-
1
-
-
0035775725
-
A new approach to decoding life: systems biology
-
Ideker T., et al. A new approach to decoding life: systems biology. Annu. Rev. Genomics Hum. Genet. 2001, 2:343-372.
-
(2001)
Annu. Rev. Genomics Hum. Genet.
, vol.2
, pp. 343-372
-
-
Ideker, T.1
-
2
-
-
0037174670
-
Network motifs: simple building blocks of complex networks
-
Milo R., et al. Network motifs: simple building blocks of complex networks. Science 2002, 298:824-827.
-
(2002)
Science
, vol.298
, pp. 824-827
-
-
Milo, R.1
-
3
-
-
0742305866
-
Network biology: understanding the cell's functional organization
-
Barabasi A.L., Oltvai Z.N. Network biology: understanding the cell's functional organization. Nat. Rev. Genet. 2004, 5:101-113.
-
(2004)
Nat. Rev. Genet.
, vol.5
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
5
-
-
34249079154
-
Network motifs: theory and experimental approaches
-
Alon U. Network motifs: theory and experimental approaches. Nat. Rev. Genet. 2007, 8:450-461.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 450-461
-
-
Alon, U.1
-
6
-
-
84968054140
-
Nothing in biology makes sense except in light of evolution
-
Dobzhansky T. Nothing in biology makes sense except in light of evolution. Am. Biol. Teach. 1973, 35:125-129.
-
(1973)
Am. Biol. Teach.
, vol.35
, pp. 125-129
-
-
Dobzhansky, T.1
-
7
-
-
84865866440
-
Experimental evolution
-
Kawecki T.J., et al. Experimental evolution. Trends Ecol. Evol. 2012, 27:547-560.
-
(2012)
Trends Ecol. Evol.
, vol.27
, pp. 547-560
-
-
Kawecki, T.J.1
-
8
-
-
84888001845
-
Genome dynamics during experimental evolution
-
Barrick J.E., Lenski R.E. Genome dynamics during experimental evolution. Nat. Rev. Genet. 2013, 14:827-839.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 827-839
-
-
Barrick, J.E.1
Lenski, R.E.2
-
11
-
-
64049093033
-
A framework for evolutionary systems biology
-
Loewe L. A framework for evolutionary systems biology. BMC Syst. Biol. 2009, 3:27.
-
(2009)
BMC Syst. Biol.
, vol.3
, pp. 27
-
-
Loewe, L.1
-
12
-
-
75149186552
-
Mutational robustness can facilitate adaptation
-
Draghi J.A., et al. Mutational robustness can facilitate adaptation. Nature 2010, 463:353-355.
-
(2010)
Nature
, vol.463
, pp. 353-355
-
-
Draghi, J.A.1
-
13
-
-
84860174650
-
Environmental robustness and the adaptability of populations
-
Stewart A.J., et al. Environmental robustness and the adaptability of populations. Evolution 2012, 66:1598-1612.
-
(2012)
Evolution
, vol.66
, pp. 1598-1612
-
-
Stewart, A.J.1
-
14
-
-
84861122792
-
The synthetic problem and the genotype-phenotype relation in cellular metabolism
-
Aldine Publishing Company, C.H. Waddington (Ed.)
-
Burns J. The synthetic problem and the genotype-phenotype relation in cellular metabolism. Organization Stability and Process 1970, 47-51. Aldine Publishing Company. C.H. Waddington (Ed.).
-
(1970)
Organization Stability and Process
, pp. 47-51
-
-
Burns, J.1
-
15
-
-
0019998213
-
Development and evolution
-
Goodwin B.C. Development and evolution. J. Theor. Biol. 1982, 97:43-55.
-
(1982)
J. Theor. Biol.
, vol.97
, pp. 43-55
-
-
Goodwin, B.C.1
-
16
-
-
0001618469
-
Evolution and bifurcation of developmental programs
-
Oster G., Alberch P. Evolution and bifurcation of developmental programs. Evolution 1982, 36:444-459.
-
(1982)
Evolution
, vol.36
, pp. 444-459
-
-
Oster, G.1
Alberch, P.2
-
17
-
-
84870413737
-
The inheritance of process: a dynamical systems approach
-
Jaeger J., et al. The inheritance of process: a dynamical systems approach. J. Exp. Zool. B: Mol. Dev. Evol. 2012, 318B:591-612.
-
(2012)
J. Exp. Zool. B: Mol. Dev. Evol.
, vol.318 B
, pp. 591-612
-
-
Jaeger, J.1
-
18
-
-
84876310782
-
Bridging the genotype-phenotype gap: what does it take?
-
Gjuvsland A.B., et al. Bridging the genotype-phenotype gap: what does it take?. J. Phys. 2013, 591:2055-2066.
-
(2013)
J. Phys.
, vol.591
, pp. 2055-2066
-
-
Gjuvsland, A.B.1
-
19
-
-
0000907353
-
The roles of mutation, inbreeding, crossbreeding, and selection in evolution
-
D.F. Jones (Ed.)
-
Wright S. The roles of mutation, inbreeding, crossbreeding, and selection in evolution. Proceedings of the Sixth International Congress on Genetics 1932, 356-366. D.F. Jones (Ed.).
-
(1932)
Proceedings of the Sixth International Congress on Genetics
, pp. 356-366
-
-
Wright, S.1
-
20
-
-
84881551474
-
Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks
-
Spirov A., Holloway D. Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks. Methods 2013, 62:39-55.
-
(2013)
Methods
, vol.62
, pp. 39-55
-
-
Spirov, A.1
Holloway, D.2
-
21
-
-
0028206995
-
Evolution of gene networks by gene duplications: a mathematical model and its implications on genome organization
-
Wagner A. Evolution of gene networks by gene duplications: a mathematical model and its implications on genome organization. Proc. Natl. Acad. Sci. U.S.A. 1994, 91:4387-4391.
-
(1994)
Proc. Natl. Acad. Sci. U.S.A.
, vol.91
, pp. 4387-4391
-
-
Wagner, A.1
-
22
-
-
0036678862
-
Waddington's canalization revisited: developmental stability and evolution
-
Siegal M.L., Bergman A. Waddington's canalization revisited: developmental stability and evolution. Proc. Natl. Acad. Sci. U.S.A. 2002, 99:10528-10532.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A.
, vol.99
, pp. 10528-10532
-
-
Siegal, M.L.1
Bergman, A.2
-
23
-
-
0042154192
-
Evolutionary capacitance as a general feature of complex gene networks
-
Bergman A., Siegal M.L. Evolutionary capacitance as a general feature of complex gene networks. Nature 2003, 424:549-552.
