-
1
-
-
0038763997
-
NK fitness landscapes
-
In: Bäck T, Fogel DB, Michalevicz Z, chapter B 2.7.2. Oxford University Press, Oxford, UK, pp 2.7.5–2.7.10
-
Altenberg L (1997) NK fitness landscapes. In: Bäck T, Fogel DB, Michalevicz Z (eds) Handbook of evlutionary computation, chapter B 2.7.2. Oxford University Press, Oxford, UK, pp 2.7.5–2.7.10
-
(1997)
Handbook of Evlutionary Computation
-
-
Altenberg, L.1
-
2
-
-
38049021986
-
Kinetics of autocatalysis in small systems
-
Arslan E, Laurenzi IJ (2008) Kinetics of autocatalysis in small systems. J Chem Phys 128:e015101
-
(2008)
J Chem Phys
, vol.128
-
-
Arslan, E.1
Laurenzi, I.J.2
-
3
-
-
84907532641
-
Experimental fitness landscapes to understand the molecular evolution of RNA-based life
-
Athavale SS, Spicer B, Chen IA (2014) Experimental fitness landscapes to understand the molecular evolution of RNA-based life. Curr Opin Chem Biol 22:35–39
-
(2014)
Curr Opin Chem Biol
, vol.22
, pp. 35-39
-
-
Athavale, S.S.1
Spicer, B.2
Chen, I.A.3
-
4
-
-
0000307578
-
Ising quantum chain is equivalent to a model of biological evolution
-
Baake E, Baake M, Wagner H (1997) Ising quantum chain is equivalent to a model of biological evolution. Phys Rev Lett 78:559–562
-
(1997)
Phys Rev Lett
, vol.78
, pp. 559-562
-
-
Baake, E.1
Baake, M.2
Wagner, H.3
-
5
-
-
0001108223
-
Biological evolution through mutation, selection, and drift: An introductory review
-
In: Stauffer D, World Scientific, Singapore
-
Baake E, Gabriel W (1999) Biological evolution through mutation, selection, and drift: an introductory review. In: Stauffer D (ed) Annual review of computational physics VII. World Scientific, Singapore, pp 203–264
-
(1999)
Annual Review of Computational Physics VII
, pp. 203-264
-
-
Baake, E.1
Gabriel, W.2
-
6
-
-
0034890399
-
Mutation-selection models solved exactly with methods of statistical mechanics
-
Baake E, Wagner H (2001) Mutation-selection models solved exactly with methods of statistical mechanics. Genet Res Camb 78:93–117
-
(2001)
Genet Res Camb
, vol.78
, pp. 93-117
-
-
Baake, E.1
Wagner, H.2
-
7
-
-
34247881991
-
Analysis of epistatic interactions and fitness landscapes using a new geometric approach
-
Beerenwinkel N, Pachter L, Sturmfels B, Elena SF, Lenski RE (2007) Analysis of epistatic interactions and fitness landscapes using a new geometric approach. BMC Evol Biol 7:e60
-
(2007)
BMC Evol Biol
, vol.7
-
-
Beerenwinkel, N.1
Pachter, L.2
Sturmfels, B.3
Elena, S.F.4
Lenski, R.E.5
-
8
-
-
33751106943
-
Fitness effects of beneficial mutations: The mutational landscape model in experimental evolution
-
Betancourt AJ, Bollback JP (2006) Fitness effects of beneficial mutations: the mutational landscape model in experimental evolution. Curr Opin Genet Dev 16:618–623
-
(2006)
Curr Opin Genet Dev
, vol.16
, pp. 618-623
-
-
Betancourt, A.J.1
Bollback, J.P.2
-
9
-
-
0001980570
-
Darwinian selection of self-replicating RNA molecules
-
In: Hecht MK, Wallace B, Prance GT, Plenum Publishing Corporation, New York
-
Biebricher CK (1983) Darwinian selection of self-replicating RNA molecules. In: Hecht MK, Wallace B, Prance GT (eds) Evolutionary biology, vol 16. Plenum Publishing Corporation, New York, pp 1–52
-
(1983)
Evolutionary Biology
, vol.16
, pp. 1-52
-
-
Biebricher, C.K.1
-
11
-
-
0021754248
-
Kinetics of RNA replication: Plus-minus asymmetry and double-strand formation
-
Biebricher CK, Eigen M, William C, Gardiner J (1984) Kinetics of RNA replication: plus-minus asymmetry and double-strand formation. Biochemistry 23:3186–3194
