-
1
-
-
0015133749
-
Self-organization of matter and the the evolution of biological macromolecules
-
10.1007/BF00623322. 4942363
-
Self-organization of matter and the the evolution of biological macromolecules. M Eigen, Naturwissenschaften 1971 58 465 523 10.1007/BF00623322 4942363
-
(1971)
Naturwissenschaften
, vol.58
, pp. 465-523
-
-
Eigen, M.1
-
3
-
-
0030030533
-
Smoothness within ruggedness: The role of neutrality in adaptation
-
8552647. 10.1073/pnas.93.1.397
-
Smoothness within ruggedness: the role of neutrality in adaptation. MA Huynen PF Stadler W Fontana, Proc Natl Acad Sci USA 1996 93 397 401 8552647 10.1073/pnas.93.1.397
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 397-401
-
-
Huynen, M.A.1
Stadler, P.F.2
Fontana, W.3
-
4
-
-
0034667684
-
Plasticity, evolvability, and modularity in RNA
-
10.1002/1097-010X(20001015)288:3<242::AID-JEZ5>3.0.CO;2-O. 11069142
-
Plasticity, evolvability, and modularity in RNA. LW Ancel W Fontana, J Exp Zool 2000 288 242 283 10.1002/1097-010X(20001015)288:3<242::AID- JEZ5>3.0.CO;2-O 11069142
-
(2000)
J Exp Zool
, vol.288
, pp. 242-283
-
-
Ancel, L.W.1
Fontana, W.2
-
5
-
-
0036903361
-
Modelling 'evo-devo' with RNA
-
10.1002/bies.10190. 12447981
-
Modelling 'evo-devo' with RNA. W Fontana, BioEssays 2002 24 1164 1177 10.1002/bies.10190 12447981
-
(2002)
BioEssays
, vol.24
, pp. 1164-1177
-
-
Fontana, W.1
-
6
-
-
0028196714
-
From sequences to shapes and back: A case study in RNA secondary structures
-
10.1098/rspb.1994.0040
-
From sequences to shapes and back: A case study in RNA secondary structures. P Schuster W Fontana PF Stadler IL Hofacker, Proc Roy Soc London B 1994 255 279 284 10.1098/rspb.1994.0040
-
(1994)
Proc Roy Soc London B
, vol.255
, pp. 279-284
-
-
Schuster, P.1
Fontana, W.2
Stadler, P.F.3
Hofacker, I.L.4
-
7
-
-
0031105866
-
Generic properties of combinatory maps: Neutral networks of RNA secondary structures
-
10.1007/BF02462007. 9116604
-
Generic properties of combinatory maps: neutral networks of RNA secondary structures. C Reidys PF Stadler P Schuster, Bull Math Biol 1997 59 339 397 10.1007/BF02462007 9116604
-
(1997)
Bull Math Biol
, vol.59
, pp. 339-397
-
-
Reidys, C.1
Stadler, P.F.2
Schuster, P.3
-
8
-
-
0033578335
-
Neutral evolution of mutational robustness
-
10449760. 10.1073/pnas.96.17.9716
-
Neutral evolution of mutational robustness. E van Nimwegen JP Crutchfield M Huynen, Proc Natl Acad Sci USA 1999 96 9716 9720 10449760 10.1073/pnas.96.17.9716
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 9716-9720
-
-
Van Nimwegen, E.1
Crutchfield, J.P.2
Huynen, M.3
-
9
-
-
0038606979
-
Exploring the repertoire of RNA secondary motifs using graph theory; Implications for RNA design
-
12771219. 10.1093/nar/gkg365
-
Exploring the repertoire of RNA secondary motifs using graph theory; implications for RNA design. HH Gan S Pasquali T Schlick, Nucl Acids Res 2003 31 2926 2943 12771219 10.1093/nar/gkg365
-
(2003)
Nucl Acids Res
, vol.31
, pp. 2926-2943
-
-
Gan, H.H.1
Pasquali, S.2
Schlick, T.3
-
10
-
-
0032577365
-
Continuity in evolution: On the nature of transitions
