-
1
-
-
0016669094
-
Evolution at two levels in humans and chimpanzees
-
King MC, Wilson AC. 1975. Evolution at two levels in humans and chimpanzees. Science 188: 107.
-
(1975)
Science
, vol.188
, pp. 107
-
-
King, M.C.1
Wilson, A.C.2
-
2
-
-
0035236536
-
The adaptive evolution database (TAED)
-
Liberles D, Schreiber D, Govindarajan S, Chamberlin S, et al. 2001. The adaptive evolution database (TAED). Genome Biol 2: 28.
-
(2001)
Genome Biol
, vol.2
, pp. 28
-
-
Liberles, D.1
Schreiber, D.2
Govindarajan, S.3
Chamberlin, S.4
-
3
-
-
34548694067
-
Adaptive variation in beach mice produced by two interacting pigmentation genes
-
Steiner CC, Weber JN, Hoekstra HE. 2007. Adaptive variation in beach mice produced by two interacting pigmentation genes. PLoS Biol 5: e219.
-
(2007)
PLoS Biol
, vol.5
-
-
Steiner, C.C.1
Weber, J.N.2
Hoekstra, H.E.3
-
4
-
-
13444304173
-
Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila
-
Gompel N, Prud'homme B, Wittkopp PJ, Kassner VA, et al. 2005. Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila Nature 433: 481-7.
-
(2005)
Nature
, vol.433
, pp. 481-487
-
-
Gompel, N.1
Prud'homme, B.2
Wittkopp, P.J.3
Kassner, V.A.4
-
5
-
-
36849071407
-
cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebacks and humans
-
Miller CT, Beleza S, Pollen AA, Schluter D, et al. 2007. cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebacks and humans. Cell 131: 1179-89.
-
(2007)
Cell
, vol.131
, pp. 1179-1189
-
-
Miller, C.T.1
Beleza, S.2
Pollen, A.A.3
Schluter, D.4
-
6
-
-
1942455815
-
Genetic and developmental basis of evolutionary pelvic reduction in three spine sticklebacks
-
Shapiro MD, Marks ME, Peichel CL, Blackman BK, et al. 2004. Genetic and developmental basis of evolutionary pelvic reduction in three spine sticklebacks. Nature 428: 717-23.
-
(2004)
Nature
, vol.428
, pp. 717-723
-
-
Shapiro, M.D.1
Marks, M.E.2
Peichel, C.L.3
Blackman, B.K.4
-
8
-
-
34247855863
-
The locus of evolution: Evodevo and the genetics of adaptation
-
Hoekstra HE, Coyne JA. 2007. The locus of evolution: Evodevo and the genetics of adaptation. Evolution 61: 995-1016.
-
(2007)
Evolution
, vol.61
, pp. 995-1016
-
-
Hoekstra, H.E.1
Coyne, J.A.2
-
9
-
-
20144371089
-
Widespread parallel evolution in sticklebacks by repeated fixation of Ectodysplasin alleles
-
Colosimo PF, Hosemann KE, Balabhadra S, Villarreal G, Jr, et al. 2005. Widespread parallel evolution in sticklebacks by repeated fixation of Ectodysplasin alleles. Science 307: 1928-33.
-
(2005)
Science
, vol.307
, pp. 1928-1933
-
-
Colosimo, P.F.1
Hosemann, K.E.2
Balabhadra, S.3
Villarreal Jr, G.4
-
11
-
-
27744499137
-
A mutation accumulation assay reveals a broad capacity for rapid evolution of gene expression
-
Rifkin SA, Houle D, Kim J, White KP. 2005. A mutation accumulation assay reveals a broad capacity for rapid evolution of gene expression. Nature 438: 220.
-
(2005)
Nature
, vol.438
, pp. 220
-
-
Rifkin, S.A.1
Houle, D.2
Kim, J.3
White, K.P.4
-
12
-
-
18144405733
-
The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans
-
Denver DR, Morris K, Streelman JT, Kim SK, et al. 2005. The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans Nat Genet 37: 544.
-
(2005)
Nat Genet
, vol.37
, pp. 544
-
-
Denver, D.R.1
Morris, K.2
Streelman, J.T.3
Kim, S.K.4
-
13
-
-
0031927739
-
Testing natural selection vs. genetic drift in phenotypic evolution using quantitative trait locus data
-
Orr HA. 1998. Testing natural selection vs. genetic drift in phenotypic evolution using quantitative trait locus data. Genetics 149: 2099-104.
