-
1
-
-
0017333825
-
Tandem genetic duplications in phage and bacteria
-
Anderson RP, Roth JR. 1977. Tandem genetic duplications in phage and bacteria. Annu Rev Microbiol. 31:473-505.
-
(1977)
Annu Rev Microbiol
, vol.31
, pp. 473-505
-
-
Anderson, R.P.1
Roth, J.R.2
-
2
-
-
45849086236
-
Origination of chimeric genes through DNA-level recombination
-
Volff J-N eds, Basel Switzerland, Karger. p
-
Arguello JR, Fan C, Wang W, Long M. 2007. Origination of chimeric genes through DNA-level recombination. Genome dynamics: protein and gene evolution, Volff J-N eds, Vol. 3. Basel (Switzerland): Karger. p. 131-146
-
(2007)
Genome dynamics: Protein and gene evolution
, vol.3
, pp. 131-146
-
-
Arguello, J.R.1
Fan, C.2
Wang, W.3
Long, M.4
-
3
-
-
34547667334
-
Phylogeny and evolution of the SERA multigene family in the Genus Plasmodium
-
Arisue N, Hirai M, Arai M, Matsuoka H, Horii T. 2007. Phylogeny and evolution of the SERA multigene family in the Genus Plasmodium. J Mol Evol. 65:82-91.
-
(2007)
J Mol Evol
, vol.65
, pp. 82-91
-
-
Arisue, N.1
Hirai, M.2
Arai, M.3
Matsuoka, H.4
Horii, T.5
-
4
-
-
35948940895
-
-
Begun DJ, Holloway AK, Stevens K, et al. (13 authors). 2007. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biol. 6:e310.
-
Begun DJ, Holloway AK, Stevens K, et al. (13 authors). 2007. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biol. 6:e310.
-
-
-
-
5
-
-
0036906987
-
Retroposed new genes out of the X in Drosophila
-
Betran E, Thornton K, Long M. 2002. Retroposed new genes out of the X in Drosophila. Genome Res. 12:1854-1859.
-
(2002)
Genome Res
, vol.12
, pp. 1854-1859
-
-
Betran, E.1
Thornton, K.2
Long, M.3
-
6
-
-
0031904230
-
Multiple duplications of yeast hexose transport genes in response to selection in a glucose-limited environment
-
Brown CJ, Todd K, Rosenzweig RF. 1998. Multiple duplications of yeast hexose transport genes in response to selection in a glucose-limited environment. Mol Biol Evol. 15:931-942.
-
(1998)
Mol Biol Evol
, vol.15
, pp. 931-942
-
-
Brown, C.J.1
Todd, K.2
Rosenzweig, R.F.3
-
7
-
-
33846634186
-
Evolution of secretin family GPCR members in the metazoa
-
Cardoso JC, Pinto VC, Vieira FA, Clark MS, Power DM. 2006. Evolution of secretin family GPCR members in the metazoa. BMC Evol Biol. 6:108.
-
(2006)
BMC Evol Biol
, vol.6
, pp. 108
-
-
Cardoso, J.C.1
Pinto, V.C.2
Vieira, F.A.3
Clark, M.S.4
Power, D.M.5
-
8
-
-
0141706827
-
Cell cycle-dependent and cell cycle-independent control of transcription by the Drosophila E2F/RB pathway
-
Dimova DK, Stevaux O, Frolov MV, Dyson NJ. 2003. Cell cycle-dependent and cell cycle-independent control of transcription by the Drosophila E2F/RB pathway. Genes Dev. 17:2308-2320.
-
(2003)
Genes Dev
, vol.17
, pp. 2308-2320
-
-
Dimova, D.K.1
Stevaux, O.2
Frolov, M.V.3
Dyson, N.J.4
-
9
-
-
30744464824
-
Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis
-
Duarte JM, Cui L, Wall PK, Zhang Q, Zhang X, Leebens-Mack J, Ma H, Altman N, DePamphilis CW. 2006. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol Biol Evol. 23:469-478.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 469-478
-
-
Duarte, J.M.1
Cui, L.2
Wall, P.K.3
Zhang, Q.4
Zhang, X.5
Leebens-Mack, J.6
Ma, H.7
Altman, N.8
DePamphilis, C.W.9
-
10
-
-
0042027896
-
Structural dynamics of eukaryotic chromosome evolution
-
Eichler E, Sankoff D. 2003. Structural dynamics of eukaryotic chromosome evolution. Science. 301:793-797.
-
(2003)
Science
, vol.301
, pp. 793-797
-
-
Eichler, E.1
Sankoff, D.2
-
11
-
-
1642475221
-
Extensive gene traffic on the mammalian X chromosome
-
Emerson JJ, Kaessmann H, Betran E, Long M. 2004. Extensive gene traffic on the mammalian X chromosome. Science. 303:537-540.