-
(1984)
Biochemistry
, vol.23
, pp. 3186-3194
-
-
Biebricher, C.K.1
Eigen, M.2
William, C.3
Gardiner, J.4
-
12
-
-
0022384429
-
Kinetics of RNA replication: Competition and selection among self-replicating RNA species
-
Biebricher CK, Eigen M, William C, Gardiner J (1985) Kinetics of RNA replication: competition and selection among self-replicating RNA species. Biochemistry 24:6550–6560
-
(1985)
Biochemistry
, vol.24
, pp. 6550-6560
-
-
Biebricher, C.K.1
Eigen, M.2
William, C.3
Gardiner, J.4
-
13
-
-
84908102212
-
Linear algebra of the permutation invariant Crow-Kimura model of prebiotic evolution
-
Bratus AS, Novozhilov AS, Semenov YS (2014) Linear algebra of the permutation invariant Crow-Kimura model of prebiotic evolution. Math Biosci 256:42–57
-
(2014)
Math Biosci
, vol.256
, pp. 42-57
-
-
Bratus, A.S.1
Novozhilov, A.S.2
Semenov, Y.S.3
-
14
-
-
7344226239
-
Mathematical properties of mutation-selection models
-
Bürger R (1998) Mathematical properties of mutation-selection models. Genetica 102(103):279–298
-
(1998)
Genetica
, vol.102
, Issue.103
, pp. 279-298
-
-
Bürger, R.1
-
15
-
-
0025079181
-
Mutation-selection balance and the evolutionary advantage of sex and recombination
-
Charlesworth B (1990) Mutation-selection balance and the evolutionary advantage of sex and recombination. Genet Res Camb 55:199–221
-
(1990)
Genet Res Camb
, vol.55
, pp. 199-221
-
-
Charlesworth, B.1
-
16
-
-
84901742626
-
Mapping the fitness landscape of gene expression uncovers the cause of antagonism and sign epistasis between adaptive mutations
-
Chou H-H, Delaney NF, Draghi JA, Marx CJ (2014) Mapping the fitness landscape of gene expression uncovers the cause of antagonism and sign epistasis between adaptive mutations. PLoS Genet 10:e1004149
-
(2014)
Plos Genet
, vol.10
-
-
Chou, H.-H.1
Delaney, N.F.2
Draghi, J.A.3
Marx, C.J.4
-
17
-
-
0003834965
-
-
Harper & Row, New York (Reprinted at The Blackburn Press, Caldwell, NJ, 2009)
-
Crow JF, Kimura M (1970) An introduction to population genetics theory. Harper & Row, New York (Reprinted at The Blackburn Press, Caldwell, NJ, 2009)
-
(1970)
An Introduction to Population Genetics Theory
-
-
Crow, J.F.1
Kimura, M.2
-
20
-
-
34547484735
-
Theory of spin glasses
-
Edwards SF, Anderson PW (1975) Theory of spin glasses. J Phys F 5:965–974
-
(1975)
J Phys F
, vol.5
, pp. 965-974
-
-
Edwards, S.F.1
Erson, P.W.2
-
21
-
-
0015133749
-
Selforganization of matter and the evolution of biological macromolecules
-
Eigen M (1971) Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58:465–523
-
(1971)
Naturwissenschaften
, vol.58
, pp. 465-523
-
-
Eigen, M.1
-
24
-
-
0017667182
-
The hypercycle. A principle of natural self-organization. Part A: Emergence of the hypercycle
-
Eigen M, Schuster P (1977) The hypercycle. A principle of natural self-organization. Part A: emergence of the hypercycle. Naturwissenschaften 64:541–565
-
(1977)
Naturwissenschaften
, vol.64
, pp. 541-565
-
-
Eigen, M.1
Schuster, P.2
-
25
-
-
0018085524
-
The hypercycle. A principle of natural self-organization. Part B: The abstract hypercycle
-
Eigen M, Schuster P (1978) The hypercycle. A principle of natural self-organization. Part B: the abstract hypercycle. Naturwissenschaften 65:7–41
-
(1978)
Naturwissenschaften
, vol.65
, pp. 7-41
-
-
Eigen, M.1
Schuster, P.2
-
26
-
-
0020356301
-
Stages of emerging life—five principles of early organization
-