-
(1998)
Genetics
, vol.149
, pp. 2099-2104
-
-
Orr, H.A.1
-
14
-
-
79953744169
-
Systematic detection of polygenic cis-regulatory evolution
-
Fraser HB, Babak T, Tsang J, Zhou Y, et al. 2011. Systematic detection of polygenic cis-regulatory evolution. PloS Genet 7: e1002023.
-
(2011)
PloS Genet
, vol.7
-
-
Fraser, H.B.1
Babak, T.2
Tsang, J.3
Zhou, Y.4
-
15
-
-
65549086559
-
A yeast hybrid provides insight into the evolution of gene expression regulation
-
Tirosh I, Reikhav S, Levy AA, Barkai N. 2009. A yeast hybrid provides insight into the evolution of gene expression regulation. Science 324: 659-62.
-
(2009)
Science
, vol.324
, pp. 659-662
-
-
Tirosh, I.1
Reikhav, S.2
Levy, A.A.3
Barkai, N.4
-
16
-
-
77649242421
-
Evidence for widespread adaptive evolution of gene expression in budding yeast
-
Fraser HB, Moses A, Schadt EE. 2010. Evidence for widespread adaptive evolution of gene expression in budding yeast. Proc Natl Acad Sci USA 107: 2977-82.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 2977-2982
-
-
Fraser, H.B.1
Moses, A.2
Schadt, E.E.3
-
17
-
-
77950388941
-
Polygenic and directional regulatory evolution across pathways in Saccharomyces
-
Bullard JH, Mostovoy Y, Dudoit S, Brem RB. 2010. Polygenic and directional regulatory evolution across pathways in Saccharomyces Proc Natl Acad Sci USA 107: 5058-63.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 5058-5063
-
-
Bullard, J.H.1
Mostovoy, Y.2
Dudoit, S.3
Brem, R.B.4
-
19
-
-
0242609180
-
Sequence divergence, functional constraint, and selection in protein evolution
-
Fay JC, Wu CI. 2003. Sequence divergence, functional constraint, and selection in protein evolution. Annu Rev Genomics Hum Genet 4: 213-35.
-
(2003)
Annu Rev Genomics Hum Genet
, vol.4
, pp. 213-235
-
-
Fay, J.C.1
Wu, C.I.2
-
20
-
-
22144447840
-
Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees
-
Khaitovich P, Hellmann I, Enard W, Nowick K, et al. 2005. Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees. Science 309: 1850-4.
-
(2005)
Science
, vol.309
, pp. 1850-1854
-
-
Khaitovich, P.1
Hellmann, I.2
Enard, W.3
Nowick, K.4
-
21
-
-
33644855479
-
Expression profiling in primates reveals a rapid evolution of human transcription factors
-
Gilad Y, Oshlack A, Smyth GK, Speed TP, et al. 2006. Expression profiling in primates reveals a rapid evolution of human transcription factors. Nature 440: 242-5.
-
(2006)
Nature
, vol.440
, pp. 242-245
-
-
Gilad, Y.1
Oshlack, A.2
Smyth, G.K.3
Speed, T.P.4
-
22
-
-
72449210454
-
Detecting positive selection in the budding yeast genome
-
Li YD, Liang H, Gu Z, Lin Z, et al. 2009. Detecting positive selection in the budding yeast genome. J Evol Biol 22: 2430-7.
-
(2009)
J Evol Biol
, vol.22
, pp. 2430-2437
-
-
Li, Y.D.1
Liang, H.2
Gu, Z.3
Lin, Z.4
-
23
-
-
12844285611
-
Elevated evolutionary rates in the laboratory strain of Saccharomyces cerevisiae
-
Gu Z, David L, Petrov D, Jones T, et al. 2005. Elevated evolutionary rates in the laboratory strain of Saccharomyces cerevisiae Proc Natl Acad Sci USA 102: 1092-7.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 1092-1097
-
-
Gu, Z.1
David, L.2
Petrov, D.3
Jones, T.4
-
24
-
-
50849102293
-
A catalog of neutral and deleterious polymorphism in yeast
-
Doniger SW, Kim HS, Swain D, Corcuera D, et al. 2008. A catalog of neutral and deleterious polymorphism in yeast. PLoS Genet 4: e1000183.
-
(2008)
PLoS Genet
, vol.4
-
-
Doniger, S.W.1
Kim, H.S.2
Swain, D.3
Corcuera, D.4
-
25
-
-
0038349948
-
Sequencing and comparison of yeast species to identify genes and regulatory elements
-
Kellis M, Patterson N, Endrizzi M, Birren B, et al. 2003. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-54.