-
(2004)
Science
, vol.303
, pp. 537-540
-
-
Emerson, J.J.1
Kaessmann, H.2
Betran, E.3
Long, M.4
-
12
-
-
33846422742
-
A new retroposed gene in Drosophila heterochromatin detected by microarray-based comparative genomic hybridization
-
Fan C, Long M. 2007. A new retroposed gene in Drosophila heterochromatin detected by microarray-based comparative genomic hybridization. J Mol Evol. 64:272-283.
-
(2007)
J Mol Evol
, vol.64
, pp. 272-283
-
-
Fan, C.1
Long, M.2
-
13
-
-
0033911640
-
Hitchhiking under positive Darwinian Selection
-
Fay J, Wu C-I. 2000. Hitchhiking under positive Darwinian Selection. Genetics. 155:1405-1413.
-
(2000)
Genetics
, vol.155
, pp. 1405-1413
-
-
Fay, J.1
Wu, C.-I.2
-
14
-
-
0027453041
-
Statistical tests of neutrality of mutations
-
Fu Y, Li W-H. 1993. Statistical tests of neutrality of mutations. Genetics. 133:693-709.
-
(1993)
Genetics
, vol.133
, pp. 693-709
-
-
Fu, Y.1
Li, W.-H.2
-
15
-
-
0028168856
-
A codon-based model of nucleotide substitution for protein-coding DNA sequences
-
Goldman N, Yang Z. 1994. A codon-based model of nucleotide substitution for protein-coding DNA sequences. Mol Biol Evol. 11:725-736.
-
(1994)
Mol Biol Evol
, vol.11
, pp. 725-736
-
-
Goldman, N.1
Yang, Z.2
-
16
-
-
33845907665
-
A comparative analysis of numt evolution in human and chimpanzee
-
Hazkani Covo E, Graur D. 2007. A comparative analysis of numt evolution in human and chimpanzee. Mol Biol Evol. 24:13-18.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 13-18
-
-
Hazkani Covo, E.1
Graur, D.2
-
17
-
-
0141815478
-
Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
-
Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. 2003. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci USA. 100:11484-11489.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 11484-11489
-
-
Kent, W.J.1
Baertsch, R.2
Hinrichs, A.3
Miller, W.4
Haussler, D.5
-
18
-
-
1242316239
-
Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance genes
-
Leister D. 2004. Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance genes. Trends Genet. 20:116-122.
-
(2004)
Trends Genet
, vol.20
, pp. 116-122
-
-
Leister, D.1
-
19
-
-
33745585334
-
Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression
-
Levine MT, Jones CD, Kern AD, Lindfors HA, Begun DJ. 2006. Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression. Proc Natl Acad Sci USA. 103:9935-9939.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 9935-9939
-
-
Levine, M.T.1
Jones, C.D.2
Kern, A.D.3
Lindfors, H.A.4
Begun, D.J.5
-
20
-
-
33747087226
-
-
Li X, Duan X, Jiang H, et al. (13 coauthors). 2006. Genome-wide analysis of basic/helix-loop-helix transcription factor family in rice and Arabidopsis. Plant Physiol. 141:1167-1184.
-
Li X, Duan X, Jiang H, et al. (13 coauthors). 2006. Genome-wide analysis of basic/helix-loop-helix transcription factor family in rice and Arabidopsis. Plant Physiol. 141:1167-1184.
-
-
-
-
21
-
-
0242354129
-
The origin of new genes: Glimpses from the young and old
-
Long M, Betran E, Thornton K, Wang W. 2004. The origin of new genes: glimpses from the young and old. Nat Rev Genet. 4:865-875.
-
(2004)
Nat Rev Genet
, vol.4
, pp. 865-875
-
-
Long, M.1
Betran, E.2
Thornton, K.3
Wang, W.4
-
22
-
-
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.
-
(1991)
Nature
, vol.351
, pp. 652-654
-
-
McDonald, J.H.1
Kreitman, M.2
-
24
-
-
8644278829
-
Identification of alternative splicing regulators by RNA interference in Drosophila
-
Park JW, Parisky K, Celotto AM, Reenan RA, Graveley BR. 2004. Identification of alternative splicing regulators by RNA interference in Drosophila. Proc Natl Acad Sci USA. 101:15974-15979.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 15974-15979
-
-
Park, J.W.1
Parisky, K.2
Celotto, A.M.3
Reenan, R.A.4
Graveley, B.R.5
-
25
-
-
33748106981
-
The evolution of the novel Sdic gene cluster in Drosophila melanogaster
-
Ponce R, Hartl DL. 2006. The evolution of the novel Sdic gene cluster in Drosophila melanogaster. Gene. 376:174-183.
-
(2006)
Gene
, vol.376
, pp. 174-183
-
-
Ponce, R.1
Hartl, D.L.2
-
26
-
-
33847214241
-
Evolution after gene duplication: Models, mechanisms, sequences, systems, and organisms
-
Roth C, Rastogi S, Arvestad L, Dittmar K, Light S, Ekman D, Liberles DA. 2007. Evolution after gene duplication: models, mechanisms, sequences, systems, and organisms. J Exp Zoolog B Mol Dev Evol. 308:58-73.