-
(2003)
Nature
, vol.424
, pp. 549-552
-
-
Bergman, A.1
Siegal, M.L.2
-
24
-
-
33644745138
-
Sexual reproduction selects for robustness and negative epistasis in artificial gene networks
-
Azevedo R.B.R., et al. Sexual reproduction selects for robustness and negative epistasis in artificial gene networks. Nature 2006, 443:87-90.
-
(2006)
Nature
, vol.443
, pp. 87-90
-
-
Azevedo, R.B.R.1
-
25
-
-
35348892535
-
Innovation and robustness in complex regulatory gene networks
-
Ciliberti S., et al. Innovation and robustness in complex regulatory gene networks. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:13591-13596.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, pp. 13591-13596
-
-
Ciliberti, S.1
-
26
-
-
43149098529
-
Multifunctionality and robustness trade-offs in model genetic circuits
-
Martin O.C., Wagner A. Multifunctionality and robustness trade-offs in model genetic circuits. Biophys. J. 2008, 94:2927-2937.
-
(2008)
Biophys. J.
, vol.94
, pp. 2927-2937
-
-
Martin, O.C.1
Wagner, A.2
-
27
-
-
67651180919
-
The role of genome and gene regulatory network canalization in the evolution of multi-trait polymorphisms and sympatric speciation
-
ten Tusscher K.H., Hogeweg P. The role of genome and gene regulatory network canalization in the evolution of multi-trait polymorphisms and sympatric speciation. BMC Evol. Biol. 2009, 9:159.
-
(2009)
BMC Evol. Biol.
, vol.9
, pp. 159
-
-
ten Tusscher, K.H.1
Hogeweg, P.2
-
28
-
-
77950854888
-
Specialization can drive the evolution of modularity
-
Espinosa-Soto C., Wagner A. Specialization can drive the evolution of modularity. PLoS Comput. Biol. 2010, 6:e1000719.
-
(2010)
PLoS Comput. Biol.
, vol.6
-
-
Espinosa-Soto, C.1
Wagner, A.2
-
29
-
-
84856305258
-
The causes of epistasis in genetic networks
-
Macia J., et al. The causes of epistasis in genetic networks. Evolution 2012, 66:586-596.
-
(2012)
Evolution
, vol.66
, pp. 586-596
-
-
Macia, J.1
-
30
-
-
84876933183
-
Cooperative adaptive responses in gene regulatory networks with many degrees of freedom
-
Inoue M., Kaneko K. Cooperative adaptive responses in gene regulatory networks with many degrees of freedom. PLoS Comput. Biol. 2013, 9:e1003001.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Inoue, M.1
Kaneko, K.2
-
31
-
-
25444448797
-
Spontaneous evolution of modularity and network motifs
-
Kashtan N., Alon U. Spontaneous evolution of modularity and network motifs. Proc. Natl. Acad. Sci. U.S.A. 2005, 102:13773-13778.
-
(2005)
Proc. Natl. Acad. Sci. U.S.A.
, vol.102
, pp. 13773-13778
-
-
Kashtan, N.1
Alon, U.2
-
32
-
-
84879543682
-
Constraint and contingency in multifunctional gene regulatory circuits
-
Payne J.L., Wagner A. Constraint and contingency in multifunctional gene regulatory circuits. PLoS Comput. Biol. 2013, 9:e1003071.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Payne, J.L.1
Wagner, A.2
-
33
-
-
84879052409
-
The evolutionary origins of modularity
-
Clune J., et al. The evolutionary origins of modularity. Proc. R. Soc. B 2013, 280:20122863.
-
(2013)
Proc. R. Soc. B
, vol.280
, pp. 20122863
-
-
Clune, J.1
-
34
-
-
0347635508
-
Design of genetic networks with specified functions by evolution in silico
-
Francois P., Hakim V. Design of genetic networks with specified functions by evolution in silico. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:580-585.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 580-585
-
-
Francois, P.1
Hakim, V.2
-
35
-
-
37349116795
-
Deriving structure from evolution: metazoan segmentation
-
Francois P., et al. Deriving structure from evolution: metazoan segmentation. Mol. Syst. Biol. 2007, 3:154.
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 154
-
-
Francois, P.1
-
36
-
-
77954656146
-
Predicting embryonic patterning using mutual entropy fitness and in silico evolution
-
Francois P., Siggia E.D. Predicting embryonic patterning using mutual entropy fitness and in silico evolution. Development 2010, 137:2385-2395.
-
(2010)
Development
, vol.137
, pp. 2385-2395
-
-
Francois, P.1
Siggia, E.D.2
-
37
-
-
78049513394
-
An atlas of gene regulatory networks reveals multiple three-gene mechanisms for interpreting morphogen gradients
-
Cotterell J., Sharpe J. An atlas of gene regulatory networks reveals multiple three-gene mechanisms for interpreting morphogen gradients. Mol. Syst. Biol. 2010, 6:425.
-
(2010)
Mol. Syst. Biol.
, vol.6
, pp. 425
-
-
Cotterell, J.1
Sharpe, J.2
-
38
-
-
80455124085
-
Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors
-
Rodrigo G., et al. Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Res. 2011, 39:e138.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Rodrigo, G.1
-
39
-
-
80055085380
-
Evolution of networks for body plan patterning: interplay of modularity, robustness and evolvability
-
ten Tusscher K.H., Hogeweg P. Evolution of networks for body plan patterning: interplay of modularity, robustness and evolvability. PLoS Comput. Biol. 2011, 7:e1002208.
-
(2011)
PLoS Comput. Biol.
, vol.7
-
-
ten Tusscher, K.H.1
Hogeweg, P.2
-
40
-
-
84866561672
-
Computational design of genomic transcriptional networks with adaptation to varying environments
-
Carrera J., et al. Computational design of genomic transcriptional networks with adaptation to varying environments. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:15277-15282.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 15277-15282
-
-
Carrera, J.1
-
41
-
-
84863208931
-
Virtual genomes in flux: an interplay of neutrality and adaptability explains genome expansion and streamlining
-
Cuypers T.D., Hogeweg P. Virtual genomes in flux: an interplay of neutrality and adaptability explains genome expansion and streamlining. Genome Biol. Evol. 2012, 4:212-229.
-
(2012)
Genome Biol. Evol.
, vol.4
, pp. 212-229
-
-
Cuypers, T.D.1
Hogeweg, P.2
-
42
-
-
84866315109
-
Pareto evolution of gene networks: an algorithm to optimize multiple fitness objectives
-
Warmflash A., et al. Pareto evolution of gene networks: an algorithm to optimize multiple fitness objectives. Phys. Biol. 2012, 9:056001.