-
(2003)
Nature
, vol.423
, pp. 241-254
-
-
Kellis, M.1
Patterson, N.2
Endrizzi, M.3
Birren, B.4
-
26
-
-
33845227935
-
Positive selection of yeast nonhomologous end-joining genes and a retrotransposon conflict hypothesis
-
Sawyer SL, Malik HS. 2006. Positive selection of yeast nonhomologous end-joining genes and a retrotransposon conflict hypothesis. Proc Natl Acad Sci USA 103: 17614-9.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17614-17619
-
-
Sawyer, S.L.1
Malik, H.S.2
-
27
-
-
62649089109
-
Population genomics of domestic and wild yeasts
-
Liti G, Carter DM, Moses AM, Warringer J, et al. 2009. Population genomics of domestic and wild yeasts. Nature 458: 337-41.
-
(2009)
Nature
, vol.458
, pp. 337-341
-
-
Liti, G.1
Carter, D.M.2
Moses, A.M.3
Warringer, J.4
-
28
-
-
13144257707
-
The genetic theory of adaptation: a brief history
-
Orr HA. 2005. The genetic theory of adaptation: a brief history. Nat Rev Genet 6: 119-27.
-
(2005)
Nat Rev Genet
, vol.6
, pp. 119-127
-
-
Orr, H.A.1
-
30
-
-
33750932315
-
Coevolution, modularity and human disease
-
Fraser HB. 2006. Coevolution, modularity and human disease. Curr Opin Genet Dev 16: 637-44.
-
(2006)
Curr Opin Genet Dev
, vol.16
, pp. 637-644
-
-
Fraser, H.B.1
-
31
-
-
13444306165
-
The landscape of genetic complexity across 5,700 gene expression traits in yeast
-
Brem RB, Kruglyak L. 2005. The landscape of genetic complexity across 5, 700 gene expression traits in yeast. Proc Natl Acad Sci USA 102: 1572-7.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 1572-1577
-
-
Brem, R.B.1
Kruglyak, L.2
-
32
-
-
33645666942
-
Darwinian evolution can follow only very few mutational paths to fitter proteins
-
Weinreich DM, Delaney NF, Depristo MA, Hartl DL. 2006. Darwinian evolution can follow only very few mutational paths to fitter proteins. Science 312: 111-4.
-
(2006)
Science
, vol.312
, pp. 111-114
-
-
Weinreich, D.M.1
Delaney, N.F.2
Depristo, M.A.3
Hartl, D.L.4
-
33
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson DS, Mortazavi A, Myers RM, Wold B. 2007. Genome-wide mapping of in vivo protein-DNA interactions. Science 316: 1497-502.
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
34
-
-
63849308888
-
Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
-
Hesselberth JR, Chen X, Zhang Z, Sabo PJ, et al. 2009. Global mapping of protein-DNA interactions in vivo by digital genomic footprinting. Nat Methods 6: 283-9.
-
(2009)
Nat Methods
, vol.6
, pp. 283-289
-
-
Hesselberth, J.R.1
Chen, X.2
Zhang, Z.3
Sabo, P.J.4
-
35
-
-
56549105330
-
HITS-CLIP yields genome-wide insights into brain alternative RNA processing
-
Licatalosi DD, Mele A, Fak JJ, Ule J, et al. 2008. HITS-CLIP yields genome-wide insights into brain alternative RNA processing. Nature 456: 464-9.
-
(2008)
Nature
, vol.456
, pp. 464-469
-
-
Licatalosi, D.D.1
Mele, A.2
Fak, J.J.3
Ule, J.4
-
36
-
-
77952208125
-
Contrasting genetic paths to morphological and physiological evolution
-
Liao BY, Weng MP, Zhang J. 2010. Contrasting genetic paths to morphological and physiological evolution. Proc Natl Acad Sci USA 107: 7353-8.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 7353-7358
-
-
Liao, B.Y.1
Weng, M.P.2
Zhang, J.3
-
37
-
-
0034612214
-
Decoupled evolution of coding region and mRNA expression patterns after gene duplication: implications for the neutralist-selectionist debate
-
Wagner A. 2000. Decoupled evolution of coding region and mRNA expression patterns after gene duplication: implications for the neutralist-selectionist debate. Proc Natl Acad Sci USA 97: 6579-84.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 6579-6584
-
-
Wagner, A.1
-
38
-
-
43249129715
-
Gene-environment interaction in yeast gene expression
-
Smith EN, Kruglyak L. 2008. Gene-environment interaction in yeast gene expression. PLoS Biol 6: e83.
