-
3
-
-
33750858684
-
Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia
-
JM Aury O Jaillon L Duret B Noel C Jubin BM Porcel B Ségurens V Daubin V Anthouard N Aiach O Arnaiz A Billaut J Beisson I Blanc K Bouhouche F Câmara S Duharcourt R Guigo D Gogendeau M Katinka AM Keller R Kissmehl C Klotz F Koll AL Mouël G Lepère S Malinsky M Nowacki JK Nowak H Plattner J Poulain F Ruiz V Serrano M Zagulski P Dessen M Bétermier J Weissenbach C Scarpelli V Schächter L Sperling E Meyer J Cohen P Wincker 2006 Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia Nature 444 171 178
-
(2006)
Nature
, vol.444
, pp. 171-178
-
-
Aury, J.M.1
Jaillon, O.2
Duret, L.3
Noel, B.4
Jubin, C.5
Porcel, B.M.6
Ségurens, B.7
Daubin, V.8
Anthouard, V.9
Aiach, N.10
Arnaiz, O.11
Billaut, A.12
Beisson, J.13
Blanc, I.14
Bouhouche, K.15
Câmara, F.16
Duharcourt, S.17
Guigo, R.18
Gogendeau, D.19
Katinka, M.20
Keller, A.M.21
Kissmehl, R.22
Klotz, C.23
Koll, F.24
Mouël, A.L.25
Lepère, G.26
Malinsky, S.27
Nowacki, M.28
Nowak, J.K.29
Plattner, H.30
Poulain, J.31
Ruiz, F.32
Serrano, V.33
Zagulski, M.34
Dessen, P.35
Bétermier, M.36
Weissenbach, J.37
Scarpelli, C.38
Schächter, V.39
Sperling, L.40
Meyer, E.41
Cohen, J.42
Wincker, P.43
more..
-
5
-
-
26444482460
-
Molecular phylogeny and divergence times of deuterostome animals
-
JE Blair SB Hedges 2005 Molecular phylogeny and divergence times of deuterostome animals Mol Biol Evol 22 2275 2284
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2275-2284
-
-
Blair, J.E.1
Hedges, S.B.2
-
6
-
-
3142732892
-
Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution
-
G Blanc KH Wolfe 2004 Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution Plant Cell 16 1679 1691
-
(2004)
Plant Cell
, vol.16
, pp. 1679-1691
-
-
Blanc, G.1
Wolfe, K.H.2
-
8
-
-
33748183184
-
Gene loss and evolutionary rates following whole-genome duplication in teleost fishes
-
FG Brunet HR Crollius M Paris JM Aury P Gibert O Jaillon V Laudet M Robinson Rechavi 2006 Gene loss and evolutionary rates following whole-genome duplication in teleost fishes Mol Biol Evol 23 1808 1816
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1808-1816
-
-
Brunet, F.G.1
Crollius, H.R.2
Paris, M.3
Aury, J.M.4
Gibert, P.5
Jaillon, O.6
Laudet, V.7
Robinson Rechavi, M.8
-
9
-
-
2442707716
-
Fugu genome analysis provides evidence for a whole-genome duplication early during the evolution of ray-finned fishes
-
A Christoffels EGL Koh JM Chia S Brenner S Aparicio B Venkatesh 2004 Fugu genome analysis provides evidence for a whole-genome duplication early during the evolution of ray-finned fishes Mol Biol Evol 21 1146 1151
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1146-1151
-
-
Christoffels, A.1
Koh, E.G.L.2
Chia, J.M.3
Brenner, S.4
Aparicio, S.5
Venkatesh, B.6
-
10
-
-
26444603772
-
Two rounds of whole genome duplication in the ancestral vertebrate
-
P Dehal JL Boore 2005 Two rounds of whole genome duplication in the ancestral vertebrate PLoS Biol 3 e314
-
(2005)
PLoS Biol
, vol.3
, pp. 314
-
-
Dehal, P.1
Boore, J.L.2
-
12
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
AJ Enright SV Dongen CA Ouzounis 2002 An efficient algorithm for large-scale detection of protein families Nucleic Acids Res 30 1575 1584
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 1575-1584
-
-
Enright, A.J.1
Dongen, S.V.2
Ouzounis, C.A.3
-
14
-
-
0032893932
-
Preservation of duplicate genes by complementary, degenerative mutations
-
A Force M Lynch FB Pickett A Amores YL Yan J Postlethwait 1999 Preservation of duplicate genes by complementary, degenerative mutations Genetics 151 1531 1545
-
(1999)
Genetics
, vol.151
, pp. 1531-1545
-
-
Force, A.1
Lynch, M.2
Pickett, F.B.3
Amores, A.4
Yan, Y.L.5
Postlethwait, J.6
-
15
