-
1
-
-
75549087305
-
The evolution of gene duplications: Classifying and distinguishing between models
-
20051986
-
The evolution of gene duplications: classifying and distinguishing between models. Innan H, Kondrashov F, Nat Rev Genet 2010 11 97 108 20051986
-
(2010)
Nat Rev Genet
, vol.11
, pp. 97-108
-
-
Innan, H.1
Kondrashov, F.2
-
2
-
-
0033972072
-
The probability of duplicate gene preservation by subfunctionalization
-
10629003
-
The probability of duplicate gene preservation by subfunctionalization. Lynch M, Force A, Genetics 2000 154 459 473 10629003
-
(2000)
Genetics
, vol.154
, pp. 459-473
-
-
Lynch, M.1
Force, A.2
-
4
-
-
10944230777
-
DUPLICATION and DIVERGENCE: The evolution of new genes and old ideas
-
10.1146/annurev.genet.38.072902.092831 15568988
-
DUPLICATION AND DIVERGENCE: The evolution of new genes and old ideas. Taylor JS, Raes J, Annu Rev Genet 2004 38 615 643 10.1146/annurev.genet.38. 072902.092831 15568988
-
(2004)
Annu Rev Genet
, vol.38
, pp. 615-643
-
-
Taylor, J.S.1
Raes, J.2
-
5
-
-
14144255920
-
Rapid evolution of expression and regulatory divergences after yeast gene duplication
-
10.1073/pnas.0409186102 15647348
-
Rapid evolution of expression and regulatory divergences after yeast gene duplication. Gu X, Zhang Z, Huang W, Proc Natl Acad Sci U S A 2005 102 707 712 10.1073/pnas.0409186102 15647348
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 707-712
-
-
Gu, X.1
Zhang, Z.2
Huang, W.3
-
6
-
-
35848954287
-
The role of cis-regulatory motifs and genetical control of expression in the divergence of yeast duplicate genes
-
10.1093/molbev/msm188 17846103
-
The role of cis-regulatory motifs and genetical control of expression in the divergence of yeast duplicate genes. Leach LJ, Zhang Z, Lu C, Kearsey MJ, Luo Z, Mol Biol Evol 2007 24 2556 2565 10.1093/molbev/msm188 17846103
-
(2007)
Mol Biol Evol
, vol.24
, pp. 2556-2565
-
-
Leach, L.J.1
Zhang, Z.2
Lu, C.3
Kearsey, M.J.4
Luo, Z.5
-
7
-
-
0041704531
-
Evolution of cis-regulatory elements in duplicated genes of yeast
-
10.1016/S0168-9525(03)00174-4 12902158
-
Evolution of cis-regulatory elements in duplicated genes of yeast. Papp B, Pal C, Hurst L, Trends Genet 2003 19 417 422 10.1016/S0168-9525(03)00174-4 12902158
-
(2003)
Trends Genet
, vol.19
, pp. 417-422
-
-
Papp, B.1
Pal, C.2
Hurst, L.3
-
8
-
-
4143118944
-
How much expression divergence after yeast gene duplication could be explained by regulatory motif evolution?