-
(2008)
PLoS Biol
, vol.6
-
-
Smith, E.N.1
Kruglyak, L.2
-
39
-
-
78650344876
-
Intercalation of a new tier of transcription regulation into an ancient circuit
-
Booth LN, Tuch BB, Johnson AD. 2010. Intercalation of a new tier of transcription regulation into an ancient circuit. Nature 468: 959-63.
-
(2010)
Nature
, vol.468
, pp. 959-963
-
-
Booth, L.N.1
Tuch, B.B.2
Johnson, A.D.3
-
40
-
-
23244467882
-
Rewiring of the yeast transcriptional network through the evolution of motif usage
-
Ihmels J, Bergmann S, Gerami-Nejad M, Yanai I, et al. 2005. Rewiring of the yeast transcriptional network through the evolution of motif usage. Science 309: 938-40.
-
(2005)
Science
, vol.309
, pp. 938-940
-
-
Ihmels, J.1
Bergmann, S.2
Gerami-Nejad, M.3
Yanai, I.4
-
41
-
-
42249098422
-
Evolvability and hierarchy in rewired bacterial gene networks
-
Isalan M, Lemerle C, Michalodimitrakis K, Horn C, et al. 2008. Evolvability and hierarchy in rewired bacterial gene networks. Nature 452: 840-5.
-
(2008)
Nature
, vol.452
, pp. 840-845
-
-
Isalan, M.1
Lemerle, C.2
Michalodimitrakis, K.3
Horn, C.4
-
42
-
-
77956530755
-
Evolution of transcription networks-lessons from yeasts
-
Li H, Johnson AD. 2010. Evolution of transcription networks-lessons from yeasts. Curr Biol 20: R746-53.
-
(2010)
Curr Biol
, vol.20
-
-
Li, H.1
Johnson, A.D.2
-
43
-
-
0020402387
-
Exaptation-a missing term in the science of form
-
Gould SJ, Vrba ES. 1982. Exaptation-a missing term in the science of form. Paleobiology 8: 4-15.
-
(1982)
Paleobiology
, vol.8
, pp. 4-15
-
-
Gould, S.J.1
Vrba, E.S.2
-
44
-
-
54249099196
-
Species-specific transcription in mice carrying human chromosome 21
-
Wilson MD, Barbosa-Morais NL, Schmidt D, Conboy CM, et al. 2008. Species-specific transcription in mice carrying human chromosome 21. Science 322: 434-8.
-
(2008)
Science
, vol.322
, pp. 434-438
-
-
Wilson, M.D.1
Barbosa-Morais, N.L.2
Schmidt, D.3
Conboy, C.M.4
-
45
-
-
77951610155
-
Genetic analysis of variation in transcription factor binding in yeast
-
Zheng W, Zhao H, Mancera E, Steinmetz LM, et al. 2010. Genetic analysis of variation in transcription factor binding in yeast. Nature 464: 1187-91.
-
(2010)
Nature
, vol.464
, pp. 1187-1191
-
-
Zheng, W.1
Zhao, H.2
Mancera, E.3
Steinmetz, L.M.4
-
46
-
-
73649136130
-
Statistical tests for natural selection on regulatory regions based on thestrength of transcription factor binding sites
-
Moses AM. 2009. Statistical tests for natural selection on regulatory regions based on thestrength of transcription factor binding sites. BMC Evol Biol 9: 286.
-
(2009)
BMC Evol Biol
, vol.9
, pp. 286
-
-
Moses, A.M.1
-
48
-
-
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.
-
(1991)
Nature
, vol.351
, pp. 652
-
-
McDonald, J.H.1
Kreitman, M.2
-
50
-
-
0024313579
-
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
-
Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-95.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
Tajima, F.1
-
51
-
-
0033911640
-
Hitchhiking under positive Darwinian selection
-
Fay JC, Wu CI. 2000. Hitchhiking under positive Darwinian selection. Genetics 155: 1405-13.
-
(2000)
Genetics
, vol.155
, pp. 1405-1413
-
-
Fay, J.C.1
Wu, C.I.2
-
52
-
-
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.
