pp. 426-430
-
-
Loewe, L.1
Charlesworth, B.2
-
56
-
-
0026428610
-
Adaptive protein evolution at the Adh locus in Drosophila
-
McDonald JH, Kreitman M. 1991. Adaptive protein evolution at the Adh locus in Drosophila. Nature 351: 652-654. (Pubitemid 21896661)
-
(1991)
Nature
, vol.351
, Issue.6328
, pp. 652-654
-
-
McDonald, J.H.1
Kreitman, M.2
-
57
-
-
38049075677
-
Universal patterns of purifying selection at noncoding positions in bacteria
-
Molina N, van Nimwegen E. 2008. Universal patterns of purifying selection at noncoding positions in bacteria. Genome Res 18: 148-160.
-
(2008)
Genome Res
, vol.18
, pp. 148-160
-
-
Molina, N.1
Van Nimwegen, E.2
-
58
-
-
0012088802
-
Population size and rate of evolution
-
doi: 10.1007/BFQ1653959
-
Ohta T. 1972. Population size and rate of evolution. J Mol Evol 1: 305. doi: 10.1007/BFQ1653959.
-
(1972)
J Mol Evol
, vol.1
, pp. 305
-
-
Ohta, T.1
-
59
-
-
0015722319
-
Slightly deleterious mutant substitutions in evolution
-
Ohta T. 1973. Slightly deleterious mutant substitutions in evolution. Nature 246: 96-98.
-
(1973)
Nature
, vol.246
, pp. 96-98
-
-
Ohta, T.1
-
60
-
-
0016404732
-
Mutational pressure as main cause of molecular evolution and polymorphism
-
Ohta T. 1974. Mutational pressure as main cause of molecular evolution and polymorphism. Nature 252: 351-354.
-
(1974)
Nature
, vol.252
, pp. 351-354
-
-
Ohta, T.1
-
62
-
-
0027443866
-
An examination of the generation-time effect on molecular evolution
-
Ohta T. 1993. An examination of the generation-time effect on molecular evolution. Proc Natl Acad Sci 90: 10676-10680.
-
(1993)
Proc Natl Acad Sci
, vol.90
, pp. 10676-10680
-
-
Ohta, T.1
-
63
-
-
0029583490
-
Variation in synonymous substitution rates among mammalian genes and the correlation between synonymous and nonsynonymous divergences
-
Ohta T, Ina Y. 1995. Variation in synonymous substitution rates among mammalian genes and the correlation between synonymous and nonsynonymous divergences. J Mol Evol 41: 717-720. (Pubitemid 26020048)
-
(1995)
Journal of Molecular Evolution
, vol.41
, Issue.6
, pp. 717-720
-
-
Ohta, T.1
Ina, Y.2
-
64
-
-
0041836283
-
Estimating the distribution of fitness effects from DNA sequence data: Implications for the molecular clock
-
Piganeau G, Eyre-Walker A. 2003. Estimating the distribution of fitness effects from DNA sequence data: Implications for the molecular clock. Proc Natl Acad Sci 100: 10335-10340.
-
(2003)
Proc Natl Acad Sci
, vol.100
, pp. 10335-10340
-
-
Piganeau, G.1
Eyre-Walker, A.2
-
65
-
-
84887212374
-
Evidence for variation in the effective population size of animal mitochondrial DNA
-
doi: 10.1371/journal.pone.0004396
-
Piganeau G, Eyre-Walker A. 2009. Evidence for variation in the effective population size of animal mitochondrial DNA. PLoS ONE 4: e4396. doi: 10.1371/journal.pone.0004396.