-
10.1016/j.tig.2004.07.006 15313547
-
How much expression divergence after yeast gene duplication could be explained by regulatory motif evolution? Zhang Z, Gu J, Gu X, Trends Genet 2004 20 403 407 10.1016/j.tig.2004.07.006 15313547
-
(2004)
Trends Genet
, vol.20
, pp. 403-407
-
-
Zhang, Z.1
Gu, J.2
Gu, X.3
-
9
-
-
70350341133
-
Uncovering genetic regulatory network divergence between duplicate genes using yeast eQTL landscape
-
10.1002/jez.b.21290
-
Uncovering genetic regulatory network divergence between duplicate genes using yeast eQTL landscape. Zou Y, Su Z, Yang J, Zeng Y, Gu X, J Exp Zool B Mol Dev Evol 2009 312B 722 733 10.1002/jez.b.21290
-
(2009)
J Exp Zool B Mol Dev Evol
, vol.312
, pp. 722-733
-
-
Zou, Y.1
Su, Z.2
Yang, J.3
Zeng, Y.4
Gu, X.5
-
10
-
-
80053215814
-
Predominant gain of promoter TATA box after gene duplication associated with stress responses
-
10.1093/molbev/msr116 21515810
-
Predominant gain of promoter TATA box after gene duplication associated with stress responses. Zou YY, Huang W, Gu ZL, Gu X, Mol Biol Evol 2011 28 2893 2904 10.1093/molbev/msr116 21515810
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2893-2904
-
-
Zou, Y.Y.1
Huang, W.2
Gu, Z.L.3
Gu, X.4
-
11
-
-
29644435144
-
Epigenetics and plant evolution
-
10.1111/j.1469-8137.2005.01491.x 16159323
-
Epigenetics and plant evolution. Rapp RA, Wendel JF, New Phytol 2005 168 81 91 10.1111/j.1469-8137.2005.01491.x 16159323
-
(2005)
New Phytol
, vol.168
, pp. 81-91
-
-
Rapp, R.A.1
Wendel, J.F.2
-
12
-
-
0038031633
-
Epigenetic silencing may aid evolution by gene duplication
-
10.1007/s00239-002-2446-6 12911035
-
Epigenetic silencing may aid evolution by gene duplication. Rodin S, Riggs A, J Mol Evol 2003 56 718 729 10.1007/s00239-002-2446-6 12911035
-
(2003)
J Mol Evol
, vol.56
, pp. 718-729
-
-
Rodin, S.1
Riggs, A.2
-
13
-
-
4344560985
-
Position-associated GC asymmetry of gene duplicates
-
10.1007/s00239-004-2631-x 15553091
-
Position-associated GC asymmetry of gene duplicates. Rodin SN, Parkhomchuk DV, J Mol Evol 2004 59 372 384 10.1007/s00239-004-2631-x 15553091
-
(2004)
J Mol Evol
, vol.59
, pp. 372-384
-
-
Rodin, S.N.1
Parkhomchuk, D.V.2
-
14
-
-
25144435946
-
Repositioning-dependent fate of duplicate genes
-
10.1089/dna.2005.24.529 16153154
-
Repositioning-dependent fate of duplicate genes. Rodin SN, Parkhomchuk DV, Rodin AS, Holmquist GP, Riggs AD, DNA Cell Biol 2005 24 529 542 10.1089/dna.2005.24.529 16153154
-
(2005)
DNA Cell Biol
, vol.24
, pp. 529-542
-
-
Rodin, S.N.1
Parkhomchuk, D.V.2
Rodin, A.S.3
Holmquist, G.P.4
Riggs, A.D.5
-
15
-
-
48249143133
-
Asymmetric histone modifications between the original and derived loci of human segmental duplications
-
10.1186/gb-2008-9-7-r105 18598352
-
Asymmetric histone modifications between the original and derived loci of human segmental duplications. Zheng D, Genome Biol 2008 9 105 10.1186/gb-2008-9-7-r105 18598352
-
(2008)
Genome Biol
, vol.9
, pp. 18105
-
-
Zheng, D.1
-
16
-
-
67349190247
-
Linking DNA methylation and histone modification: Patterns and paradigms
-
19308066
-
Linking DNA methylation and histone modification: patterns and paradigms. Cedar H, Bergman Y, Nat Rev Genet 2009 10 295 304 19308066