-
(2012)
Phys. Biol.
, vol.9
, pp. 056001
-
-
Warmflash, A.1
-
43
-
-
84876279282
-
Mechanistic explanations for restricted evolutionary paths that emerge from gene regulatory networks
-
Cotterell J., Sharpe J. Mechanistic explanations for restricted evolutionary paths that emerge from gene regulatory networks. PLoS ONE 2013, 8:e61178.
-
(2013)
PLoS ONE
, vol.8
-
-
Cotterell, J.1
Sharpe, J.2
-
44
-
-
84875811500
-
Evolution of transcription networks in response to temporal fluctuations
-
Roh K., et al. Evolution of transcription networks in response to temporal fluctuations. Evolution 2013, 67:1091-1104.
-
(2013)
Evolution
, vol.67
, pp. 1091-1104
-
-
Roh, K.1
-
45
-
-
37549024140
-
Evolutionary modelling of feed forward loops in gene regulatory networks
-
Cooper M.B., et al. Evolutionary modelling of feed forward loops in gene regulatory networks. Biosystems 2008, 91:231-244.
-
(2008)
Biosystems
, vol.91
, pp. 231-244
-
-
Cooper, M.B.1
-
46
-
-
67649845851
-
Statistical mechanics of convergent evolution in spatial patterning
-
Khatri B.S., et al. Statistical mechanics of convergent evolution in spatial patterning. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:9564-9569.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 9564-9569
-
-
Khatri, B.S.1
-
47
-
-
84875595297
-
Model of haplotype and phenotype in the evolution of a duplicated autoregulatory activator
-
Dasmahapatra S. Model of haplotype and phenotype in the evolution of a duplicated autoregulatory activator. J. Theor. Biol. 2013, 325:83-102.
-
(2013)
J. Theor. Biol.
, vol.325
, pp. 83-102
-
-
Dasmahapatra, S.1
-
48
-
-
79951548111
-
Changes in selective effects over time facilitate turnover of enhancer sequences
-
Bullaughey K. Changes in selective effects over time facilitate turnover of enhancer sequences. Genetics 2011, 187:567-582.
-
(2011)
Genetics
, vol.187
, pp. 567-582
-
-
Bullaughey, K.1
-
49
-
-
84873504350
-
The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks
-
Pujato M., et al. The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks. PLoS Comput. Biol. 2013, 9:e1002865.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Pujato, M.1
-
50
-
-
38049049174
-
Monte Carlo simulation of a simple gene network yields new evolutionary insights
-
Andrecut M., et al. Monte Carlo simulation of a simple gene network yields new evolutionary insights. J. Theor. Biol. 2008, 250:468-474.
-
(2008)
J. Theor. Biol.
, vol.250
, pp. 468-474
-
-
Andrecut, M.1
-
51
-
-
45549085296
-
Predictive behavior within microbial genetic networks
-
Tagkopoulos I., et al. Predictive behavior within microbial genetic networks. Science 2008, 320:1313-1317.
-
(2008)
Science
, vol.320
, pp. 1313-1317
-
-
Tagkopoulos, I.1
-
52
-
-
52649087274
-
Modelling and analysis of gene regulatory networks
-
Karlebach G., Shamir R. Modelling and analysis of gene regulatory networks. Nat. Rev. Mol. Cell Biol. 2008, 9:770-780.
-
(2008)
Nat. Rev. Mol. Cell Biol.
, vol.9
, pp. 770-780
-
-
Karlebach, G.1
Shamir, R.2
-
53
-
-
80054798529
-
Motifs emerge from function in model gene regulatory networks
-
Burda Z., et al. Motifs emerge from function in model gene regulatory networks. Proc. Natl. Acad. Sci. U.S.A. 2011, 108:17263-17268.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 17263-17268
-
-
Burda, Z.1
-
54
-
-
66249092825
-
An analytically solvable model for rapid evolution of modular structure
-
Kashtan N., et al. An analytically solvable model for rapid evolution of modular structure. PLoS Comput. Biol. 2009, 5:e1000355.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Kashtan, N.1
-
55
-
-
35348853077
-
Varying environments can speed up evolution
-
Kashtan N., et al. Varying environments can speed up evolution. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:13711-13716.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, pp. 13711-13716
-
-
Kashtan, N.1
-
56
-
-
57149097265
-
Facilitated variation: how evolution learns from past environments to generalize to new environments
-
Parter M., et al. Facilitated variation: how evolution learns from past environments to generalize to new environments. PLoS Comput. Biol. 2008, 4:e1000206.
-
(2008)
PLoS Comput. Biol.
, vol.4
-
-
Parter, M.1
-
57
-
-
48249134043
-
Evolution of evolvability in gene regulatory networks
-
Crombach A., Hogeweg P. Evolution of evolvability in gene regulatory networks. PLoS Comput. Biol. 2008, 4:e1000112.
-
(2008)
PLoS Comput. Biol.
, vol.4
-
-
Crombach, A.1
Hogeweg, P.2
-
58
-
-
60649098397
-
The evolutionary dynamics of evolvability in a gene network model
-
Draghi J., Wagner G.P. The evolutionary dynamics of evolvability in a gene network model. J. Evol. Biol. 2009, 22:599-611.
-
(2009)
J. Evol. Biol.
, vol.22
, pp. 599-611
-
-
Draghi, J.1
Wagner, G.P.2
-
59
-
-
0033518234
-
From molecular to modular cell biology
-
Hartwell L.H., et al. From molecular to modular cell biology. Nature 1999, 402:C47-C52.
-
(1999)
Nature
, vol.402
-
-
Hartwell, L.H.1
-
61
-
-
68149110046
-
Extinctions in heterogeneous environments and the evolution of modularity
-
Kashtan N., et al. Extinctions in heterogeneous environments and the evolution of modularity. Evolution 2009, 63:1964-1975.
-
(2009)
Evolution
, vol.63
, pp. 1964-1975
-
-
Kashtan, N.1
-
62
-
-
2942677286
-
Networks, dynamics, and modularity
-
Variano E.A., et al. Networks, dynamics, and modularity. Phys. Rev. Lett. 2004, 92:188701.
-
(2004)
Phys. Rev. Lett.
, vol.92
, pp. 188701
-
-
Variano, E.A.1
-
63
-
-
0034547631
-
Duplication of modules facilitates the evolution of functional specialization
-
Calabretta R., et al. Duplication of modules facilitates the evolution of functional specialization. Artif. Life 2000, 6:69-84.