-
10.1126/science.280.5368.1451. 9603737
-
Continuity in evolution: On the nature of transitions. W Fontana P Schuster, Science 1998 280 1451 1455 10.1126/science.280.5368.1451 9603737
-
(1998)
Science
, vol.280
, pp. 1451-1455
-
-
Fontana, W.1
Schuster, P.2
-
11
-
-
0037469371
-
Evolution of mutational robustness
-
12517406
-
Evolution of mutational robustness. CO Wilke C Adami, Mutat Res 2003 522 3 11 12517406
-
(2003)
Mutat Res
, vol.522
, pp. 3-11
-
-
Wilke, C.O.1
Adami, C.2
-
12
-
-
15244359731
-
Phenotypic error threshold; Additivity and epistasis in RNA evolution
-
15691379. 10.1186/1471-2148-5-9
-
Phenotypic error threshold; additivity and epistasis in RNA evolution. N Takeuchi PH Poorthuis P Hogeweg, BMC Evol Biol 2005 5 9 15691379 10.1186/1471-2148-5-9
-
(2005)
BMC Evol Biol
, vol.5
, pp. 9
-
-
Takeuchi, N.1
Poorthuis, P.H.2
Hogeweg, P.3
-
13
-
-
33645910535
-
Viral evolution
-
10.1016/j.plrev.2005.11.002
-
Viral evolution. SC Manrubia E Lázaro, Phys Life Rev 2006 3 65 92 10.1016/j.plrev.2005.11.002
-
(2006)
Phys Life Rev
, vol.3
, pp. 65-92
-
-
Manrubia, S.C.1
Lázaro, E.2
-
14
-
-
0017806301
-
Nucleotide sequence heterogeneity of an RNA phage population
-
10.1016/0092-8674(78)90223-4. 657273
-
Nucleotide sequence heterogeneity of an RNA phage population. E Domingo D Sabo T Taniguchi C Weissmann, Cell 1978 13 735 744 10.1016/0092-8674(78)90223-4 657273
-
(1978)
Cell
, vol.13
, pp. 735-744
-
-
Domingo, E.1
Sabo, D.2
Taniguchi, T.3
Weissmann, C.4
-
15
-
-
0025284804
-
Mutation frequencies at defined single codon sites in vesicular stomatitis virus and poliovirus can be increased only slightly by chemical mutagenesis
-
1695258
-
Mutation frequencies at defined single codon sites in vesicular stomatitis virus and poliovirus can be increased only slightly by chemical mutagenesis. JJ Holland E Domingo JC de la Torre DA Steinhauer, J Virol 1990 64 3960 3962 1695258
-
(1990)
J Virol
, vol.64
, pp. 3960-3962
-
-
Holland, J.J.1
Domingo, E.2
De La Torre, J.C.3
Steinhauer, D.A.4
-
16
-
-
0141633021
-
Resistance of virus to extinction on bottleneck passages: Study of a decaying and fluctuating pattern of fitness loss
-
12960384. 10.1073/pnas.1332668100
-
Resistance of virus to extinction on bottleneck passages: Study of a decaying and fluctuating pattern of fitness loss. E Lázaro C Escarmís JP Mercader SC Manrubia E Domingo, Proc Natl Acad Sci USA 2003 100 10830 10835 12960384 10.1073/pnas.1332668100
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 10830-10835
-
-
Lázaro, E.1
Escarmís, C.2
Mercader, J.P.3
Manrubia, S.C.4
Domingo, E.5
-
17
-
-
33846018059
-
The fittest versus the flattest: Experimental confirmation of the quasispecies effect with subviral pathogens
-
10.1371/journal.ppat.0020136
-
The fittest versus the flattest: Experimental confirmation of the quasispecies effect with subviral pathogens. FM Codoner JA Daros RV Sole SF Elena, PLoS Pathogens 2006 2 1187 1193 10.1371/journal.ppat.0020136
-
(2006)
PLoS Pathogens
, vol.2
, pp. 1187-1193
-
-
Codoner, F.M.1
Daros, J.A.2
Sole, R.V.3