-
(2009)
Nat Rev Genet
, vol.10
, pp. 295-304
-
-
Cedar, H.1
Bergman, Y.2
-
17
-
-
34248223080
-
DNA methylation affects nuclear organization, histone modifications, and linker histone binding but not chromatin compaction
-
10.1083/jcb.200607133 17485486
-
DNA methylation affects nuclear organization, histone modifications, and linker histone binding but not chromatin compaction. Gilbert N, Thomson I, Boyle S, Allan J, Ramsahoye B, Bickmore WA, J Cell Biol 2007 177 401 411 10.1083/jcb.200607133 17485486
-
(2007)
J Cell Biol
, vol.177
, pp. 401-411
-
-
Gilbert, N.1
Thomson, I.2
Boyle, S.3
Allan, J.4
Ramsahoye, B.5
Bickmore, W.A.6
-
18
-
-
0031783717
-
A comparison of DNA methylation levels in selected isolates of higher fungi
-
10.2307/3761319
-
A comparison of DNA methylation levels in selected isolates of higher fungi. Binz T, D'Mello N, Horgen PA, Mycologia 1998 90 785 790 10.2307/3761319
-
(1998)
Mycologia
, vol.90
, pp. 785-790
-
-
Binz, T.1
D'Mello, N.2
Horgen, P.A.3
-
19
-
-
0037423845
-
Vertebrate microRNA genes
-
10.1126/science.1080372 12624257
-
Vertebrate microRNA genes. Lim LP, Glasner ME, Yekta S, Burge CB, Bartel DP, Science 2003 299 1540 10.1126/science.1080372 12624257
-
(2003)
Science
, vol.299
, pp. 1540
-
-
Lim, L.P.1
Glasner, M.E.2
Yekta, S.3
Burge, C.B.4
Bartel, D.P.5
-
20
-
-
0035839136
-
Translating the histone code
-
10.1126/science.1063127 11498575
-
Translating the histone code. Jenuwein T, Allis CD, Science 2001 293 1074 1080 10.1126/science.1063127 11498575
-
(2001)
Science
, vol.293
, pp. 1074-1080
-
-
Jenuwein, T.1
Allis, C.D.2
-
21
-
-
0034610814
-
The language of covalent histone modifications
-
10.1038/47412 10638745
-
The language of covalent histone modifications. Strahl BD, Allis CD, Nature 2000 403 41 45 10.1038/47412 10638745
-
(2000)
Nature
, vol.403
, pp. 41-45
-
-
Strahl, B.D.1
Allis, C.D.2
-
22
-
-
33847076849
-
Chromatin modifications and their function
-
10.1016/j.cell.2007.02.005 17320507
-
Chromatin modifications and their function. Kouzarides T, Cell 2007 128 693 705 10.1016/j.cell.2007.02.005 17320507
-
(2007)
Cell
, vol.128
, pp. 693-705
-
-
Kouzarides, T.1
-
23
-
-
33847070442
-
The role of chromatin during transcription
-
10.1016/j.cell.2007.01.015 17320508
-
The role of chromatin during transcription. Li B, Carey M, Workman JL, Cell 2007 128 707 719 10.1016/j.cell.2007.01.015 17320508
-
(2007)
Cell
, vol.128
, pp. 707-719
-
-
Li, B.1
Carey, M.2
Workman, J.L.3
-
24
-
-
20044384522
-
Mapping of genetic and epigenetic regulatory networks using microarrays
-
10.1038/ng1559 15920525
-
Mapping of genetic and epigenetic regulatory networks using microarrays. van Steensel B, Nat Genet 2005 37 18 24 10.1038/ng1559 15920525
-
(2005)
Nat Genet
, vol.37
, pp. 1918-1924
-
-
Van Steensel, B.1
-
25
-
-
33747609801
-
Genome-wide patterns of histone modifications in yeast
-
10.1038/nrm1986 16912715
-
Genome-wide patterns of histone modifications in yeast. Millar CB, Grunstein M, Nat Rev Mol Cell Biol 2006 7 657 666 10.1038/nrm1986 16912715
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, pp. 657-666
-
-
Millar, C.B.1
Grunstein, M.2
-
26
-
-
0037380209
-
Histone acetylation and deacetylation in yeast