-
(2000)
Artif. Life
, vol.6
, pp. 69-84
-
-
Calabretta, R.1
-
64
-
-
36248936497
-
The road to modularity
-
Wagner G.P., et al. The road to modularity. Nat. Rev. Genet. 2007, 8:921-931.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 921-931
-
-
Wagner, G.P.1
-
65
-
-
34547396004
-
The frailty of adaptive hypotheses for the origins of organismal complexity
-
Lynch M. The frailty of adaptive hypotheses for the origins of organismal complexity. Proc. Natl. Acad. Sci. U.S.A. 2007, 104(Suppl. 1):8597-8604.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, Issue.SUPPL. 1
, pp. 8597-8604
-
-
Lynch, M.1
-
66
-
-
0029661331
-
Does evolutionary plasticity evolve?
-
Wagner A. Does evolutionary plasticity evolve?. Evolution 1996, 50:1008-1023.
-
(1996)
Evolution
, vol.50
, pp. 1008-1023
-
-
Wagner, A.1
-
67
-
-
0030162729
-
Genetic redundancy caused by gene duplications and its evolution in networks of transcriptional regulators
-
Wagner A. Genetic redundancy caused by gene duplications and its evolution in networks of transcriptional regulators. Biol. Cybern. 1996, 74:557-567.
-
(1996)
Biol. Cybern.
, vol.74
, pp. 557-567
-
-
Wagner, A.1
-
68
-
-
0034634395
-
The evolutionary fate and consequences of duplicate genes
-
Lynch M., Conery J.S. The evolutionary fate and consequences of duplicate genes. Science 2000, 290:1151-1155.
-
(2000)
Science
, vol.290
, pp. 1151-1155
-
-
Lynch, M.1
Conery, J.S.2
-
69
-
-
84859632524
-
Duplicate retention after small- and large-scale duplications
-
Wiley, D.A. Liberles, K. Dittmar (Eds.)
-
Maere S., Van de Peer Y. Duplicate retention after small- and large-scale duplications. Evolution after Gene Duplication 2010, 31-56. Wiley. D.A. Liberles, K. Dittmar (Eds.).
-
(2010)
Evolution after Gene Duplication
, pp. 31-56
-
-
Maere, S.1
Van de Peer, Y.2
-
71
-
-
51149203927
-
Canalization of development and the inheritance of acquired characters
-
Waddington C.H. Canalization of development and the inheritance of acquired characters. Science 1942, 150:563-565.
-
(1942)
Science
, vol.150
, pp. 563-565
-
-
Waddington, C.H.1
-
73
-
-
84873308222
-
Guided evolution of in silico microbial populations in complex environments accelerates evolutionary rates through a step-wise adaptation
-
Mozhayskiy V., Tagkopoulos I. Guided evolution of in silico microbial populations in complex environments accelerates evolutionary rates through a step-wise adaptation. BMC Bioinformatics 2012, 13:S10.
-
(2012)
BMC Bioinformatics
, vol.13
-
-
Mozhayskiy, V.1
Tagkopoulos, I.2
-
74
-
-
36348992094
-
Robustness and evolvability: a paradox resolved
-
Wagner A. Robustness and evolvability: a paradox resolved. Proc. R. Soc. Lond. B: Biol. Sci. 2008, 275:91-100.
-
(2008)
Proc. R. Soc. Lond. B: Biol. Sci.
, vol.275
, pp. 91-100
-
-
Wagner, A.1
-
75
-
-
84902650318
-
Robustness, evolvability, and the logic of genetic regulation
-
Payne J.L., et al. Robustness, evolvability, and the logic of genetic regulation. Artif. Life 2014, 20:111-126.
-
(2014)
Artif. Life
, vol.20
, pp. 111-126
-
-
Payne, J.L.1
-
76
-
-
77955844575
-
Robustness and evolvability
-
Masel J., Trotter M.V. Robustness and evolvability. Trends Genet. 2010, 26:406-414.
-
(2010)
Trends Genet.
, vol.26
, pp. 406-414
-
-
Masel, J.1
Trotter, M.V.2
-
77
-
-
84894229927
-
The robustness and evolvability of transcription factor binding sites
-
Payne J.L., Wagner A. The robustness and evolvability of transcription factor binding sites. Science 2014, 343:875-877.
-
(2014)
Science
, vol.343
, pp. 875-877
-
-
Payne, J.L.1
Wagner, A.2
-
78
-
-
33847650979
-
Robustness and evolvability in genetic regulatory networks
-
Aldana M., et al. Robustness and evolvability in genetic regulatory networks. J. Theor. Biol. 2007, 245:433-448.
-
(2007)
J. Theor. Biol.
, vol.245
, pp. 433-448
-
-
Aldana, M.1
-
79
-
-
84866931077
-
Criticality is an emergent property of genetic networks that exhibit evolvability
-
Torres-Sosa C., et al. Criticality is an emergent property of genetic networks that exhibit evolvability. PLoS Comput. Biol. 2012, 8:e1002669.
-
(2012)
PLoS Comput. Biol.
, vol.8
-
-
Torres-Sosa, C.1
-
80
-
-
84871432617
-
Environmental noise, genetic diversity and the evolution of evolvability and robustness in model gene networks
-
Steiner C.F. Environmental noise, genetic diversity and the evolution of evolvability and robustness in model gene networks. PLoS ONE 2012, 10.1371/journal.pone.0052204.
-
(2012)
PLoS ONE
-
-
Steiner, C.F.1
-
81
-
-
84877624028
-
The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth
-
Pechenick D.A., et al. The influence of assortativity on the robustness and evolvability of gene regulatory networks upon gene birth. J. Theor. Biol. 2013, 330:26-36.
-
(2013)
J. Theor. Biol.
, vol.330
, pp. 26-36
-
-
Pechenick, D.A.1
-
82
-
-
84866535011
-
Whole genome duplication affects evolvability of flowering time in an autotetraploid plant
-
Martin S.L., Husband B.C. Whole genome duplication affects evolvability of flowering time in an autotetraploid plant. PLoS ONE 2012, 10.1371/journal.pone.0044784.
-
(2012)
PLoS ONE
-
-
Martin, S.L.1
Husband, B.C.2
-
84
-
-
33846551980
-
Empirical fitness landscapes reveal accessible evolutionary paths
-
Poelwijk F.J., et al. Empirical fitness landscapes reveal accessible evolutionary paths. Nature 2007, 445:383-386.