Elena, S.F.4
-
19
-
-
0024974481
-
Error threshold of replication in finite populations. Mutation frequencies and the onset of Muller's ratchet
-
2626057. 10.1016/S0022-5193(89)80146-8
-
Error threshold of replication in finite populations. Mutation frequencies and the onset of Muller's ratchet. M Nowak P Schuster, J Theor Biol 1989 137 375 395 2626057 10.1016/S0022-5193(89)80146-8
-
(1989)
J Theor Biol
, vol.137
, pp. 375-395
-
-
Nowak, M.1
Schuster, P.2
-
20
-
-
33845914331
-
Modular evolution and increase of functional complexity in replicating RNA molecules
-
17105993. 10.1261/rna.203006
-
Modular evolution and increase of functional complexity in replicating RNA molecules. SC Manrubia C Briones, RNA 2007 13 97 107 17105993 10.1261/rna.203006
-
(2007)
RNA
, vol.13
, pp. 97-107
-
-
Manrubia, S.C.1
Briones, C.2
-
21
-
-
0000829918
-
Error threshold for molecular quasispecies as phase transitions: From simple landscapes to spin-glass models
-
10.1103/PhysRevA.45.6038. 9907704
-
Error threshold for molecular quasispecies as phase transitions: From simple landscapes to spin-glass models. P Tarazona, Phys Rev A 1992 45 6038 6050 10.1103/PhysRevA.45.6038 9907704
-
(1992)
Phys Rev a
, vol.45
, pp. 6038-6050
-
-
Tarazona, P.1
-
22
-
-
11844274684
-
The error threshold
-
10.1016/j.virusres.2004.11.002. 15649558
-
The error threshold. CK Biebricher M Eigen, Virus Res 2005 107 117 127 10.1016/j.virusres.2004.11.002 15649558
-
(2005)
Virus Res
, vol.107
, pp. 117-127
-
-
Biebricher, C.K.1
Eigen, M.2
-
23
-
-
84959609205
-
On evolutionary adjustment of spontaneous mutation rates
-
On evolutionary adjustment of spontaneous mutation rates. M Kimura, Gen Res 1967 9 23
-
(1967)
Gen Res
, vol.9
, pp. 23
-
-
Kimura, M.1
-
24
-
-
0030573545
-
The inheritance of phenotypes: An adaptation to fluctuating environments
-
10.1006/jtbi.1996.0109. 8796186
-
The inheritance of phenotypes: an adaptation to fluctuating environments. M Lachmann E Jablonska, J Theor Biol 1996 181 1 9 10.1006/jtbi.1996.0109 8796186
-
(1996)
J Theor Biol
, vol.181
, pp. 1-9
-
-
Lachmann, M.1
Jablonska, E.2
-
25
-
-
4143091655
-
Evolvability is a selectable trait
-
15289608. 10.1073/pnas.0404656101
-
Evolvability is a selectable trait. DJ Earl MW Deem, Proc Natl Acad Sci USA 2004 101 11531 11536 15289608 10.1073/pnas.0404656101
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 11531-11536
-
-
Earl, D.J.1
Deem, M.W.2
-
26
-
-
84957712937
-
Error thresholds and their relation to optimal mutation rates
-
Springer-Verlag Floreano D, Nicoud JD, Mondada F
-
Error thresholds and their relation to optimal mutation rates. G Ochoa I Harvey H Buxton, Proc Fifth Europ Conf Artif Life (ECAL99), Lecture Notes in Artificial Intelligence Springer-Verlag, Floreano D, Nicoud JD, Mondada F, 1999 54 63
-
(1999)
Proc Fifth Europ Conf Artif Life (ECAL99), Lecture Notes in Artificial Intelligence
, pp. 54-63
-
-
Ochoa, G.1
Harvey, I.2
Buxton, H.3
-
27
-
-
33847256353
-
The speed of evolution and maintenance of variation in asexual populations
-
10.1016/j.cub.2007.01.072. 17331728
-