-
10.1038/nrm1075 12671650
-
Histone acetylation and deacetylation in yeast. Kurdistani SK, Grunstein M, Nat Rev Mol Cell Biol 2003 4 276 284 10.1038/nrm1075 12671650
-
(2003)
Nat Rev Mol Cell Biol
, vol.4
, pp. 276-284
-
-
Kurdistani, S.K.1
Grunstein, M.2
-
27
-
-
0032911635
-
Functional organization of the yeast SAGA complex: Distinct components involved in structural integrity, nucleosome acetylation, and TATA-binding protein interaction
-
9858534
-
Functional organization of the yeast SAGA complex: distinct components involved in structural integrity, nucleosome acetylation, and TATA-binding protein interaction. Sterner DE, Grant PA, Roberts SM, Duggan LJ, Belotserkovskaya R, Pacella LA, Winston F, Workman JL, Berger SL, Mol Cell Biol 1999 19 86 98 9858534
-
(1999)
Mol Cell Biol
, vol.19
, pp. 86-98
-
-
Sterner, D.E.1
Grant, P.A.2
Roberts, S.M.3
Duggan, L.J.4
Belotserkovskaya, R.5
Pacella, L.A.6
Winston, F.7
Workman, J.L.8
Berger, S.L.9
-
28
-
-
0019420927
-
In vivo sequence requirements of the SV40 early promoter region
-
10.1038/290304a0 6259538
-
In vivo sequence requirements of the SV40 early promoter region. Benoist C, Chambon P, Nature 1981 290 304 310 10.1038/290304a0 6259538
-
(1981)
Nature
, vol.290
, pp. 304-310
-
-
Benoist, C.1
Chambon, P.2
-
29
-
-
1542328960
-
Identification and distinct regulation of yeast TATA box-containing genes
-
10.1016/S0092-8674(04)00205-3 15006352
-
Identification and distinct regulation of yeast TATA box-containing genes. Basehoar AD, Zanton SJ, Pugh BF, Cell 2004 116 699 709 10.1016/S0092-8674(04)00205-3 15006352
-
(2004)
Cell
, vol.116
, pp. 699-709
-
-
Basehoar, A.D.1
Zanton, S.J.2
Pugh, B.F.3
-
30
-
-
26444488575
-
Expression divergence between duplicate genes
-
10.1016/j.tig.2005.08.006 16140417
-
Expression divergence between duplicate genes. Li W-H, Yang J, Gu X, Trends Genet 2005 21 602 607 10.1016/j.tig.2005.08.006 16140417
-
(2005)
Trends Genet
, vol.21
, pp. 602-607
-
-
Li, W.-H.1
Yang, J.2
Gu, X.3
-
31
-
-
33745583768
-
A genetic signature of interspecies variations in gene expression
-
10.1038/ng1819 16783381
-
A genetic signature of interspecies variations in gene expression. Tirosh I, Weinberger A, Carmi M, Barkai N, Nat Genet 2006 38 830 834 10.1038/ng1819 16783381
-
(2006)
Nat Genet
, vol.38
, pp. 830-834
-
-
Tirosh, I.1
Weinberger, A.2
Carmi, M.3
Barkai, N.4
-
32
-
-
34250785284
-
Genetic properties influencing the evolvability of gene expression
-
10.1126/science.1140247 17525304
-
Genetic properties influencing the evolvability of gene expression. Landry CR, Lemos B, Rifkin SA, Dickinson WJ, Hartl DL, Science 2007 317 118 121 10.1126/science.1140247 17525304
-
(2007)
Science
, vol.317
, pp. 118-121
-
-
Landry, C.R.1
Lemos, B.2
Rifkin, S.A.3
Dickinson, W.J.4
Hartl, D.L.5
-
33
-
-
55449096356
-
Crosstalk among Histone Modifications
-
10.1016/j.cell.2008.10.036 19013272
-
Crosstalk among Histone Modifications. Suganuma T, Workman JL, Cell 2008 135 604 607 10.1016/j.cell.2008.10.036 19013272
-
(2008)
Cell
, vol.135
, pp. 604-607
-
-
Suganuma, T.1
Workman, J.L.2
-
34
-
-
34547909911
-
ChromatinDB: A database of genome-wide histone modification patterns for Saccharomyces cerevisiae