-
(2007)
Nature
, vol.445
, pp. 383-386
-
-
Poelwijk, F.J.1
-
85
-
-
80855127462
-
The causes of epistasis
-
de Visser J.A.G.M., et al. The causes of epistasis. Proc. Biol. Sci. 2011, 278:3617-3624.
-
(2011)
Proc. Biol. Sci.
, vol.278
, pp. 3617-3624
-
-
de Visser, J.A.G.M.1
-
86
-
-
84867781208
-
Epistasis as the primary factor in molecular evolution
-
Breen M.S., et al. Epistasis as the primary factor in molecular evolution. Nature 2012, 490:535-538.
-
(2012)
Nature
, vol.490
, pp. 535-538
-
-
Breen, M.S.1
-
87
-
-
78650592680
-
Reciprocal sign epistasis is a necessary condition for multi-peaked fitness landscapes
-
Poelwijk F.J., et al. Reciprocal sign epistasis is a necessary condition for multi-peaked fitness landscapes. J. Theor. Biol. 2011, 272:141-144.
-
(2011)
J. Theor. Biol.
, vol.272
, pp. 141-144
-
-
Poelwijk, F.J.1
-
88
-
-
84882790991
-
Experiments on the role of deleterious mutations as stepping stones in adaptive evolution
-
Covert A.W., et al. Experiments on the role of deleterious mutations as stepping stones in adaptive evolution. Proc. Natl. Acad. Sci. U.S.A. 2013, 110:E3171-E3178.
-
(2013)
Proc. Natl. Acad. Sci. U.S.A.
, vol.110
-
-
Covert, A.W.1
-
89
-
-
21044446722
-
Rapid evolutionary escape by large populations from local fitness peaks is likely in nature
-
Weinreich D.M., Chao L. Rapid evolutionary escape by large populations from local fitness peaks is likely in nature. Evolution 2005, 59:1175-1182.
-
(2005)
Evolution
, vol.59
, pp. 1175-1182
-
-
Weinreich, D.M.1
Chao, L.2
-
90
-
-
0001650545
-
A multilevel neuromolecular architecture that uses the extradimensional bypass principle to facilitate evolutionary learning
-
Chen J.C., Conrad M. A multilevel neuromolecular architecture that uses the extradimensional bypass principle to facilitate evolutionary learning. Phys. D 1994, 75:417-437.
-
(1994)
Phys. D
, vol.75
, pp. 417-437
-
-
Chen, J.C.1
Conrad, M.2
-
91
-
-
0002314711
-
Towards high evolvability dynamics
-
Kluwer Academic Publishers, G. Van de Vijver (Ed.)
-
Conrad M. Towards high evolvability dynamics. Evolutionary Systems 1998, 33-43. Kluwer Academic Publishers. G. Van de Vijver (Ed.).
-
(1998)
Evolutionary Systems
, pp. 33-43
-
-
Conrad, M.1
-
92
-
-
0036139281
-
Extradimensional bypass
-
Cariani P.A. Extradimensional bypass. Biosystems 2002, 64:47-53.
-
(2002)
Biosystems
, vol.64
, pp. 47-53
-
-
Cariani, P.A.1
-
93
-
-
0031284943
-
Evolution and speciation on holey adaptive landscapes
-
Gavrilets S. Evolution and speciation on holey adaptive landscapes. Trends Ecol. Evol. 1997, 12:307-312.
-
(1997)
Trends Ecol. Evol.
, vol.12
, pp. 307-312
-
-
Gavrilets, S.1
-
94
-
-
0032804774
-
A dynamical theory of speciation on holey adaptive landscapes
-
Gavrilets S. A dynamical theory of speciation on holey adaptive landscapes. Am. Nat. 1999, 154:1-22.
-
(1999)
Am. Nat.
, vol.154
, pp. 1-22
-
-
Gavrilets, S.1
-
95
-
-
0028504136
-
Evolution escapes rugged fitness landscapes by gene or genome doubling: the blessing of higher dimensionality
-
Gordon R. Evolution escapes rugged fitness landscapes by gene or genome doubling: the blessing of higher dimensionality. Comput. Chem. 1994, 18:325-331.
-
(1994)
Comput. Chem.
, vol.18
, pp. 325-331
-
-
Gordon, R.1
-
96
-
-
79961148205
-
Tradeoffs and optimality in the evolution of gene regulation
-
Poelwijk F.J., et al. Tradeoffs and optimality in the evolution of gene regulation. Cell 2011, 146:462-470.
-
(2011)
Cell
, vol.146
, pp. 462-470
-
-
Poelwijk, F.J.1
-
97
-
-
84861663597
-
Evolutionary trade-offs, Pareto optimality, and the geometry of phenotype space
-
Shoval O., et al. Evolutionary trade-offs, Pareto optimality, and the geometry of phenotype space. Science 2012, 336:1157-1160.
-
(2012)
Science
, vol.336
, pp. 1157-1160
-
-
Shoval, O.1
-
98
-
-
84873635856
-
Evolutionary potential, cross-stress behavior and the genetic basis of acquired stress resistance in Escherichia coli
-
Dragosits M., et al. Evolutionary potential, cross-stress behavior and the genetic basis of acquired stress resistance in Escherichia coli. Mol. Syst. Biol. 2013, 9:643.
-
(2013)
Mol. Syst. Biol.
, vol.9
, pp. 643
-
-
Dragosits, M.1
-
99
-
-
35148863240
-
Gene duplication and the adaptive evolution of a classic genetic switch
-
Hittinger C.T., Carroll S.B. Gene duplication and the adaptive evolution of a classic genetic switch. Nature 2007, 449. 677-681.
-
(2007)
Nature
, vol.449
, pp. 677-681
-
-
Hittinger, C.T.1
Carroll, S.B.2
-
100
-
-
49649114289
-
Escape from adaptive conflict after duplication in an anthocyanin pathway gene
-
Des Marais D.L., Rausher M.D. Escape from adaptive conflict after duplication in an anthocyanin pathway gene. Nature 2008, 454:762-765.
-
(2008)
Nature
, vol.454
, pp. 762-765
-
-
Des Marais, D.L.1
Rausher, M.D.2
-
101
-
-
84871697209
-
Reconstruction of ancestral metabolic enzymes reveals molecular mechanisms underlying evolutionary innovation through gene duplication
-
Voordeckers K., et al. Reconstruction of ancestral metabolic enzymes reveals molecular mechanisms underlying evolutionary innovation through gene duplication. PLoS Biol. 2012, 10:e1001446.
-
(2012)
PLoS Biol.