Eigen M, Schuster P (1982) Stages of emerging life—five principles of early organization. J Mol Evol 19:47–61
-
(1982)
J Mol Evol
, vol.19
, pp. 47-61
-
-
Eigen, M.1
Schuster, P.2
-
27
-
-
37749019678
-
Virus evolution: Insights from an experimental approach
-
Elena SF, Sanjuán R (2007) Virus evolution: insights from an experimental approach. Annu Rev Ecol Evol Syst 58:27–52
-
(2007)
Annu Rev Ecol Evol Syst
, vol.58
, pp. 27-52
-
-
Elena, S.F.1
Sanjuán, R.2
-
28
-
-
0001540595
-
On random graphs. I
-
Erdös P, Rényi A (1959) On random graphs. I. Publ Math 6:290–295
-
(1959)
Publ Math
, vol.6
, pp. 290-295
-
-
Erdös, P.1
Rényi, A.2
-
30
-
-
0002222865
-
Average excess and average effect of a gene substitution
-
Fisher RA (1941) Average excess and average effect of a gene substitution. Ann Eugenics 11:53–63
-
(1941)
Ann Eugenics
, vol.11
, pp. 53-63
-
-
Fisher, R.A.1
-
31
-
-
0000647969
-
Statistics of landscapes based od free energies, replication and degradation rate constants of RNA secondary structures
-
Fontana W, Griesmacher T, Schnabl W, Stadler PF, Schuster P (1991) Statistics of landscapes based od free energies, replication and degradation rate constants of RNA secondary structures. Mon Chem 122:795–819
-
(1991)
Mon Chem
, vol.122
, pp. 795-819
-
-
Fontana, W.1
Griesmacher, T.2
Schnabl, W.3
Stadler, P.F.4
Schuster, P.5
-
33
-
-
0000654132
-
Physical aspects of evolutionary optimization and adaptation
-
Fontana W, Schnabl W, Schuster P (1989) Physical aspects of evolutionary optimization and adaptation. Phys Rev A 40:3301–3321
-
(1989)
Phys Rev A
, vol.40
, pp. 3301-3321
-
-
Fontana, W.1
Schnabl, W.2
Schuster, P.3
-
34
-
-
0023648965
-
A computer model of evolutionary optimization
-
Fontana W, Schuster P (1987) A computer model of evolutionary optimization. Biophys Chem 26:123–147
-
(1987)
Biophys Chem
, vol.26
, pp. 123-147
-
-
Fontana, W.1
Schuster, P.2
-
35
-
-
0032577365
-
Continuity in evolution. On the nature of transitions
-
Fontana W, Schuster P (1998a) Continuity in evolution. On the nature of transitions. Science 280:1451–1455
-
(1998)
Science
, vol.280
, pp. 1451-1455
-
-
Fontana, W.1
Schuster, P.2
-
36
-
-
0032556237
-
Shaping space. The possible and the attainable in RNA genotype-phenotype mapping
-
Fontana W, Schuster P (1998b) Shaping space. The possible and the attainable in RNA genotype-phenotype mapping. J Theor Biol 194:491–515
-
(1998)
J Theor Biol
, vol.194
, pp. 491-515
-
-
Fontana, W.1
Schuster, P.2
-
37
-
-
62149152282
-
Extremely high mutation rate of a hammerhead viroid
-
Gago S, Elena SF, Flores R, Sanjuan R (2009) Extremely high mutation rate of a hammerhead viroid. Science 323:1308
-
(2009)
Science
, vol.323
, pp. 1308
-
-
Gago, S.1
Elena, S.F.2
Flores, R.3
Sanjuan, R.4
-
38
-
-
0000767918
-
Exact solution of the quasispecies model in a sharply peaked fitness landscape
-
Galluccio S (1997) Exact solution of the quasispecies model in a sharply peaked fitness landscape. Phys Rev E 56:4526–4539
-
(1997)
Phys Rev E
, vol.56
, pp. 4526-4539
-
-
Galluccio, S.1
-
39
-
-
0031284943
-
Evolution and speciation on holey adaptive landscapes
-
Gavrilets S (1997) Evolution and speciation on holey adaptive landscapes. Trends Ecol Evol 12:307–312
-
(1997)
Trends Ecol Evol
, vol.12
, pp. 307-312
-
-
Gavrilets, S.1
-
40
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
Gillespie DT (1977) Exact stochastic simulation of coupled chemical reactions. J Phys Chem 81:2340–2361
-
(1977)
J Phys Chem
, vol.81
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