-
10.1093/bioinformatics/btm236 17485428
-
ChromatinDB: a database of genome-wide histone modification patterns for Saccharomyces cerevisiae. OConnor TR, Wyrick JJ, Bioinformatics 2007 23 1828 1830 10.1093/bioinformatics/btm236 17485428
-
(2007)
Bioinformatics
, vol.23
, pp. 1828-1830
-
-
Oconnor, T.R.1
Wyrick, J.J.2
-
35
-
-
0031742022
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization
-
9843569
-
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, Eisen MB, Brown PO, Botstein D, Futcher B, Mol Biol Cell 1998 9 3273 3297 9843569
-
(1998)
Mol Biol Cell
, vol.9
, pp. 3273-3297
-
-
Spellman, P.T.1
Sherlock, G.2
Zhang, M.Q.3
Iyer, V.R.4
Anders, K.5
Eisen, M.B.6
Brown, P.O.7
Botstein, D.8
Futcher, B.9
-
36
-
-
0032561246
-
The transcriptional program of sporulation in budding yeast
-
9784122
-
The transcriptional program of sporulation in budding yeast. Chu S, DeRisi J, Eisen M, Mulholland J, Botstein D, Brown PO, Herskowitz I, Science 1998 282 699 705 9784122
-
(1998)
Science
, vol.282
, pp. 699-705
-
-
Chu, S.1
Derisi, J.2
Eisen, M.3
Mulholland, J.4
Botstein, D.5
Brown, P.O.6
Herskowitz, I.7
-
37
-
-
0032112293
-
A genome-wide transcriptional analysis of the mitotic cell cycle
-
10.1016/S1097-2765(00)80114-8 9702192
-
A genome-wide transcriptional analysis of the mitotic cell cycle. Cho RJ, Campbell MJ, Winzeler EA, Steinmetz L, Conway A, Wodicka L, Wolfsberg TG, Gabrielian AE, Landsman D, Lockhart DJ, Davis RW, Mol Cell 1998 2 65 73 10.1016/S1097-2765(00)80114-8 9702192
-
(1998)
Mol Cell
, vol.2
, pp. 65-73
-
-
Cho, R.J.1
Campbell, M.J.2
Winzeler, E.A.3
Steinmetz, L.4
Conway, A.5
Wodicka, L.6
Wolfsberg, T.G.7
Gabrielian, A.E.8
Landsman, D.9
Lockhart, D.J.10
Davis, R.W.11
-
38
-
-
33847357312
-
A genome-wide analysis in Saccharomyces cerevisiae demonstrates the influence of chromatin modifiers on transcription
-
10.1038/ng1965 17325681
-
A genome-wide analysis in Saccharomyces cerevisiae demonstrates the influence of chromatin modifiers on transcription. Steinfeld I, Shamir R, Kupiec M, Nat Genet 2007 39 303 309 10.1038/ng1965 17325681
-
(2007)
Nat Genet
, vol.39
, pp. 303-309
-
-
Steinfeld, I.1
Shamir, R.2
Kupiec, M.3
-
39
-
-
34247629588
-
Genetic reconstruction of a functional transcriptional regulatory network
-
10.1038/ng2012 17417638
-
Genetic reconstruction of a functional transcriptional regulatory network. Hu Z, Killion PJ, Iyer VR, Nat Genet 2007 39 683 687 10.1038/ng2012 17417638
-
(2007)
Nat Genet
, vol.39
, pp. 683-687
-
-
Hu, Z.1
Killion, P.J.2
Iyer, V.R.3
-
40
-
-
0037174671
-
Transcriptional regulatory networks in Saccharomyces cerevisiae
-
10.1126/science.1075090 12399584
-
Transcriptional regulatory networks in Saccharomyces cerevisiae. Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Cordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA, Science 2002 298 799 804 10.1126/science.1075090 12399584
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Bar-Joseph, Z.5
Gerber, G.K.6
Hannett, N.M.7
Harbison, C.T.8
Thompson, C.M.9
Simon, I.10
Zeitlinger, J.11
Jennings, E.G.12
Murray, H.L.13
Cordon, D.B.14
Ren, B.15
Wyrick, J.J.16
Tagne, J.B.17
Volkert, T.L.18
Fraenkel, E.19
Gifford, D.K.20
Young, R.A.21
more..