, vol.10
-
-
Voordeckers, K.1
-
102
-
-
84857374810
-
Enzyme functional evolution through improved catalysis of ancestrally nonpreferred substrates
-
Huang R.Q., et al. Enzyme functional evolution through improved catalysis of ancestrally nonpreferred substrates. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:2966-2971.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 2966-2971
-
-
Huang, R.Q.1
-
103
-
-
84866267075
-
Escape from adaptive conflict follows from weak functional trade-offs and mutational robustness
-
Sikosek T., et al. Escape from adaptive conflict follows from weak functional trade-offs and mutational robustness. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:14888-14893.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 14888-14893
-
-
Sikosek, T.1
-
104
-
-
71149122029
-
Mechanism of auxin-regulated gene expression in plants
-
Chapman E.J., Estelle M. Mechanism of auxin-regulated gene expression in plants. Annu. Rev. Genet. 2009, 43:265-285.
-
(2009)
Annu. Rev. Genet.
, vol.43
, pp. 265-285
-
-
Chapman, E.J.1
Estelle, M.2
-
105
-
-
79960090553
-
The auxin signalling network translates dynamic input into robust patterning at the shoot apex
-
Vernoux T., et al. The auxin signalling network translates dynamic input into robust patterning at the shoot apex. Mol. Syst. Biol. 2011, 7:508.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 508
-
-
Vernoux, T.1
-
106
-
-
84871824918
-
Evolution of the ARF gene family in land plants: old domains, new tricks
-
Finet C., et al. Evolution of the ARF gene family in land plants: old domains, new tricks. Mol. Biol. Evol. 2013, 30:45-56.
-
(2013)
Mol. Biol. Evol.
, vol.30
, pp. 45-56
-
-
Finet, C.1
-
108
-
-
84878312692
-
Auxin: simply complicated
-
Sauer M., et al. Auxin: simply complicated. J. Exp. Bot. 2013, 64:2565-2577.
-
(2013)
J. Exp. Bot.
, vol.64
, pp. 2565-2577
-
-
Sauer, M.1
-
109
-
-
33845634412
-
Cell cycle regulation in plant development
-
Inze D., De Veylder L. Cell cycle regulation in plant development. Annu. Rev. Genet. 2006, 40:77-105.
-
(2006)
Annu. Rev. Genet.
, vol.40
, pp. 77-105
-
-
Inze, D.1
De Veylder, L.2
-
110
-
-
34547095229
-
The ins and outs of the plant cell cycle
-
De Veylder L., et al. The ins and outs of the plant cell cycle. Nat. Rev. Mol. Cell Biol. 2007, 8:655-665.
-
(2007)
Nat. Rev. Mol. Cell Biol.
, vol.8
, pp. 655-665
-
-
De Veylder, L.1
-
111
-
-
84862206403
-
Control of the plant cell cycle by developmental and environmental cues
-
Komaki S., Sugimoto K. Control of the plant cell cycle by developmental and environmental cues. Plant Cell Physiol. 2012, 53:953-964.
-
(2012)
Plant Cell Physiol.
, vol.53
, pp. 953-964
-
-
Komaki, S.1
Sugimoto, K.2
-
112
-
-
84864818803
-
Developmental and evolutionary diversity of plant MADS-domain factors: insights from recent studies
-
Smaczniak C., et al. Developmental and evolutionary diversity of plant MADS-domain factors: insights from recent studies. Development 2012, 139:3081-3098.
-
(2012)
Development
, vol.139
, pp. 3081-3098
-
-
Smaczniak, C.1
-
113
-
-
0345581665
-
The major clades of MADS-box genes and their role in the development and evolution of flowering plants
-
Becker A., Theissen G. The major clades of MADS-box genes and their role in the development and evolution of flowering plants. Mol. Phylogenet. Evol. 2003, 29:464-489.
-
(2003)
Mol. Phylogenet. Evol.
, vol.29
, pp. 464-489
-
-
Becker, A.1
Theissen, G.2
-
114
-
-
84859323553
-
Poppy APETALA1/FRUITFULL orthologs control flowering time, branching, perianth identity, and fruit development
-
Pabon-Mora N., et al. Poppy APETALA1/FRUITFULL orthologs control flowering time, branching, perianth identity, and fruit development. Plant Physiol. 2012, 158:1685-1704.
-
(2012)
Plant Physiol.
, vol.158
, pp. 1685-1704
-
-
Pabon-Mora, N.1
-
115
-
-
15944373717
-
The evolution of the SEPALLATA subfamily of MADS-box genes: a preangiosperm origin with multiple duplications throughout angiosperm history
-
Zahn L.M., et al. The evolution of the SEPALLATA subfamily of MADS-box genes: a preangiosperm origin with multiple duplications throughout angiosperm history. Genetics 2005, 169:2209-2223.
-
(2005)
Genetics
, vol.169
, pp. 2209-2223
-
-
Zahn, L.M.1
-
116
-
-
33847634233
-
Evidence of interaction network evolution by whole-genome duplications: a case study in MADS-box proteins
-
Veron A.S., et al. Evidence of interaction network evolution by whole-genome duplications: a case study in MADS-box proteins. Mol. Biol. Evol. 2007, 24:670-678.
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 670-678
-
-
Veron, A.S.1
-
118
-
-
73349088723
-
MPF2-like-A MADS-box genes control the inflated calyx syndrome in Withania (Solanaceae): roles of Darwinian selection
-
Khan M.R., et al. MPF2-like-A MADS-box genes control the inflated calyx syndrome in Withania (Solanaceae): roles of Darwinian selection. Mol. Biol. Evol. 2009, 26:2463-2473.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 2463-2473
-
-
Khan, M.R.1
-
119
-
-
75949090237
-
Characterization of the possible roles for B class MADS box genes in regulation of perianth formation in orchid
-
Chang Y.Y., et al. Characterization of the possible roles for B class MADS box genes in regulation of perianth formation in orchid. Plant Physiol. 2010, 152:837-853.
-
(2010)
Plant Physiol.
, vol.152
, pp. 837-853
-
-
Chang, Y.Y.1
-
120
-
-
79958210171
-
Conserved differential expression of paralogous DEFICIENS- and GLOBOSA-like MADS-box genes in the flowers of Orchidaceae: refining the 'orchid code'
-
Mondragon-Palomino M., Theissen G. Conserved differential expression of paralogous DEFICIENS- and GLOBOSA-like MADS-box genes in the flowers of Orchidaceae: refining the 'orchid code'. Plant J. 2011, 66:1008-1019.
-
(2011)
Plant J.