The speed of evolution and maintenance of variation in asexual populations. MM Desai DS Fisher AW Murray, Curr Biol 2007 17 385 394 10.1016/j.cub.2007.01.072 17331728
-
(2007)
Curr Biol
, vol.17
, pp. 385-394
-
-
Desai, M.M.1
Fisher, D.S.2
Murray, A.W.3
-
28
-
-
0035544542
-
Selection for fitness vs. selection for robustness in RNA secondary structure folding
-
11831657
-
Selection for fitness vs. selection for robustness in RNA secondary structure folding. CO Wilke, Evolution 2001 55 2412 2420 11831657
-
(2001)
Evolution
, vol.55
, pp. 2412-2420
-
-
Wilke, C.O.1
-
29
-
-
0028502408
-
Landscapes: Complex optimization problems and biopolymer structures
-
10.1016/0097-8485(94)85025-9
-
Landscapes: Complex optimization problems and biopolymer structures. P Schuster PF Stadler, Computers & Chem 1994 18 295 324 10.1016/0097-8485(94) 85025-9
-
(1994)
Computers & Chem
, vol.18
, pp. 295-324
-
-
Schuster, P.1
Stadler, P.F.2
-
30
-
-
0033598717
-
Mutation rates among RNA viruses
-
10570172. 10.1073/pnas.96.24.13910
-
Mutation rates among RNA viruses. JW Drake JJ Holland, Proc Natl Acad Sci USA 1999 96 13910 13913 10570172 10.1073/pnas.96.24.13910
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 13910-13913
-
-
Drake, J.W.1
Holland, J.J.2
-
31
-
-
0026528541
-
5-Azacytidine and RNA secondary structure increase the retrovirus mutation rate
-
1373201
-
5-Azacytidine and RNA secondary structure increase the retrovirus mutation rate. VK Pathak HM Temin, J Virol 1992 66 3093 3100 1373201
-
(1992)
J Virol
, vol.66
, pp. 3093-3100
-
-
Pathak, V.K.1
Temin, H.M.2
-
32
-
-
0031000316
-
The antiretrovirus drug 3'-Azido-3'-Deoxythymidine increases the retrovirus mutation rate
-
9151812
-
The antiretrovirus drug 3'-Azido-3'-Deoxythymidine increases the retrovirus mutation rate. JG Julias T Kim G Arnold VK Pathak, J Virol 1997 71 4254 4263 9151812
-
(1997)
J Virol
, vol.71
, pp. 4254-4263
-
-
Julias, J.G.1
Kim, T.2
Arnold, G.3
Pathak, V.K.4
-
33
-
-
0030747157
-
RNA virus mutations and fitness for survival
-
10.1146/annurev.micro.51.1.151. 9343347
-
RNA virus mutations and fitness for survival. E Domingo JJ Holland, Annu Rev Microbiol 1997 51 151 178 10.1146/annurev.micro.51.1.151 9343347
-
(1997)
Annu Rev Microbiol
, vol.51
, pp. 151-178
-
-
Domingo, E.1
Holland, J.J.2
-
34
-
-
0032853242
-
In vitro selection of functional nucleic acids
-
10.1146/annurev.biochem.68.1.611. 10872462
-
In vitro selection of functional nucleic acids. DS Wilson JW Szostak, Annu Rev Biochem 1999 68 611 647 10.1146/annurev.biochem.68.1.611 10872462
-
(1999)
Annu Rev Biochem
, vol.68
, pp. 611-647
-
-
Wilson, D.S.1
Szostak, J.W.2
-
35
-
-
3042732096
-
Directed evolution of nucleic acid enzymes
-
10.1146/annurev.biochem.73.011303.073717. 15189159
-
Directed evolution of nucleic acid enzymes. GF Joyce, Annu Rev Biochem 2004 73 791 836 10.1146/annurev.biochem.73.011303.073717 15189159
-
(2004)
Annu Rev Biochem
, vol.73
, pp. 791-836
-
-
Joyce, G.F.1
-
36
-
-
33846486686
-
Accumulation of deleterious mutations in small abiotic populations of RNA
-
