-
1
-
-
0038483826
-
Emergence of scaling in random networks
-
Barabási, A. L. and Albert, R., Emergence of scaling in random networks, Science 286 (1999) 509-512.
-
(1999)
Science
, vol.286
, pp. 509-512
-
-
Barabási, A.L.1
Albert, R.2
-
2
-
-
33846018059
-
The fittest versus the flattest: Experimental confirmation of the quasispecies effect with subviral pathogens
-
Codoner, F. M., Darós, J. A., Solè, R. V. and Elena, S. F., The fittest versus the flattest: Experimental confirmation of the quasispecies effect with subviral pathogens, PLoS Path. 2 (2006) e136.
-
(2006)
PLoS Path.
, vol.2
-
-
Codoner, F.M.1
Darós, J.A.2
Solè, R.V.3
Elena, S.F.4
-
3
-
-
33750485329
-
From bad to good: Fitness reversals and the ascent of deleterious mutations
-
Cowperthwaite, M. C., Bull, J. J. and Ancel Meyers, L., From bad to good: Fitness reversals and the ascent of deleterious mutations, PLoS Comp. Biol. 2 (2006) e141.
-
(2006)
PLoS Comp. Biol.
, vol.2
-
-
Cowperthwaite, M.C.1
Bull, J.J.2
Ancel Meyers, L.3
-
4
-
-
48249115639
-
The ascent of the abundant: How mutational networks constrain evolution
-
Cowperthwaite, M. C., Economo, E. P., Harcombe, W. R., Miller, E. L. and Ancel Meyers, L., The ascent of the abundant: How mutational networks constrain evolution, PLoS Comp. Biol. 4 (2008) e1000110.
-
(2008)
PLoS Comp. Biol.
, vol.4
-
-
Cowperthwaite, M.C.1
Economo, E.P.2
Harcombe, W.R.3
Miller, E.L.4
Ancel Meyers, L.5
-
5
-
-
0026079830
-
Phylogeny of viroids, viroidlike satellite RNAs, and the viroidlike domain of hepatitis δ virus RNA
-
Elena, S. F., Dopazo, J., Flores, R., Diener, T. O. and Moya, A., Phylogeny of viroids, viroidlike satellite RNAs, and the viroidlike domain of hepatitis δ virus RNA, Proc. Natl. Acad. Sci. USA 88 (1991) 5631-5634. (Pubitemid 21914799)
-
(1991)
Proceedings of the National Academy of Sciences of the United States of America
, vol.88
, Issue.13
, pp. 5631-5634
-
-
Elena, S.F.1
Dopazo, J.2
Flores, R.3
Diener, T.O.4
Moya, A.5
-
6
-
-
34447546660
-
The distribution of fitness effects of new mutations
-
DOI 10.1038/nrg2146, PII NRG2146
-
Eyre-Walker, A. and Keightley, P. D., The distribution of fitness effects of new mutations, Nat. Rev. Genet. 8 (2007) 610-618. (Pubitemid 47077280)
-
(2007)
Nature Reviews Genetics
, vol.8
, Issue.8
, pp. 610-618
-
-
Eyre-Walker, A.1
Keightley, P.D.2
-
7
-
-
0036903361
-
Modelling èvo-devo' with RNA
-
Fontana W.
-
Fontana, W., Modelling èvo-devo' with RNA, BioEssays 24 (2002) 1164-1177.
-
(2002)
BioEssays
, vol.24
, pp. 1164-1177
-
-
-
8
-
-
0027657182
-
Statistics of RNA secondary structures
-
Fontana, W., Konings, D. A. M., Stadler, P. F. and Schuster, P., Statistics of RNA secondary structures, Biopolymers 33 (1993) 1389-1404.
-
(1993)
Biopolymers
, vol.33
, pp. 1389-1404
-
-
Fontana, W.1
Konings, D.A.M.2
Stadler, P.F.3
Schuster, P.4
-
9
-
-
0032577365
-
Continuity in evolution: On the nature of transitions
-
Fontana, W. and Schuster, P., Continuity in evolution: On the nature of transitions, Science 280 (1998) 1451-1455.