, vol.66
, pp. 1008-1019
-
-
Mondragon-Palomino, M.1
Theissen, G.2
-
121
-
-
81855211081
-
Gene duplication and loss in a MADS box gene transcription factor circuit
-
Lee H.L., Irish V.F. Gene duplication and loss in a MADS box gene transcription factor circuit. Mol. Biol. Evol. 2011, 28:3367-3380.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 3367-3380
-
-
Lee, H.L.1
Irish, V.F.2
-
122
-
-
79958782576
-
Robustness and evolvability in the B-system of flower development
-
Geuten K., et al. Robustness and evolvability in the B-system of flower development. Ann. Bot. 2011, 107:1545-1556.
-
(2011)
Ann. Bot.
, vol.107
, pp. 1545-1556
-
-
Geuten, K.1
-
123
-
-
84869018936
-
Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-box gene and species diversification
-
Vekemans D., et al. Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-box gene and species diversification. Mol. Biol. Evol. 2012, 29:3793-3806.
-
(2012)
Mol. Biol. Evol.
, vol.29
, pp. 3793-3806
-
-
Vekemans, D.1
-
124
-
-
84883129653
-
FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes
-
Ruelens P., et al. FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes. Nat. Commun. 2013, 10.1038/ncomms3280.
-
(2013)
Nat. Commun.
-
-
Ruelens, P.1
-
125
-
-
3543024524
-
Contrasting modes of diversification in the Aux/IAA and ARF gene families
-
Remington D.L., et al. Contrasting modes of diversification in the Aux/IAA and ARF gene families. Plant Physiol. 2004, 135:1738-1752.
-
(2004)
Plant Physiol.
, vol.135
, pp. 1738-1752
-
-
Remington, D.L.1
-
126
-
-
84867123491
-
Expansive evolution of the TREHALOSE-6-PHOSPHATE PHOSPHATASE gene family in Arabidopsis
-
Vandesteene L., et al. Expansive evolution of the TREHALOSE-6-PHOSPHATE PHOSPHATASE gene family in Arabidopsis. Plant Physiol. 2012, 160:884-896.
-
(2012)
Plant Physiol.
, vol.160
, pp. 884-896
-
-
Vandesteene, L.1
-
127
-
-
79955630390
-
Ancestral polyploidy in seed plants and angiosperms
-
Jiao Y., et al. Ancestral polyploidy in seed plants and angiosperms. Nature 2011, 473:97-100.
-
(2011)
Nature
, vol.473
, pp. 97-100
-
-
Jiao, Y.1
-
128
-
-
70549110074
-
The flowering world: a tale of duplications
-
Van de Peer Y., et al. The flowering world: a tale of duplications. Trends Plant Sci. 2009, 14:680-688.
-
(2009)
Trends Plant Sci.
, vol.14
, pp. 680-688
-
-
Van de Peer, Y.1
-
129
-
-
60249085527
-
Polyploidy and angiosperm diversification
-
Soltis D.E., et al. Polyploidy and angiosperm diversification. Am. J. Bot. 2009, 96:336-348.
-
(2009)
Am. J. Bot.
, vol.96
, pp. 336-348
-
-
Soltis, D.E.1
-
130
-
-
23044465906
-
Paralogs in polyploids: one for all and all for one?
-
Veitia R.A. Paralogs in polyploids: one for all and all for one?. Plant Cell 2005, 17:4-11.
-
(2005)
Plant Cell
, vol.17
, pp. 4-11
-
-
Veitia, R.A.1
-
131
-
-
77950949952
-
The gene balance hypothesis: implications for gene regulation, quantitative traits and evolution
-
Birchler J.A., Veitia R.A. The gene balance hypothesis: implications for gene regulation, quantitative traits and evolution. New Phytol. 2010, 186:54-62.
-
(2010)
New Phytol.
, vol.186
, pp. 54-62
-
-
Birchler, J.A.1
Veitia, R.A.2
-
132
-
-
17244368487
-
Modeling gene and genome duplications in eukaryotes
-
Maere S., et al. Modeling gene and genome duplications in eukaryotes. Proc. Natl. Acad. Sci. U.S.A. 2005, 102:5454-5459.
-
(2005)
Proc. Natl. Acad. Sci. U.S.A.
, vol.102
, pp. 5454-5459
-
-
Maere, S.1
-
133
-
-
67651039811
-
Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition
-
Freeling M. Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transposition. Annu. Rev. Plant Biol. 2009, 60:433-453.
-
(2009)
Annu. Rev. Plant Biol.
, vol.60
, pp. 433-453
-
-
Freeling, M.1
-
134
-
-
70349325524
-
The evolutionary significance of ancient genome duplications
-
Van de Peer Y., et al. The evolutionary significance of ancient genome duplications. Nat. Rev. Genet. 2009, 10:725-732.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 725-732
-
-
Van de Peer, Y.1
-
135
-
-
84930751493
-
Significance and biological consequences of polyploidization in land plant evolution
-
Springer-Verlag, J. Greilhuber (Ed.)
-
Fawcett J.A., et al. Significance and biological consequences of polyploidization in land plant evolution. Plant Genome Diversity 2013, 277-293. Springer-Verlag. J. Greilhuber (Ed.).
-
(2013)
Plant Genome Diversity
, pp. 277-293
-
-
Fawcett, J.A.1
-
136
-
-
27144519666
-
Genome duplication and the origin of angiosperms
-
De Bodt S., et al. Genome duplication and the origin of angiosperms. Trends Ecol. Evol. 2005, 20:591-597.
-
(2005)
Trends Ecol. Evol.
, vol.20
, pp. 591-597
-
-
De Bodt, S.1
-
137
-
-
33745610025
-
Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity
-
Freeling M., Thomas B.C. Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity. Genome Res. 2006, 16:805-814.
-
(2006)
Genome Res.
, vol.16
, pp. 805-814
-
-
Freeling, M.1
Thomas, B.C.2
-
138
-
-
56549119570
-
Turning a hobby into a job: how duplicated genes find new functions
-
Conant G.C., Wolfe K.H. Turning a hobby into a job: how duplicated genes find new functions. Nat. Rev. Genet. 2008, 9:938-950.
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 938-950
-
-
Conant, G.C.1
Wolfe, K.H.2
-
139
-
-
65249143921
-
Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event
-
Fawcett J.A., et al. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:5737-5742.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 5737-5742
-
-
Fawcett, J.A.1
-
140
-
-
84899949136
-
Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution
-
(in press)
-
Vanneste K., et al. Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution. Proc. Biol. Sci. 2014, (in press).
-
(2014)
Proc. Biol. Sci.