-
(2009)
PLoS ONE
, vol.4
-
-
Piganeau, G.1
Eyre-Walker, A.2
-
66
-
-
0034118493
-
Inference of population structure using multilocus genotype data
-
Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
-
(2000)
Genetics
, vol.155
, pp. 945-959
-
-
Pritchard, J.K.1
Stephens, M.2
Donnelly, P.3
-
67
-
-
33750452661
-
Widespread adaptive evolution of Drosophila genes with sex-biased expression
-
DOI 10.1534/genetics.106.058008
-
Proschel M, Zhang Z, Parsch J. 2006. Widespread adaptive evolution of Drosophila genes with sex-biased expression. Genetics 174: 893-900. (Pubitemid 44656476)
-
(2006)
Genetics
, vol.174
, Issue.2
, pp. 893-900
-
-
Proschel, M.1
Zhang, Z.2
Parsch, J.3
-
68
-
-
11244324849
-
Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes
-
DOI 10.1534/genetics.104.030866
-
Qin H, Wu WB, Comeron JM, Kreitman M, Li WH. 2004. Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes. Genetics 168: 2245-2260. (Pubitemid 40066358)
-
(2004)
Genetics
, vol.168
, Issue.4
, pp. 2245-2260
-
-
Qin, H.1
Wu, W.B.2
Comeron, J.M.3
Kreitman, M.4
Li, W.-H.5
-
69
-
-
0026460082
-
Population genetics of polymorphism and divergence
-
Sawyer SA, Hartl DL. 1992. Population genetics of polymorphism and divergence. Genetics 132: 1161-1176.
-
(1992)
Genetics
, vol.132
, pp. 1161-1176
-
-
Sawyer, S.A.1
Hartl, D.L.2
-
70
-
-
0023413802
-
Confidence interval for the number of selectively neutral amino acid polymorphisms
-
Sawyer SA, Dykhuizen DE, Hartl DL. 1987. Confidence interval for the number of selectively neutral amino acid polymorphisms. Proc Natl Acad Sci 84: 6225-6228.
-
(1987)
Proc Natl Acad Sci
, vol.84
, pp. 6225-6228
-
-
Sawyer, S.A.1
Dykhuizen, D.E.2
Hartl, D.L.3
-
71
-
-
0347380978
-
Bayesian analysis suggests that most amino acid replacements in Drosophila are driven by positive selection
-
Sawyer SA, Kulathinal RJ, Bustamante CD, Hartl DL. 2003. Bayesian analysis suggests that most amino acid replacements in Drosophila are driven by positive selection. J Mol Evol 57: S154-S164.
-
(2003)
J Mol Evol
, vol.57
-
-
Sawyer, S.A.1
Kulathinal, R.J.2
Bustamante, C.D.3
Hartl, D.L.4
-
72
-
-
0000742593
-
Bivariate gamma-random vectors
-
Schmeiser BW, Lal R. 1982. Bivariate gamma-random vectors. Oper Res 30: 355-374.
-
(1982)
Oper Res
, vol.30
, pp. 355-374
-
-
Schmeiser, B.W.1
Lal, R.2
-
73
-
-
0000992959
-
Plots of P-values to evaluate many tests simultaneously
-
Schweder T, Spjotvoll E. 1982. Plots of P-values to evaluate many tests simultaneously. Biometrika 69: 493-502.
-
(1982)
Biometrika
, vol.69
, pp. 493-502
-
-
Schweder, T.1
Spjotvoll, E.2
-
74
-
-
67651050074
-
Pervasive natural selection in the Drosophila genome?
-
doi: 10.1371/journal.pgen.1000495
-
Sella G, Petrov DA, Przeworski M, Andolfatto P. 2009. Pervasive natural selection in the Drosophila genome? PLoS Genet 5: e1000495. doi: 10.1371/journal.pgen.1000495.
-
(2009)
PLoS Genet
, vol.5
-
-
Sella, G.1
Petrov, D.A.2
Przeworski, M.3
Andolfatto, P.4
-
75
-
-
0023274170
-
The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias
-
Sharp PM, Li WH. 1987. The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias. Mol Biol Evol 4: 222-230.
-
(1987)
Mol Biol Evol
, vol.4
, pp. 222-230
-
-
Sharp, P.M.1
Li, W.H.2
-
76
-
-
0023046874
-
Codon usage in yeast: Cluster analysis clearly differentiates highly and lowly expressed genes
-
Sharp PM, Tuohy TM, Mosurski KR. 1986. Codon usage in yeast: Cluster analysis clearly differentiates highly and lowly expressed genes. Nucleic Acids Res 14: 5125-5143.