-
-
0035179702
-
Pattern and timing of gene duplication in animal genomes
-
R Friedman AL Hughes 2001 Pattern and timing of gene duplication in animal genomes Genome Res 11 1842 1847
-
(2001)
Genome Res
, vol.11
, pp. 1842-1847
-
-
Friedman, R.1
Hughes, A.L.2
-
16
-
-
0037227485
-
The temporal distribution of gene duplication events in a set of highly conserved human gene families
-
R Friedman AL Hughes 2003 The temporal distribution of gene duplication events in a set of highly conserved human gene families Mol Biol Evol 20 154 161
-
(2003)
Mol Biol Evol
, vol.20
, pp. 154-161
-
-
Friedman, R.1
Hughes, A.L.2
-
18
-
-
1642554676
-
Reading the entrails of chickens: Molecular timescales of evolution and the illusion of precision
-
D Graur W Martin 2004 Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision Trends Genet 20 80 86
-
(2004)
Trends Genet
, vol.20
, pp. 80-86
-
-
Graur, D.1
Martin, W.2
-
19
-
-
0036314772
-
Studying genomes through the aeons: Protein families, pseudogenes and proteome evolution
-
PM Harrison M Gerstein 2002 Studying genomes through the aeons: protein families, pseudogenes and proteome evolution J Mol Biol 318 1155 1174
-
(2002)
J Mol Biol
, vol.318
, pp. 1155-1174
-
-
Harrison, P.M.1
Gerstein, M.2
-
20
-
-
15544389841
-
Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution
-
X He J Zhang 2005 Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution Genetics 169 1157 1164
-
(2005)
Genetics
, vol.169
, pp. 1157-1164
-
-
He, X.1
Zhang, J.2
-
21
-
-
1942422549
-
Precision of molecular time estimates
-
SB Hedges S Kumar 2004 Precision of molecular time estimates Trends Genet 20 242 247
-
(2004)
Trends Genet
, vol.20
, pp. 242-247
-
-
Hedges, S.B.1
Kumar, S.2
-
22
-
-
0035010738
-
Ancient genome duplications did not structure the human hox-bearing chromosomes
-
AL Hughes J da Silva R Friedman 2001 Ancient genome duplications did not structure the human hox-bearing chromosomes Genome Res 11 771 780
-
(2001)
Genome Res
, vol.11
, pp. 771-780
-
-
Hughes, A.L.1
Da Silva, J.2
Friedman, R.3
-
23
-
-
36148960409
-
The pattern of evolution of smaller-scale gene duplicates in mammalian genomes is more consistent with neo- than subfunctionalisation
-
T Hughes D Liberles 2007 The pattern of evolution of smaller-scale gene duplicates in mammalian genomes is more consistent with neo- than subfunctionalisation J Mol Evol 65 574 588
-
(2007)
J Mol Evol
, vol.65
, pp. 574-588
-
-
Hughes, T.1
Liberles, D.2
-
24
-
-
41949093234
-
The power-law distribution of gene family size is driven by the pseudogenisation rate's heterogeneity between gene families
-
T Hughes DA Liberles 2008 The power-law distribution of gene family size is driven by the pseudogenisation rate's heterogeneity between gene families Gene 414 85 94
-
(2008)
Gene
, vol.414
, pp. 85-94
-
-
Hughes, T.1
Liberles, D.A.2
-
25
-
-
0031924363
-
The frequency distribution of gene family sizes in complete genomes
-
MA Huynen E van Nimwegen 1998 The frequency distribution of gene family sizes in complete genomes Mol Biol Evol 15 583 589
-
(1998)
Mol Biol Evol
, vol.15
, pp. 583-589
-
-
Huynen, M.A.1
Van Nimwegen, E.2
-
26
-
-
7244259101
-
Genome duplication in the teleost fish tetraodon nigroviridis reveals the early vertebrate proto-karyotype
-
O Jaillon JM Aury F Brunet JL Petit N Stange-Thomann E Mauceli L Bouneau C Fischer C Ozouf-Costaz A Bernot S Nicaud D Jaffe S Fisher G Lutfalla C Dossat B Segurens C Dasilva M Salanoubat M Levy N Boudet S Castellano V Anthouard C Jubin V Castelli M Katinka B Vacherie C Biémont Z Skalli L Cattolico J Poulain VD Berardinis C Cruaud S Duprat P Brottier JP Coutanceau J Gouzy G Parra G Lardier C Chapple KJ McKernan P McEwan S Bosak M Kellis JN Volff R Guigó MC Zody J Mesirov K Lindblad-Toh B Birren C Nusbaum D Kahn M Robinson-Rechavi V Laudet V Schachter F Quétier W Saurin C Scarpelli P Wincker ES Lander J Weissenbach HR Crollius 2004 Genome duplication in the teleost fish tetraodon nigroviridis reveals the early vertebrate proto-karyotype Nature 431 946 957