-
(1998)
Science
, vol.280
, pp. 1451-1455
-
-
Fontana, W.1
Schuster, P.2
-
10
-
-
62149152282
-
Extremely high mutation rate of a hammerhead viroid
-
Gago, S., Elena, S. F., Flores, R. and Sanjuán, R., Extremely high mutation rate of a hammerhead viroid, Science 323 (2009) 1308.
-
(2009)
Science
, vol.323
, pp. 1308
-
-
Gago, S.1
Elena, S.F.2
Flores, R.3
Sanjuán, R.4
-
11
-
-
4544339512
-
Abstract shapes of RNA
-
DOI 10.1093/nar/gkh779
-
Giegerich, R., Voß, B. and Rehmsmeier, M., Abstract shapes of RNA, Nucl. Acids Res. 32 (2004) 4843-4851. (Pubitemid 39429688)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.16
, pp. 4843-4851
-
-
Giegerich, R.1
Voss, B.2
Rehmsmeier, M.3
-
12
-
-
0020740521
-
A simple stochastic gene substitution model
-
Gillespie, J., A simple stochastic gene substitution model, Theor. Pop. Biol. 23 (1983) 202-215.
-
(1983)
Theor. Pop. Biol.
, vol.23
, pp. 202-215
-
-
Gillespie, J.1
-
13
-
-
0039577307
-
Analysis of RNA Sequence Structure Maps by Exhaustive Enumeration II. Structures of Neutral Networks and Shape Space Covering
-
Gruner, W., Giegerich, R., Strothmann, D., Reidys, C., Weber, J., Hofacker, I. L., Stadler, P. F. and Schuster, P., Analysis of RNA sequence structure maps by exhaustive enumeration. II. Structure of neutral networks and shape space covering, Monatsh. Chem. 127 (1996) 375-389. (Pubitemid 126441425)
-
(1996)
Monatshefte fur Chemie
, vol.127
, Issue.4
, pp. 375-389
-
-
Gruner, W.1
Giegerich, R.2
Strothmann, D.3
Reidys, C.4
Weber, J.5
Hofacker, I.L.6
Stadler, P.F.7
Schuster, P.8
-
14
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
Hofacker, I. L., Fontana, W., Stadler, P. F., Bonhoeffer, L. S., Tacker, M. and Schuster, P., Fast folding and comparison of RNA secondary structures, Monatsh. Chem. 125 (1994) 167-188.
-
(1994)
Monatsh. Chem.
, vol.125
, pp. 167-188
-
-
Hofacker, I.L.1
Fontana, W.2
Stadler, P.F.3
Bonhoeffer, L.S.4
Tacker, M.5
Schuster, P.6
-
15
-
-
0000287314
-
Combinatorics of RNA secondary structures
-
PII S0166218X98000730
-
Hofacker, I. L., Schuster, P. and Stadler, P. F., Combinatorics of RNA secondary structures, Discrete Appl. Math. 88 (1998) 207-237. (Pubitemid 128379054)
-
(1998)
Discrete Applied Mathematics
, vol.88
, Issue.1-3
, pp. 207-237
-
-
Hofacker, I.L.1
Schuster, P.2
Stadler, P.F.3
-
16
-
-
0030030533
-
Smoothness within ruggedness: The role of neutrality in adaptation
-
DOI 10.1073/pnas.93.1.397
-
Huynen, M. A., Stadler, P. F. and Fontana, W., Smoothness within ruggedness: The role of neutrality in adaptation, Proc. Natl. Acad. Sci. USA 93 (1996) 397-401. (Pubitemid 26038166)
-
(1996)
Proceedings of the National Academy of Sciences of the United States of America
, vol.93
, Issue.1
, pp. 397-401
-
-
Huynen, M.A.1
Stadler, P.F.2
Fontana, W.3
-
17
-
-
0348133608
-
RNA sensors: Novel regulators of gene expression
-
DOI 10.1038/sj.embor.7400005
-
Kaempfer, R., RNA sensors: Novel regulators of gene expression, EMBO Rep. 4 (2003) 1043-1047. (Pubitemid 37527421)
-
(2003)
EMBO Reports
, vol.4
, Issue.11
, pp. 1043-1047
-
-
Kaempfer, R.1
-
18
-
-
0000977985
-
The mutational load with epistatic interactions in fitness
-
Kimura, M. and Maruyama, T., The mutational load with epistatic interactions in fitness, Genetics 54 (1966) 1337-1351.