-
(1986)
Nucleic Acids Res
, vol.14
, pp. 5125-5143
-
-
Sharp, P.M.1
Tuohy, T.M.2
Mosurski, K.R.3
-
77
-
-
0023762645
-
Codon usage patterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity
-
Sharp PM, Cowe E, Higgins DG, Shields DC, Wolfe KH, Wright F. 1988. Codon usage patterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity. Nucleic Acids Res 16: 8207-8211.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 8207-8211
-
-
Sharp, P.M.1
Cowe, E.2
Higgins, D.G.3
Shields, D.C.4
Wolfe, K.H.5
Wright, F.6
-
78
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou MM, Rosenbloom K, Clawson H, Spieth J, Hillier LW, Richards S, et al. 2005. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res 15: 1034-1050.
-
(2005)
Genome Res
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
Bejerano, G.2
Pedersen, J.S.3
Hinrichs, A.S.4
Hou, M.M.5
Rosenbloom, K.6
Clawson, H.7
Spieth, J.8
Hillier, L.W.9
Richards, S.10
-
79
-
-
0037186564
-
Adaptive protein evolution in Drosophila
-
Smith NG, Eyre-Walker A. 2002. Adaptive protein evolution in Drosophila. Nature 415: 1022-1024.
-
(2002)
Nature
, vol.415
, pp. 1022-1024
-
-
Smith, N.G.1
Eyre-Walker, A.2
-
80
-
-
0036143446
-
Genomes in flux: The evolution of Archaeal and Proteobacterial gene content
-
DOI 10.1101/gr.176501
-
Snel B, Bork P, Huynen MA. 2002. Genomes in flux: The evolution of archaeal and proteobacterial gene content. Genome Res 12: 17-25. (Pubitemid 34065586)
-
(2002)
Genome Research
, vol.12
, Issue.1
, pp. 17-25
-
-
Snel, B.1
Bork, P.2
Huynen, M.A.3
-
81
-
-
0021066244
-
Evolutionary relationship of DNA sequences in finite populations
-
Tajima F. 1983. Evolutionary relationship of DNA sequences in finite populations. Genetics 105: 437-460. (Pubitemid 14247444)
-
(1983)
Genetics
, vol.105
, Issue.2
, pp. 437-460
-
-
Tajima, F.1
-
82
-
-
0029909631
-
Contingency tests of neutrality using intra/interspecific gene trees: The rejection of neutrality for the evolution of the mitochondrial cytochrome oxidase II gene in the hominoid primates
-
Templeton AR. 1996. Contingency tests of neutrality using intra/interspecific gene trees: The rejection of neutrality for the evolution of the mitochondrial cytochrome oxidase II gene in the hominoid primates. Genetics 144: 1263-1270.
-
(1996)
Genetics
, vol.144
, pp. 1263-1270
-
-
Templeton, A.R.1
-
83
-
-
0037277985
-
Polymorphism and divergence for island-model species
-
Wakeley J. 2003. Polymorphism and divergence for island-model species. Genetics 163: 411-420.
-
(2003)
Genetics
, vol.163
, pp. 411-420
-
-
Wakeley, J.1
-
84
-
-
17244367886
-
Functional genomic analysis of the rates of protein evolution
-
Wall DP, Hirsh AE, Fraser HB, Kumm J, Giaever G, Eisen MB, Feldman MW. 2005. Functional genomic analysis of the rates of protein evolution. Proc Natl Acad Sci 102: 5483-5488.
-
(2005)
Proc Natl Acad Sci
, vol.102
, pp. 5483-5488
-
-
Wall, D.P.1
Hirsh, A.E.2
Fraser, H.B.3
Kumm, J.4
Giaever, G.5
Eisen, M.B.6
Feldman, M.W.7
-
85
-
-
0016491430
-
On the number of segregating sites in genetical models without recombination
-
Watterson GA. 1975. On the number of segregating sites in genetical models without recombination. Theor Popul Biol 7: 256-276.