41
-
-
34249950625
-
Stochastic simulation of chemical kinetics
-
Gillespie DT (2007) Stochastic simulation of chemical kinetics. Annu Rev Phys Chem 58:35–55
-
(2007)
Annu Rev Phys Chem
, vol.58
, pp. 35-55
-
-
Gillespie, D.T.1
-
42
-
-
1842582241
-
Analysis of RNA sequence structure maps by exhaustive enumeration. I. Neutral networks
-
Grüner W, Giegerich R, Strothmann D, Reidys C, Weber J, Hofacker IL, Schuster P (1996a) Analysis of RNA sequence structure maps by exhaustive enumeration. I. Neutral networks. Mon Chem 127:355–374
-
(1996)
Mon Chem
, vol.127
, pp. 355-374
-
-
Grüner, W.1
Giegerich, R.2
Strothmann, D.3
Reidys, C.4
Weber, J.5
Hofacker, I.L.6
Schuster, P.7
-
43
-
-
0039577307
-
Analysis of RNA sequence structure maps by exhaustive enumeration. II. Structures of neutral networks and shape space covering
-
Grüner W, Giegerich R, Strothmann D, Reidys C, Weber J, Hofacker IL, Schuster P (1996b) Analysis of RNA sequence structure maps by exhaustive enumeration. II. Structures of neutral networks and shape space covering. Mon Chem 127:375–389
-
(1996)
Mon Chem
, vol.127
, pp. 375-389
-
-
Grüner, W.1
Giegerich, R.2
Strothmann, D.3
Reidys, C.4
Weber, J.5
Hofacker, I.L.6
Schuster, P.7
-
44
-
-
84943817322
-
Error detecting and error correcting codes
-
Hamming RW (1950) Error detecting and error correcting codes. Bell Syst Tech J 29:147–160
-
(1950)
Bell Syst Tech J
, vol.29
, pp. 147-160
-
-
Hamming, R.W.1
-
46
-
-
84919772565
-
Molecular-clock methods for estimating evolutionary rates and timescales
-
Ho SYW, Duchêne S (2014) Molecular-clock methods for estimating evolutionary rates and timescales. Mol Ecol 23:5947–5965
-
(2014)
Mol Ecol
, vol.23
, pp. 5947-5965
-
-
Ho, S.1
Duchêne, S.2
-
47
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
Hofacker IL, Fontana W, Stadler PF, Bonhoeffer LS, Tacker M, Schuster P (1994) Fast folding and comparison of RNA secondary structures. Mon Chem 125:167–188
-
(1994)
Mon 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
-
48
-
-
34848838094
-
Adaptation in simple and complex fitness landscapes
-
In: Bastolla U, Porto M, Eduardo Roman H, Vendruscolo M, Molecules, networks, populations, chapter 14. Springer, Berlin
-
Jain K, Krug J (2007) Adaptation in simple and complex fitness landscapes. In: Bastolla U, Porto M, Eduardo Roman H, Vendruscolo M (eds) Structural approaches to sequence evolution. Molecules, networks, populations, chapter 14. Springer, Berlin, pp 299–339
-
(2007)
Structural Approaches to Sequence Evolution
, pp. 299-339
-
-
Jain, K.1
Krug, J.2
-
49
-
-
84961650910
-
-
In: Comptes Rendue des 3me Congrès International de Zoologie. 3me Congres International de Zoologie, Leyden
-
Janet A (1895) Considérations méchaniques sur l’évolution et le problème des espèces. In: Comptes Rendue des 3me Congrès International de Zoologie. 3me Congres International de Zoologie, Leyden, pp 136–145
-
(1895)
Considérations méchaniques Sur l’évolution Et Le problème Des espèces
, pp. 136-145
-
-
Janet, A.1
-
50
-
-
84883790268
-
Comprehensive experimental fitness landscape and evolutionary network for small RNA
-
Jiménez JI, Xulvi-Brunet R, Campbell GW, amd Irene A, Chen RT (2013) Comprehensive experimental fitness landscape and evolutionary network for small RNA. Proc Natl Acad Sci USA 110:14984–14989
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, pp. 14984-14989
-
-
Jiménez, J.I.1
Xulvi-Brunet, R.2
Campbell, G.W.3
Amd Irene, A.4
Chen, R.T.5
-
51
-
-