-
(1966)
Genetics
, vol.54
, pp. 1337-1351
-
-
Kimura, M.1
Maruyama, T.2
-
19
-
-
62149084484
-
The distribution of fitness effects of beneficial mutations in Pseudomonas aeruginosa
-
MacLean, R. C. and Buckling, A., The distribution of fitness effects of beneficial mutations in Pseudomonas aeruginosa, PLoS Genetics 5 (2009) e1000406.
-
(2009)
PLoS Genetics
, vol.5
-
-
Maclean, R.C.1
Buckling, A.2
-
20
-
-
33746228126
-
Tertiary Contacts Distant from the Active Site Prime a Ribozyme for Catalysis
-
DOI 10.1016/j.cell.2006.06.036, PII S0092867406008567
-
Martick, M. and Scott, W. G., Tertiary contacts distant from the active site prime a ribozyme for catalysis, Cell 126 (2006) 309-320. (Pubitemid 44092962)
-
(2006)
Cell
, vol.126
, Issue.2
, pp. 309-320
-
-
Martick, M.1
Scott, W.G.2
-
21
-
-
33846886349
-
The fitness effect of mutations across environments: A survey in light of fitness landscape models
-
DOI 10.1554/06-162.1
-
Martin, G. and Lenormand, T., The fitness effect of mutations across environments: A survey in the light of fitness landscape models, Evolution 60 (2006) 2413-2427. (Pubitemid 46220853)
-
(2006)
Evolution
, vol.60
, Issue.12
, pp. 2413-2427
-
-
Martin, G.1
Lenormand, T.2
-
22
-
-
0037398394
-
The distribution of fitness effects among beneficial mutations
-
Orr, H. A., The distribution of fitness effects among beneficial mutations, Genetics 163 (2003) 1519-1526. (Pubitemid 36523401)
-
(2003)
Genetics
, vol.163
, Issue.4
, pp. 1519-1526
-
-
Orr, H.A.1
-
23
-
-
77955475761
-
Distribution of fitness effects caused by single-nucleotide substitutions in bacteriophage f1
-
Peris, J. B., Davis, P., Cuevas, J. M., Nebot, M. R. and Sanjuán, R., Distribution of fitness effects caused by single-nucleotide substitutions in bacteriophage f1, Genetics 185 (2010) 603.
-
(2010)
Genetics
, vol.185
, pp. 603
-
-
Peris, J.B.1
Davis, P.2
Cuevas, J.M.3
Nebot, M.R.4
Sanjuán, R.5
-
24
-
-
0037199968
-
Hierarchical organization of modularity in metabolic networks
-
DOI 10.1126/science.1073374
-
Ravasz, E., Somera, A. L., Mongru, D. A., Oltvai, Z. N. and Barabási, A. L., Hierarchical organization of modularity in metabolic networks, Science 297 (2002) 1551- 1555. (Pubitemid 34971002)
-
(2002)
Science
, vol.297
, Issue.5586
, pp. 1551-1555
-
-
Ravasz, E.1
Somera, A.L.2
Mongru, D.A.3
Oltvai, Z.N.4
Barabasi, A.-L.5
-
25
-
-
0031105866
-
Generic properties of combinatory maps: Neutral networks of RNA secondary structures
-
Reidys, C., Stadler, P. F. and Schuster, P., Generic properties of combinatory maps: Neutral networks of RNA secondary structures, Bull. Math. Biol. 59 (1997) 339-397. (Pubitemid 27150355)
-
(1997)
Bulletin of Mathematical Biology
, vol.59
, Issue.2
, pp. 339-397
-
-
Reidys, C.1
Stadler, P.F.2
Schuster, P.3
-
26
-
-
54349092997
-
Beneficial fitness effects are not exponential for two viruses
-
Rokyta, D. R., Beisel, C. J., Joyce, P., Ferris, M. T., Burch, C. L. and Wichman, H. A., Beneficial fitness effects are not exponential for two viruses, J. Mol. Evol. 67 (2008) 368-376.