-
(2002)
Genetics
, vol.162
, pp. 2017
-
-
Eyre-Walker, A.1
-
53
-
-
34748817463
-
Looking for Darwin in all the wrong places: the misguided quest for positive selection at the nucleotide sequence level
-
Hughes AL. 2007. Looking for Darwin in all the wrong places: the misguided quest for positive selection at the nucleotide sequence level. Heredity 99: 364-73.
-
(2007)
Heredity
, vol.99
, pp. 364-373
-
-
Hughes, A.L.1
-
55
-
-
44649184071
-
Non-adaptive explanations for signatures of partial selective sweeps in Drosophila
-
Macpherson JM, González J, Witten DM, Davis JC, et al. 2008. Non-adaptive explanations for signatures of partial selective sweeps in Drosophila Mol Biol Evol 25: 1025.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1025
-
-
Macpherson, J.M.1
González, J.2
Witten, D.M.3
Davis, J.C.4
-
56
-
-
33847057226
-
The evolutionary significance of cis-regulatory mutations
-
Wray GA. 2007. The evolutionary significance of cis-regulatory mutations. Nat Rev Genet 8: 206-16.
-
(2007)
Nat Rev Genet
, vol.8
, pp. 206-216
-
-
Wray, G.A.1
-
57
-
-
33748675254
-
An RNA gene expressed during cortical development evolved rapidly in humans
-
Pollard KS, Salama SR, Lambert N, Lambot MA, et al. 2006. An RNA gene expressed during cortical development evolved rapidly in humans. Nature 443: 167-72.
-
(2006)
Nature
, vol.443
, pp. 167-172
-
-
Pollard, K.S.1
Salama, S.R.2
Lambert, N.3
Lambot, M.A.4
-
58
-
-
34548346860
-
Promoter regions of many neural- and nutrition-related genes have experienced positive selection during human evolution
-
Haygood R, Fedrigo O, Hanson B, Yokoyama KD, et al. 2007. Promoter regions of many neural- and nutrition-related genes have experienced positive selection during human evolution. Nat Genet 39: 1140-4.
-
(2007)
Nat Genet
, vol.39
, pp. 1140-1144
-
-
Haygood, R.1
Fedrigo, O.2
Hanson, B.3
Yokoyama, K.D.4
-
59
-
-
33750737061
-
Accelerated evolution of conserved noncoding sequences in humans
-
Prabhakar S, Noonan JP, Pääbo S, Rubin EM. 2006. Accelerated evolution of conserved noncoding sequences in humans. Science 314: 786.
-
(2006)
Science
, vol.314
, pp. 786
-
-
Prabhakar, S.1
Noonan, J.P.2
Pääbo, S.3
Rubin, E.M.4
-
60
-
-
27144491328
-
Adaptive evolution of non-coding DNA in Drosophila
-
Andolfatto P. 2005. Adaptive evolution of non-coding DNA in Drosophila Nature 437: 1149-52.
-
(2005)
Nature
, vol.437
, pp. 1149-1152
-
-
Andolfatto, P.1
-
61
-
-
34248641119
-
Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution
-
Galtier N, Duret L. 2007. Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution. Trends Genet 23: 273-7.
-
(2007)
Trends Genet
, vol.23
, pp. 273-277
-
-
Galtier, N.1
Duret, L.2
-
62
-
-
34047200066
-
Live hot, die young: transmission distortion in recombination hotspots
-
Coop G, Myers SR. 2007. Live hot, die young: transmission distortion in recombination hotspots. PLoS Genet 3: e35.
-
(2007)
PLoS Genet
, vol.3
-
-
Coop, G.1
Myers, S.R.2
-
63
-
-
71849118573
-
High-resolution analysis of DNA regulatory elements by synthetic saturation mutagenesis
-
Patwardhan RP, Lee C, Litvin O, Young DL, et al. 2009. High-resolution analysis of DNA regulatory elements by synthetic saturation mutagenesis. Nat Biotechnol 27: 1173.
-
(2009)
Nat Biotechnol
, vol.27
, pp. 1173
-
-
Patwardhan, R.P.1
Lee, C.2
Litvin, O.3
Young, D.L.4
-
64
-
-
56349112904
-
Global survey of genomic imprinting by transcriptome sequencing
-
Babak T, Deveale B, Armour C, Raymond C, et al. 2008. Global survey of genomic imprinting by transcriptome sequencing. Curr Biol 18: 1735-41.
-
(2008)
Curr Biol
, vol.18
, pp. 1735-1741
-
-
Babak, T.1
Deveale, B.2
Armour, C.3
Raymond, C.4
|