-
41
-
-
4544352942
-
Transcriptional regulatory code of a eukaryotic genome
-
10.1038/nature02800 15343339
-
Transcriptional regulatory code of a eukaryotic genome. Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW, Hannett NM, Tagne J-B, Reynolds DB, Yoo J, Jennings EG, Zeitlinger J, Pokholok DK, Kellis M, Rolfe PA, Takusagawa KT, Lander ES, Gifford DK, Fraenkel E, Young RA, Nature 2004 431 99 104 10.1038/nature02800 15343339
-
(2004)
Nature
, vol.431
, pp. 99-104
-
-
Harbison, C.T.1
Gordon, D.B.2
Lee, T.I.3
Rinaldi, N.J.4
MacIsaac, K.D.5
Danford, T.W.6
Hannett, N.M.7
Tagne, J.-B.8
Reynolds, D.B.9
Yoo, J.10
Jennings, E.G.11
Zeitlinger, J.12
Pokholok, D.K.13
Kellis, M.14
Rolfe, P.A.15
Takusagawa, K.T.16
Lander, E.S.17
Gifford, D.K.18
Fraenkel, E.19
Young, R.A.20
more..
-
42
-
-
13444306165
-
The landscape of genetic complexity across 5,700 gene expression traits in yeast
-
10.1073/pnas.0408709102 15659551
-
The landscape of genetic complexity across 5,700 gene expression traits in yeast. Brem RB, Kruglyak L, Proc Natl Acad Sci U S A 2005 102 1572 1577 10.1073/pnas.0408709102 15659551
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 1572-1577
-
-
Brem, R.B.1
Kruglyak, L.2
-
43
-
-
38649094557
-
Epigenetic regulation and the variability of gene expression
-
10.1038/ng.2007.58 18227874
-
Epigenetic regulation and the variability of gene expression. Choi JK, Kim Y-J, Nat Genet 2008 40 141 147 10.1038/ng.2007.58 18227874
-
(2008)
Nat Genet
, vol.40
, pp. 141-147
-
-
Choi, J.K.1
Kim, Y.-J.2
-
44
-
-
20444365683
-
GOToolBox: Functional analysis of gene datasets based on Gene Ontology
-
10.1186/gb-2004-5-12-r101 15575967
-
GOToolBox: functional analysis of gene datasets based on Gene Ontology. Martin D, Brun C, Remy E, Mouren P, Thieffry D, Jacq B, Genome Biol 2004 5 101 10.1186/gb-2004-5-12-r101 15575967
-
(2004)
Genome Biol
, vol.5
, pp. 18101
-
-
Martin, D.1
Brun, C.2
Remy, E.3
Mouren, P.4
Thieffry, D.5
Jacq, B.6
-
45
-
-
0036187351
-
Extent of Gene Duplication in the Genomes of Drosophila, Nematode, and Yeast
-
10.1093/oxfordjournals.molbev.a004079 11861885
-
Extent of Gene Duplication in the Genomes of Drosophila, Nematode, and Yeast. Gu Z, Cavalcanti A, Chen F-C, Bouman P, Li W-H, Mol Biol Evol 2002 19 256 262 10.1093/oxfordjournals.molbev.a004079 11861885
-
(2002)
Mol Biol Evol
, vol.19
, pp. 256-262
-
-
Gu, Z.1
Cavalcanti, A.2
Chen, F.-C.3
Bouman, P.4
Li, W.-H.5
-
46
-
-
0033639150
-
Statistical methods for detecting molecular adaptation
-
10.1016/S0169-5347(00)01994-7 11114436
-
Statistical methods for detecting molecular adaptation. Yang Z, Bielawski JP, Trends Ecol Evol 2000 15 496 503 10.1016/S0169-5347(00)01994-7 11114436
-
(2000)
Trends Ecol Evol
, vol.15
, pp. 496-503
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-
Yang, Z.1
Bielawski, J.P.2
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