-
(2008)
J. Mol. Evol.
, vol.67
, pp. 368-376
-
-
Rokyta, D.R.1
Beisel, C.J.2
Joyce, P.3
Ferris, M.T.4
Burch, C.L.5
Wichman, H.A.6
-
27
-
-
16844369125
-
An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus
-
Rokyta, D. R., Joyce, P., Caudle, S. B. and Wichman, H. A., An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus, Nat. Gen. 37 (2005) 441-444.
-
(2005)
Nat. Gen.
, vol.37
, pp. 441-444
-
-
Rokyta, D.R.1
Joyce, P.2
Caudle, S.B.3
Wichman, H.A.4
-
28
-
-
77954324311
-
Mutational fitness effects in RNA and single-stranded DNA viruses: Common patterns revealed by site-directed mutagenesis studies
-
Sanjuán, R., Mutational fitness effects in RNA and single-stranded DNA viruses: Common patterns revealed by site-directed mutagenesis studies, Phil. Trans. R. Soc. B 365 (2010) 1975-1982.
-
(2010)
Phil. Trans. R. Soc. B
, vol.365
, pp. 1975-1982
-
-
Sanjuán, R.1
-
29
-
-
33745614283
-
In silico predicted robustness of viroids RNA secondary structures. I. The effect of single mutations
-
DOI 10.1093/molbev/msl005
-
Sanjuán, R., Forment, J. and Elena, S. F., In silico predicted robustness of viroids RNA secondary structures. I. The effect of single mutations, Mol. Biol. Evol. 23 (2006) 1427-1436. (Pubitemid 43992344)
-
(2006)
Molecular Biology and Evolution
, vol.23
, Issue.7
, pp. 1427-1436
-
-
Sanjuan, R.1
Forment, J.2
Elena, S.F.3
-
30
-
-
2942565781
-
The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus
-
Sanjuán, R., Moya, A. and Elena, S. F., The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus, Proc. Natl. Acad. Sci. USA 101 (2004) 8396-8401.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 8396-8401
-
-
Sanjuán, R.1
Moya, A.2
Elena, S.F.3
-
31
-
-
0034698298
-
One sequence, two ribozymes: Implications for the emergence of new ribozyme folds
-
DOI 10.1126/science.289.5478.448
-
Schultes, E. A. and Bartel, D. P., One sequence, two ribozymes: Implications for the emergence of new ribozyme folds, Science 289 (2000) 448-452. (Pubitemid 30490456)
-
(2000)
Science
, vol.289
, Issue.5478
, pp. 448-452
-
-
Schultes, E.A.1
Bartel, D.P.2
-
32
-
-
0028196714
-
From sequences to shapes and back: A case study in RNA secondary structures
-
Schuster, P., Fontana, W., Stadler, P. F. and Hofacker, I. L., From sequences to shapes and back: A case study in RNA secondary structures, Proc. R. Soc. London B 255 (1994) 279-284. (Pubitemid 24102288)
-
(1994)
Proceedings of the Royal Society B: Biological Sciences
, vol.255
, Issue.1344
, pp. 279-284
-
-
Schuster, P.1
Fontana, W.2
Stadler, P.F.3
Hofacker, I.L.4
-
33
-
-
34247349509
-
Understanding the evolutionary fate of finite populations: The dynamics of mutational effects
-
DOI 10.1371/journal.pbio.0050094
-
Silander, O. K., Tenaillon, O. and Chao, L., Understanding the evolutionary fate of finite populations: The dynamics of mutational effects, PLoS Biol. 5 (2007) 922-931. (Pubitemid 46631867)
-
(2007)
PLoS Biology
, vol.5
, Issue.4
, pp. 922-931
-
-
Silander, O.K.1
Tenaillon, O.2
Chao, L.3
-
34
-
-
77949771088
-
Phenotypic effect of mutations in evolving populations of RNA molecules
-
Stich, M., Lázaro, E. and Manrubia, S. C., Phenotypic effect of mutations in evolving populations of RNA molecules, BMC Evol. Biol. 10 (2010) 46.