-
(1975)
Theor Popul Biol
, vol.7
, pp. 256-276
-
-
Watterson, G.A.1
-
86
-
-
33745352578
-
Estimating the genomewide rate of adaptive protein evolution in drosophila
-
DOI 10.1534/genetics.106.056911
-
Welch JJ. 2006. Estimating the genomewide rate of adaptive protein evolution in Drosophila. Genetics 173: 821-837. (Pubitemid 43945899)
-
(2006)
Genetics
, vol.173
, Issue.2
, pp. 821-837
-
-
Welch, J.J.1
-
87
-
-
5144231907
-
Population genetics of polymorphism and divergence for diploid selection models with arbitrary dominance
-
DOI 10.1534/genetics.103.024745
-
Williamson S, Fledel-Alon A, Bustamante CD. 2004. Population genetics of polymorphism and divergence for diploid selection models with arbitrary dominance. Genetics 168: 463-475. (Pubitemid 39346609)
-
(2004)
Genetics
, vol.168
, Issue.1
, pp. 463-475
-
-
Williamson, S.1
Fledel-Alon, A.2
Bustamante, C.D.3
-
88
-
-
20344380699
-
Simultaneous inference of selection and population growth from patterns of variation in the human genome
-
Williamson SH, Hernandez R, Fledel-Alon A, Zhu L, Nielsen R, Bustamante CD. 2005. Simultaneous inference of selection and population growth from patterns of variation in the human genome. Proc Natl Acad Sci 102: 7882-7887.
-
(2005)
Proc Natl Acad Sci
, vol.102
, pp. 7882-7887
-
-
Williamson, S.H.1
Hernandez, R.2
Fledel-Alon, A.3
Zhu, L.4
Nielsen, R.5
Bustamante, C.D.6
-
89
-
-
20044366725
-
Highly conserved non-coding sequences are associated with vertebrate development
-
Woolfe A, Goodson M, Goode DK, Snell P, McEwen GK, Vavouri T, Smith SF, North P, Callaway H, Kelly K, et al. 2005. Highly conserved non-coding sequences are associated with vertebrate development. PLoS Biol 3: 116-130.
-
(2005)
PLoS Biol
, vol.3
, pp. 116-130
-
-
Woolfe, A.1
Goodson, M.2
Goode, D.K.3
Snell, P.4
McEwen, G.K.5
Vavouri, T.6
Smith, S.F.7
North, P.8
Callaway, H.9
Kelly, K.10
-
90
-
-
67649118282
-
Effective population size and the rate and pattern of nucleotide substitutions
-
Woolfit M. 2009. Effective population size and the rate and pattern of nucleotide substitutions. Biol Lett 5: 417-420.
-
(2009)
Biol Lett
, vol.5
, pp. 417-420
-
-
Woolfit, M.1
-
91
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z. 1997. PAML: A program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 13: 555-556. (Pubitemid 27480216)
-
(1997)
Computer Applications in the Biosciences
, vol.13
, Issue.5
, pp. 555-556
-
-
Yang, Z.1
-
92
-
-
0033979433
-
Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models
-
Yang Z, Nielsen R. 2000. Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol Biol Evol 17: 32-43. (Pubitemid 30056990)
-
(2000)
Molecular Biology and Evolution
, vol.17
, Issue.1
, pp. 32-43
-
-
Yang, Z.1
Nielsen, R.2
-
93
-
-
45149106353
-
Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks
-
DOI 10.1038/ng.167, PII NG167
-
Zhu J, Zhang B, Smith EN, Drees B, Brem RB, Kruglyak L, Bumgarner RE, Schadt EE. 2008. Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat Genet 40: 854-861. (Pubitemid 351913653)
-
(2008)
Nature Genetics
, vol.40
, Issue.7
, pp. 854-861
-
-
Zhu, J.1
Zhang, B.2
Smith, E.N.3
Drees, B.4
Brem, R.B.5
Kruglyak, L.6
Bumgarner, R.E.7
Schadt, E.E.8
|