-
(2004)
Nature
, vol.431
, pp. 946-957
-
-
Jaillon, O.1
Aury, J.M.2
Brunet, F.3
Petit, J.L.4
Stange-Thomann, N.5
Mauceli, E.6
Bouneau, L.7
Fischer, C.8
Ozouf-Costaz, C.9
Bernot, A.10
Nicaud, S.11
Jaffe, D.12
Fisher, S.13
Lutfalla, G.14
Dossat, C.15
Segurens, B.16
Dasilva, C.17
Salanoubat, M.18
Levy, M.19
Boudet, N.20
Castellano, S.21
Anthouard, V.22
Jubin, C.23
Castelli, V.24
Katinka, M.25
Vacherie, B.26
Biémont, C.27
Skalli, Z.28
Cattolico, L.29
Poulain, J.30
Berardinis, V.D.31
Cruaud, C.32
Duprat, S.33
Brottier, P.34
Coutanceau, J.P.35
Gouzy, J.36
Parra, G.37
Lardier, G.38
Chapple, C.39
McKernan, K.J.40
McEwan, P.41
Bosak, S.42
Kellis, M.43
Volff, J.N.44
Guigó, R.45
Zody, M.C.46
Mesirov, J.47
Lindblad-Toh, K.48
Birren, B.49
Nusbaum, C.50
Kahn, D.51
Robinson-Rechavi, M.52
Laudet, V.53
Schachter, V.54
Quétier, F.55
Saurin, W.56
Scarpelli, C.57
Wincker, P.58
Lander, E.S.59
Weissenbach, J.60
Crollius, H.R.61
more..
-
27
-
-
34248153777
-
Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates
-
H Kikuta M Laplante P Navratilova AZ Komisarczuk PG Engström D Fredman A Akalin M Caccamo I Sealy K Howe J Ghislain G Pezeron P Mourrain S Ellingsen AC Oates C Thisse B Thisse I Foucher B Adolf A Geling B Lenhard TS Becker 2007 Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates Genome Res 17 545 555
-
(2007)
Genome Res
, vol.17
, pp. 545-555
-
-
Kikuta, H.1
Laplante, M.2
Navratilova, P.3
Komisarczuk, A.Z.4
Engström, P.G.5
Fredman, D.6
Akalin, A.7
Caccamo, M.8
Sealy, I.9
Howe, K.10
Ghislain, J.11
Pezeron, G.12
Mourrain, P.13
Ellingsen, S.14
Oates, A.C.15
Thisse, C.16
Thisse, B.17
Foucher, I.18
Adolf, B.19
Geling, A.20
Lenhard, B.21
Becker, T.S.22
more..
-
28
-
-
1542272747
-
Comparative genomics, minimal gene-sets and the last universal common ancestor
-
EV Koonin 2003 Comparative genomics, minimal gene-sets and the last universal common ancestor Nature Rev Microbiol 1 127 136
-
(2003)
Nature Rev Microbiol
, vol.1
, pp. 127-136
-
-
Koonin, E.V.1
-
29
-
-
0037263482
-
Numerous groups of chromosomal regional paralogies strongly indicate two genome doublings at the root of the vertebrates
-
LG Lundin D Larhammar F Hallböök 2003 Numerous groups of chromosomal regional paralogies strongly indicate two genome doublings at the root of the vertebrates J Struct Funct Genomics 3 53 63
-
(2003)
J Struct Funct Genomics
, vol.3
, pp. 53-63
-
-
Lundin, L.G.1
Larhammar, D.2
Hallböök, F.3
-
30
-
-
0242713700
-
The dominance of the population by a selected few: Power-law behaviour applies to a wide variety of genomic properties
-
research0040.1-0040.7. Available at:
-
Luscombe NM, Qian J, Zhang Z, Johnson T, Gerstein M (2002) The dominance of the population by a selected few: power-law behaviour applies to a wide variety of genomic properties. Genome Biol 3(8):research0040.1-0040.7. Available at: http://www.genomebiology.com/2002/3/8/research/0040
-
(2002)
Genome Biol
, vol.3
, Issue.8
-
-
Luscombe, N.M.1
Qian, J.2
Zhang, Z.3
Johnson, T.4
Gerstein, M.5
-
31
-
-
0034634395
-
The evolutionary fate and consequences of duplicate genes
-
M Lynch JS Conery 2000 The evolutionary fate and consequences of duplicate genes Science 290 1151 1155
-
(2000)
Science
, vol.290
, pp. 1151-1155
-
-
Lynch, M.1
Conery, J.S.2
-
32
-
-
0037270015
-
The evolutionary demography of duplicate genes
-
M Lynch JS Conery 2003 The evolutionary demography of duplicate genes J Struct Funct Genomics 3 35 44
-
(2003)
J Struct Funct Genomics