-
-
Vanneste, K.1
-
141
-
-
84879412664
-
Genomic and epigenetic insights into the molecular bases of heterosis
-
Chen Z.J. Genomic and epigenetic insights into the molecular bases of heterosis. Nat. Rev. Genet. 2013, 14:471-482.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 471-482
-
-
Chen, Z.J.1
-
142
-
-
84881243153
-
Polyploids exhibit higher potassium uptake and salinity tolerance in Arabidopsis
-
Chao D.Y., et al. Polyploids exhibit higher potassium uptake and salinity tolerance in Arabidopsis. Science 2013, 341:658-659.
-
(2013)
Science
, vol.341
, pp. 658-659
-
-
Chao, D.Y.1
-
143
-
-
34547611439
-
Increased glycolytic flux as an outcome of whole-genome duplication in yeast
-
Conant G.C., Wolfe K.H. Increased glycolytic flux as an outcome of whole-genome duplication in yeast. Mol. Syst. Biol. 2007, 3:129.
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 129
-
-
Conant, G.C.1
Wolfe, K.H.2
-
144
-
-
73349113515
-
Metabolic adaptation after whole genome duplication
-
van Hoek M.J.A., Hogeweg P. Metabolic adaptation after whole genome duplication. Mol. Biol. Evol. 2009, 26:2441-2453.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 2441-2453
-
-
van Hoek, M.J.A.1
Hogeweg, P.2
-
145
-
-
66049128566
-
Distinguishing among evolutionary models for the maintenance of gene duplicates
-
Hahn M.W. Distinguishing among evolutionary models for the maintenance of gene duplicates. J. Hered. 2009, 100:605-617.
-
(2009)
J. Hered.
, vol.100
, pp. 605-617
-
-
Hahn, M.W.1
-
146
-
-
36348960081
-
Spontaneous emergence of modularity in cellular networks
-
Sole R.V., Valverde S. Spontaneous emergence of modularity in cellular networks. J. R. Soc. Interface 2008, 5:129-133.
-
(2008)
J. R. Soc. Interface
, vol.5
, pp. 129-133
-
-
Sole, R.V.1
Valverde, S.2
-
147
-
-
34248191692
-
A system for studying evolution of life-like virtual organisms
-
Neyfakh A.A., et al. A system for studying evolution of life-like virtual organisms. Biol. Direct 2006, 1:23.
-
(2006)
Biol. Direct
, vol.1
, pp. 23
-
-
Neyfakh, A.A.1
-
148
-
-
78049427562
-
Evolution of gene regulatory networks by fluctuating selection and intrinsic constraints
-
Tsuda M.E., Kawata M. Evolution of gene regulatory networks by fluctuating selection and intrinsic constraints. PLoS Comput. Biol. 2010, 6:e1000873.
-
(2010)
PLoS Comput. Biol.
, vol.6
-
-
Tsuda, M.E.1
Kawata, M.2
-
149
-
-
34547461293
-
Emerging principles of regulatory evolution
-
Prud'homme B., et al. Emerging principles of regulatory evolution. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:8605-8612.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, pp. 8605-8612
-
-
Prud'homme, B.1
-
150
-
-
80051471463
-
Evolutionary bioscience as regulatory systems biology
-
Davidson E.H. Evolutionary bioscience as regulatory systems biology. Dev. Biol. 2011, 357:35-40.
-
(2011)
Dev. Biol.
, vol.357
, pp. 35-40
-
-
Davidson, E.H.1
-
151
-
-
34247855863
-
The locus of evolution: evo devo and the genetics of adaptation
-
Hoekstra H.E., Coyne J.A. The locus of evolution: evo devo and the genetics of adaptation. Evolution 2007, 61:995-1016.
-
(2007)
Evolution
, vol.61
, pp. 995-1016
-
-
Hoekstra, H.E.1
Coyne, J.A.2
-
152
-
-
33744942360
-
Evolutionary potential of a duplicated repressor-operator pair: simulating pathways using mutation data
-
Poelwijk F.J., et al. Evolutionary potential of a duplicated repressor-operator pair: simulating pathways using mutation data. PLoS Comput. Biol. 2006, 2:e58.
-
(2006)
PLoS Comput. Biol.
, vol.2
-
-
Poelwijk, F.J.1
-
153
-
-
15744387380
-
Transcriptional regulation by the numbers: models
-
Bintu L., et al. Transcriptional regulation by the numbers: models. Curr. Opin. Genet. Dev. 2005, 15:116-124.
-
(2005)
Curr. Opin. Genet. Dev.
, vol.15
, pp. 116-124
-
-
Bintu, L.1
-
154
-
-
33749137281
-
Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene
-
Janssens H., et al. Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene. Nat. Genet. 2006, 38:1159-1165.
-
(2006)
Nat. Genet.
, vol.38
, pp. 1159-1165
-
-
Janssens, H.1
-
155
-
-
38749127589
-
Predicting expression patterns from regulatory sequence in Drosophila segmentation
-
Segal E., et al. Predicting expression patterns from regulatory sequence in Drosophila segmentation. Nature 2008, 451:535-540.
-
(2008)
Nature
, vol.451
, pp. 535-540
-
-
Segal, E.1
-
156
-
-
84881556764
-
A synthetic biology approach to the development of transcriptional regulatory models and custom enhancer design
-
Martinez C.A., et al. A synthetic biology approach to the development of transcriptional regulatory models and custom enhancer design. Methods 2013, 62:91-98.
-
(2013)
Methods
, vol.62
, pp. 91-98
-
-
Martinez, C.A.1
-
157
-
-
79955564964
-
Polyploidy and ecological adaptation in wild yarrow
-
Ramsey J. Polyploidy and ecological adaptation in wild yarrow. Proc. Natl. Acad. Sci. U.S.A. 2011, 108:7096-7101.
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 7096-7101
-
-
Ramsey, J.1
-
158
-
-
33846002036
-
Transcriptional regulation by competing transcription factor modules
-
Hermsen R., et al. Transcriptional regulation by competing transcription factor modules. PLoS Comput. Biol. 2006, 2:1552-1560.
-
(2006)
PLoS Comput. Biol.
, vol.2
, pp. 1552-1560
-
-
Hermsen, R.1
-
159
-
-
79952257690
-
Epistatic interaction maps relative to multiple metabolic phenotypes
-
Snitkin E.S., Segre D. Epistatic interaction maps relative to multiple metabolic phenotypes. PLoS Genet. 2011, 7:e1001294.
-
(2011)
PLoS Genet.
, vol.7
-
-
Snitkin, E.S.1
Segre, D.2
|