17110480. 10.1534/genetics.106.066142
-
Accumulation of deleterious mutations in small abiotic populations of RNA. SJ Soll C Díaz-Arenas N Lehman, Genetics 2007 175 267 275 17110480 10.1534/genetics.106.066142
-
(2007)
Genetics
, vol.175
, pp. 267-275
-
-
Soll, S.J.1
Díaz-Arenas, C.2
Lehman, N.3
-
37
-
-
25144450882
-
Real ribozymes suggest a relaxed error threshold
-
10.1038/ng1621. 16127452
-
Real ribozymes suggest a relaxed error threshold. A Kun M Santos E Szathmáry, Nat Genet 2005 37 1008 1011 10.1038/ng1621 16127452
-
(2005)
Nat Genet
, vol.37
, pp. 1008-1011
-
-
Kun, A.1
Santos, M.2
Szathmáry, E.3
-
38
-
-
0023811909
-
Stationary mutant distributions and evolutionary optimization
-
3219448
-
Stationary mutant distributions and evolutionary optimization. P Schuster J Swetina, Bull Math Biol 1988 50 635 660 3219448
-
(1988)
Bull Math Biol
, vol.50
, pp. 635-660
-
-
Schuster, P.1
Swetina, J.2
-
39
-
-
33748087487
-
Evolution of fast mutating replicators-RNA viruses and the RNA world
-
10.1016/j.physa.2006.04.092
-
Evolution of fast mutating replicators-RNA viruses and the RNA world. SC Manrubia, Physica A 2006 371 80 83 10.1016/j.physa.2006.04.092
-
(2006)
Physica a
, vol.371
, pp. 80-83
-
-
Manrubia, S.C.1
-
41
-
-
0036600570
-
The accuracy of ribosomal RNA comparative structure models
-
10.1016/S0959-440X(02)00339-1
-
The accuracy of ribosomal RNA comparative structure models. RR Gutell JC Lee JJ Cannone, Curr Opin Struct Biol 2002 8 301 310 10.1016/S0959-440X(02) 00339-1
-
(2002)
Curr Opin Struct Biol
, vol.8
, pp. 301-310
-
-
Gutell, R.R.1
Lee, J.C.2
Cannone, J.J.3
-
42
-
-
0035875458
-
Hepatitis C virus internal ribosome entry site RNA contains a tertiary structural element in a functional domain of stem-loop II
-
11410661. 10.1093/nar/29.12.2535
-
Hepatitis C virus internal ribosome entry site RNA contains a tertiary structural element in a functional domain of stem-loop II. AJ Lyons JR Lytle J Gómez HD Robertson, Nucleic Acids Res 2001 29 2535 2541 11410661 10.1093/nar/29.12.2535
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2535-2541
-
-
Lyons, A.J.1
Lytle, J.R.2
Gómez, J.3
Robertson, H.D.4
-
43
-
-
31044449305
-
Evidence of reciprocal tertiary interactions between conserved motifs involved in organizing RNA structure essential for internal initiation of translation
-
16373480. 10.1261/rna.2153206
-
Evidence of reciprocal tertiary interactions between conserved motifs involved in organizing RNA structure essential for internal initiation of translation. O Fernandez-Miragall R Ramos J Ramajo E Martinez-Salas, RNA 2006 12 223 234 16373480 10.1261/rna.2153206
-
(2006)
RNA
, vol.12
, pp. 223-234
-
-
Fernandez-Miragall, O.1
Ramos, R.2
Ramajo, J.3
Martinez-Salas, E.4
-
44
-
-
0347691435
-
Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing
-
14519201. 10.1186/gb-2003-4-10-r66
-
Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing. J Castle P Garrett-Engele CD Armour SJ Duenwald PM Loerch MR Meyer EE Schadt R Stoughton ML Parrish DD Shoemaker JM Johnson, Genome Biol 2003 4 R66 14519201 10.1186/gb-2003-4-10-r66