, vol.3
, pp. 35-44
-
-
Lynch, M.1
Conery, J.S.2
-
33
-
-
0033972072
-
The probability of duplicate gene preservation by subfunctionalization
-
M Lynch A Force 2000 The probability of duplicate gene preservation by subfunctionalization Genetics 154 459 473
-
(2000)
Genetics
, vol.154
, pp. 459-473
-
-
Lynch, M.1
Force, A.2
-
35
-
-
0036613237
-
Extensive genomic duplication during early chordate evolution
-
A McLysaght K Hokamp KH Wolfe 2002 Extensive genomic duplication during early chordate evolution Nature Genet 31 200 204
-
(2002)
Nature Genet
, vol.31
, pp. 200-204
-
-
McLysaght, A.1
Hokamp, K.2
Wolfe, K.H.3
-
37
-
-
0033638015
-
CAST: An iterative algorithm for the complexity analysis of sequence tracts
-
VJ Promponas AJ Enright S Tsoka DP Kreil C Leroy S Hamodrakas C Sander CA Ouzounis 2000 CAST: an iterative algorithm for the complexity analysis of sequence tracts Bioinformatics 16 915 922
-
(2000)
Bioinformatics
, vol.16
, pp. 915-922
-
-
Promponas, V.J.1
Enright, A.J.2
Tsoka, S.3
Kreil, D.P.4
Leroy, C.5
Hamodrakas, S.6
Sander, C.7
Ouzounis, C.A.8
-
38
-
-
21344439563
-
Subfunctionalization of duplicated genes as a transition state to neofunctionalization
-
S Rastogi DA Liberles 2005 Subfunctionalization of duplicated genes as a transition state to neofunctionalization BMC Evol Biol 5 28
-
(2005)
BMC Evol Biol
, vol.5
, pp. 28
-
-
Rastogi, S.1
Liberles, D.A.2
-
39
-
-
33750180978
-
Evaluation of models for the evolution of protein sequences and functions under structural constraint
-
S Rastogi N Reuter DA Liberles 2006 Evaluation of models for the evolution of protein sequences and functions under structural constraint Biophys Chem 124 134 144
-
(2006)
Biophys Chem
, vol.124
, pp. 134-144
-
-
Rastogi, S.1
Reuter, N.2
Liberles, D.A.3
-
42
-
-
1242274629
-
Major events in the genome evolution of vertebrates: Paranome age and size differ considerably between ray-finned fishes and land vertebrates
-
K Vandepoele WD Vos JS Taylor A Meyer YV de Peer 2004 Major events in the genome evolution of vertebrates: paranome age and size differ considerably between ray-finned fishes and land vertebrates Proc Natl Acad Sci USA 101 1638 1643
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 1638-1643
-
-
Vandepoele, K.1
Vos, W.D.2
Taylor, J.S.3
Meyer, A.4
De Peer, Y.V.5
-
43
-
-
85047698990
-
Evolutionary patterns of gene families generated in the early stage of vertebrates
-
Y Wang X Gu 2000 Evolutionary patterns of gene families generated in the early stage of vertebrates J Mol Evol 51 88 96
-
(2000)
J Mol Evol
, vol.51
, pp. 88-96
-
-
Wang, Y.1
Gu, X.2
-
44
-
-
24344440632
-
The zebrafish gene map defines ancestral vertebrate chromosomes
-
IG Woods C Wilson B Friedlander P Chang DK Reyes R Nix PD Kelly F Chu JH Postlethwait WS Talbot 2005 The zebrafish gene map defines ancestral vertebrate chromosomes Genome Res 15 1307 1314
-
(2005)
Genome Res
, vol.15
, pp. 1307-1314
-
-
Woods, I.G.1
Wilson, C.2
Friedlander, B.3
Chang, P.4
Reyes, D.K.5
Nix, R.6
Kelly, P.D.7
Chu, F.8
Postlethwait, J.H.9
Talbot, W.S.10
-
45
-
-
0034683244
-
Predictions of gene family distributions in microbial genomes: Evolution by gene duplication and modification
-
I Yanai CJ Camacho C DeLisi 2000 Predictions of gene family distributions in microbial genomes: evolution by gene duplication and modification Phys Rev Lett 85 2641 2644
-
(2000)
Phys Rev Lett
, vol.85
, pp. 2641-2644
-
-
Yanai, I.1
Camacho, C.J.2
Delisi, C.3
-
46
-
-
0031960185
-
Synonymous and nonsynonymous rate variation in nuclear genes of mammals
-
Z Yang R Nielsen 1998 Synonymous and nonsynonymous rate variation in nuclear genes of mammals J Mol Evol 46 409 418
-
(1998)
J Mol Evol
, vol.46
, pp. 409-418
-
-
Yang, Z.1
Nielsen, R.2
|