-
(2010)
BMC Evol. Biol.
, vol.10
, pp. 46
-
-
Stich, M.1
Lázaro, E.2
Manrubia, S.C.3
-
35
-
-
79955507969
-
Motif frequency and evolutionary search times in RNA populations
-
Stich, M. and Manrubia, S. C., Motif frequency and evolutionary search times in RNA populations, J. Theor. Biol. 280 (2011) 117-126.
-
(2011)
J. Theor. Biol.
, vol.280
, pp. 117-126
-
-
Stich, M.1
Manrubia, S.C.2
-
36
-
-
34548511143
-
New structural variation in evolutionary searches of RNA neutral networks
-
DOI 10.1016/j.biosystems.2006.11.007, PII S0303264706002747
-
Sumedha, Martin, O. C. and Wagner, A., New structural variation in evolutionary searches of RNA neutral networks, BioSystems 90 (2007) 475-485. (Pubitemid 47371174)
-
(2007)
BioSystems
, vol.90
, Issue.2
, pp. 475-485
-
-
Sumedha1
Martin, O.C.2
Wagner, A.3
-
37
-
-
0030444757
-
Algorithm independent properties of RNA secondary structure predictions
-
DOI 10.1007/s002490050023
-
Tacker, M., Stadler, P. F., Bornberg-Bauer, E. G., Hofacker, I. L. and Schuster, P., Algorithm independent properties of RNA structure predictions, Eur. Biophys. J. 25 (1996) 115-130. (Pubitemid 27026515)
-
(1996)
European Biophysics Journal
, vol.25
, Issue.2
, pp. 115-130
-
-
Tacker, M.1
Stadler, P.F.2
Bornberg-Bauer, E.G.3
Hofacker, I.L.4
Schuster, P.5
-
38
-
-
0033578335
-
Neutral evolution of mutational robustness
-
DOI 10.1073/pnas.96.17.9716
-
van Nimwegen, E., Crutchfield, J. P. and Huynen,M., Neutral evolution of mutational robustness, Proc. Natl. Acad. Sci. USA 96 (1999) 9716-9720 (Pubitemid 29398798)
-
(1999)
Proceedings of the National Academy of Sciences of the United States of America
, vol.96
, Issue.17
, pp. 9716-9720
-
-
Van Nimwegen, E.1
Crutchfield, J.P.2
Huynen, M.3
-
39
-
-
60149086351
-
Origin, biogenesis, and activity of plant microRNAs
-
Voinnet, O., Origin, biogenesis, and activity of plant microRNAs, Cell 136 (2009) 669-687.
-
(2009)
Cell
, vol.136
, pp. 669-687
-
-
Voinnet, O.1
-
40
-
-
0001509501
-
Secondary structure of single-stranded nucleic acids, Studies in Foundations and Combinatorics
-
Waterman, M. S., Secondary structure of single-stranded nucleic acids, Studies in Foundations and Combinatorics. Advances in Mathematics Supplementary Studies 1 (1978) 167-212.
-
(1978)
Advances in Mathematics Supplementary Studies
, vol.1
, pp. 167-212
-
-
Waterman, M.S.1
-
41
-
-
0034919014
-
Interaction between directional epistasis and average mutational effects
-
DOI 10.1098/rspb.2001.1690
-
Wilke, C. O. and Adami, C., Interaction between directional epistasis and average mutational effects, Proc. Roy. Soc. B 268 (2001) 1469-1474. (Pubitemid 32675433)
-
(2001)
Proceedings of the Royal Society B: Biological Sciences
, vol.268
, Issue.1475
, pp. 1469-1474
-
-
Wilke, C.O.1
Adami, C.2
-
42
-
-
1842507188
-
Compensatory mutations cause excess of antagonistic epistasis in RNA secondary structure folding
-
Wilke, C. O., Lenski, R. E. and C., A., Compensatory mutations cause excess of antagonistic epistasis in RNA secondary structure folding, BMC Evol. Biol. 3 (2003) 3.
-
(2003)
BMC Evol. Biol.
, vol.3
, pp. 3
-
-
Wilke, C.O.1
Lenski, R.E.C.A.2
|