-
(2003)
Genome Biol
, vol.4
, pp. 66
-
-
Castle, J.1
Garrett-Engele, P.2
Armour, C.D.3
Duenwald, S.J.4
Loerch, P.M.5
Meyer, M.R.6
Schadt, E.E.7
Stoughton, R.8
Parrish, M.L.9
Shoemaker, D.D.10
Johnson, J.M.11
-
45
-
-
3042817386
-
Structural analysis of hepatitis C RNA genome using DNA microarrays
-
15247323. 10.1093/nar/gnh088
-
Structural analysis of hepatitis C RNA genome using DNA microarrays. M Martell C Briones A de Vicente M Piron JI Esteban R Esteban J Guardia J Gómez, Nucleic Acids Res 2004 32 e90 15247323 10.1093/nar/gnh088
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 90
-
-
Martell, M.1
Briones, C.2
De Vicente, A.3
Piron, M.4
Esteban, J.I.5
Esteban, R.6
Guardia, J.7
Gómez, J.8
-
46
-
-
8844269125
-
Nucleic acid crystallography: Current progress
-
Nucleic acid crystallography: current progress. M Egli, Curr Opin Struct Biol 2004 8 6 580 591
-
(2004)
Curr Opin Struct Biol
, vol.8
, Issue.6
, pp. 580-591
-
-
Egli, M.1
-
47
-
-
24744459633
-
NMR methods for studying the structure and dynamics of RNA
-
10.1002/cbic.200500123. 16138301
-
NMR methods for studying the structure and dynamics of RNA. MP Latham DJ Brown SA McCallum A Pardi, Chembiochem 2005 6 1492 1505 10.1002/cbic.200500123 16138301
-
(2005)
Chembiochem
, vol.6
, pp. 1492-1505
-
-
Latham, M.P.1
Brown, D.J.2
McCallum, S.A.3
Pardi, A.4
-
48
-
-
2442705213
-
Conserved RNA secondary structures in Flaviviridae genomes
-
10.1099/vir.0.19462-0. 15105528
-
Conserved RNA secondary structures in Flaviviridae genomes. C Thurner C Witwer IL Hofacker PF Stadler, J Gen Virol 2004 85 1113 1124 10.1099/vir.0.19462-0 15105528
-
(2004)
J Gen Virol
, vol.85
, pp. 1113-1124
-
-
Thurner, C.1
Witwer, C.2
Hofacker, I.L.3
Stadler, P.F.4
-
49
-
-
4344619191
-
Detection of genome-scale ordered RNA structure (GORS) in genomes of positive-stranded RNA viruses: Implication for virus evolution and host persistence
-
15273323. 10.1261/rna.7640104
-
Detection of genome-scale ordered RNA structure (GORS) in genomes of positive-stranded RNA viruses: implication for virus evolution and host persistence. P Simmonds A Tuplin DJ Evans, RNA 2004 10 1337 1351 15273323 10.1261/rna.7640104
-
(2004)
RNA
, vol.10
, pp. 1337-1351
-
-
Simmonds, P.1
Tuplin, A.2
Evans, D.J.3
-
50
-
-
33751099319
-
Minority memory genomes can influence the evolution of HIV-1 quasispecies in vivo
-
10.1016/j.gene.2006.07.037. 17059869
-
Minority memory genomes can influence the evolution of HIV-1 quasispecies in vivo. C Briones A de Vicente C Molina-Paris E Domingo, Gene 2006 384 129 138 10.1016/j.gene.2006.07.037 17059869
-
(2006)
Gene
, vol.384
, pp. 129-138
-
-
Briones, C.1
De Vicente, A.2
Molina-Paris, C.3
Domingo, E.4
-
51
-
-
33747602081
-
RNA structural motifs: Building blocks of a modular biomolecule
-
10.1017/S0033583506004215. 16817983
-
RNA structural motifs: building blocks of a modular biomolecule. DK Hendrix SE Brenner SR Holbrook, Q Rev Biophys 2005 38 221 243 10.1017/S0033583506004215 16817983
-
(2005)
Q Rev Biophys
, vol.38
, pp. 221-243
-
-
Hendrix, D.K.1
Brenner, S.E.2
Holbrook, S.R.3
|