-
(2007)
J Exp Zoolog B Mol Dev Evol
, vol.308
, pp. 58-73
-
-
Roth, C.1
Rastogi, S.2
Arvestad, L.3
Dittmar, K.4
Light, S.5
Ekman, D.6
Liberles, D.A.7
-
27
-
-
0347513220
-
DnaSP, DNA polymorphism analyses by the coalescent and other methods
-
Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics. 19:2496-2497.
-
(2003)
Bioinformatics
, vol.19
, pp. 2496-2497
-
-
Rozas, J.1
Sanchez-DelBarrio, J.C.2
Messeguer, X.3
Rozas, R.4
-
28
-
-
0034708444
-
-
Rubin G, Yandell MD, Wortman JR, et al. (50 co-authors). 2000. Comparative genomics of the eukaryotes. Science. 287:2204-2215.
-
Rubin G, Yandell MD, Wortman JR, et al. (50 co-authors). 2000. Comparative genomics of the eukaryotes. Science. 287:2204-2215.
-
-
-
-
29
-
-
33749563310
-
A roadmap of tandemly arrayed genes in the genomes of human, mouse, and rat
-
Shoja V, Zhang L. 2006. A roadmap of tandemly arrayed genes in the genomes of human, mouse, and rat. Mol Biol Evol. 23:2134-2141.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 2134-2141
-
-
Shoja, V.1
Zhang, L.2
-
30
-
-
0027218485
-
Regulation and mechanisms of mammalian gene amplification
-
Stark GR. 1993. Regulation and mechanisms of mammalian gene amplification. Adv Cancer Res. 61:87-113.
-
(1993)
Adv Cancer Res
, vol.61
, pp. 87-113
-
-
Stark, G.R.1
-
31
-
-
45849122943
-
-
Swofford D. 2002. PAUP: phylogenetic analysis using parsimony. Version 4.0b10. Sunderland MA, Sinauer Associates
-
Swofford D. 2002. PAUP: phylogenetic analysis using parsimony. Version 4.0b10. Sunderland (MA): Sinauer Associates.
-
-
-
-
32
-
-
0024313579
-
Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism
-
Tajima F. 1989. Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123:585-595.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
Tajima, F.1
-
33
-
-
0031574072
-
The Clustal X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson J, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24:4876-4882.
-
(1997)
Nucleic Acids Res
, vol.24
, pp. 4876-4882
-
-
Thompson, J.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
34
-
-
35548940653
-
The neutral coalescent process for recent gene duplications and copy-number variants
-
Thornton KR. 2007. The neutral coalescent process for recent gene duplications and copy-number variants. Genetics. 177:987-1000.
-
(2007)
Genetics
, vol.177
, pp. 987-1000
-
-
Thornton, K.R.1
-
35
-
-
0036272537
-
Rapid divergence of gene duplicates on the Drosophila melanogaster X Chromosome
-
Thornton KR, Long M. 2002. Rapid divergence of gene duplicates on the Drosophila melanogaster X Chromosome. Mol Biol Evol. 19:918-925.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 918-925
-
-
Thornton, K.R.1
Long, M.2
-
36
-
-
12344256065
-
Excess of amino acid substitutions relative to polymorphism between X-linked duplications in Drosophila melanogaster
-
Thornton KR, Long M. 2005. Excess of amino acid substitutions relative to polymorphism between X-linked duplications in Drosophila melanogaster. Mol Biol Evol. 22:273-284.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 273-284
-
-
Thornton, K.R.1
Long, M.2
-
37
-
-
33748760611
-
-
Tuskan G, DiFazio S, Jansson S, et al. (110 co-authors). 2006. The genomeof black cottonwood, Populus trichocarpa (Torr.& Gray). Science. 313:1596-1604.
-
Tuskan G, DiFazio S, Jansson S, et al. (110 co-authors). 2006. The genomeof black cottonwood, Populus trichocarpa (Torr.& Gray). Science. 313:1596-1604.
-
-
-
-
38
-
-
0037007062
-
Origin of sphinx, a young chimeric RNA gene in Drosophila melanogaster
-
Wang W, Brunet FG, Nevo E, Long M. 2002. Origin of sphinx, a young chimeric RNA gene in Drosophila melanogaster. Proc Natl Acad Sci USA. 99:4448-4453.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 4448-4453
-
-
Wang, W.1
Brunet, F.G.2
Nevo, E.3
Long, M.4
-
39
-
-
0016491430
-
On the number of segregating sites in genetical models without recombination
-
Watterson G. 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.1
-
40
-
-
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.
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
41
-
-
0031897964
-
Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution
-
Yang Z. 1998. Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution. Mol Biol Evol. 15:568-573.
-
(1998)
Mol Biol Evol
, vol.15
, pp. 568-573
-
-
Yang, Z.1
-
42
-
-
34547803197
-
PAML 4: Phylogenetic analysis by maximum likelihood
-
Yang Z. 2007. PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol. 24:1586-1591.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1586-1591
-
-
Yang, Z.1
|