0017284403
-
On the theory of selection of coupled macromolecular systems
-
Jones BL, Enns RH, Rangnekar SS (1976) On the theory of selection of coupled macromolecular systems. Bull Math Biol 38:15–28
-
(1976)
Bull Math Biol
, vol.38
, pp. 15-28
-
-
Jones, B.L.1
Enns, R.H.2
Rangnekar, S.S.3
-
52
-
-
50949096831
-
Survival probability of quasi-species model under environmental changes
-
Kang Y-G, Park J-M (2008) Survival probability of quasi-species model under environmental changes. J Korean Phys Soc 53:868–872
-
(2008)
J Korean Phys Soc
, vol.53
, pp. 868-872
-
-
Kang, Y.-G.1
Park, J.-M.2
-
53
-
-
0023647382
-
Towards a general theory of adaptive walks on rugged landscapes
-
Kauffman S, Levin S (1987) Towards a general theory of adaptive walks on rugged landscapes. J Theor Biol 128:11–45
-
(1987)
J Theor Biol
, vol.128
, pp. 11-45
-
-
Kauffman, S.1
Levin, S.2
-
55
-
-
0024803111
-
The N-k model of ruggedfitness landscapes and its application to the maturation of the immune response
-
Kauffman SA, Weinberger ED (1989) The N-k model of rugged fitness landscapes and its application to the maturation of the immune response. J Theor Biol 141:211–245
-
(1989)
J Theor Biol
, vol.141
, pp. 211-245
-
-
Kauffman, S.A.1
Weinberger, E.D.2
-
57
-
-
0001503634
-
A simple model for the balance between selection and mutation
-
Kingman JFC (1978) A simple model for the balance between selection and mutation. J Appl Probab 15:1–12
-
(1978)
J Appl Probab
, vol.15
, pp. 1-12
-
-
Kingman, J.1
-
59
-
-
84859257158
-
Exploring the complexity of the HIV-1 fitness landscape
-
Kouyos RD, Leventhal GE, Hinkley T, Haddad M, Whitcomb JM, Petropoulos CJ, Bonhoeffer S (2012) Exploring the complexity of the HIV-1 fitness landscape. PLoS Genet 8:e1002551
-
(2012)
Plos Genet
, vol.8
-
-
Kouyos, R.D.1
Leventhal, G.E.2
Hinkley, T.3
Haddad, M.4
Whitcomb, J.M.5
Petropoulos, C.J.6
Bonhoeffer, S.7
-
60
-
-
81755187285
-
Assessing predicted HIV-1 replicative capacity in a clinical setting
-
The Swiss HIV Cohort Study
-
Kouyos RD, von Wyl V, Hinkley T, Petropoulos CJ, Haddad M, Whitcomb JM, Böni J, Yerly S, Cellerai C, Klimkait T, Günthard HF, Bonhoeffer S, The Swiss HIV Cohort Study (2011). Assessing predicted HIV-1 replicative capacity in a clinical setting. PLoS Pathog 7: e1002321
-
(2011)
Plos Pathog
, vol.7
-
-
Kouyos, R.D.1
Von Wyl, V.2
Hinkley, T.3
Petropoulos, C.J.4
Haddad, M.5
Whitcomb, J.M.6
Böni, J.7
Yerly, S.8
Cellerai, C.9
Klimkait, T.10
Günthard, H.F.11
Bonhoeffer, S.12
-
61
-
-
77955657333
-
Watching the clock: Studying variation in rates of molecular evolution between species
-
Lanfear R, Welch JJ, Bromham L (2010) Watching the clock: studying variation in rates of molecular evolution between species. TREE 25:495–503
-
(2010)
TREE
, vol.25
, pp. 495-503
-
-
Lanfear, R.1
Welch, J.J.2
Bromham, L.3
-
62
-
-
4944255790
-
An exact correspondence between Eigen’s evolution model and a two-dimensional ising system
-
Leuthäusser I (1986) An exact correspondence between Eigen’s evolution model and a two-dimensional ising system. J Chem Phys 84:1884–1885
-
(1986)
J Chem Phys
, vol.84
, pp. 1884-1885
-
-
Leuthäusser, I.1
-
63
-
-
5544283055
-
Statistical mechanics of Eigen’s evolution model
-
Leuthäusser I (1987) Statistical mechanics of Eigen’s evolution model. J Stat Phys 48:343–360
-
(1987)
J Stat Phys
, vol.48
, pp. 343-360
-
-
Leuthäusser, I.1
-
64
-
-
0000333671
-
On the theory of helix-coil transitions in polypeptides
-
Lifson S (1961) On the theory of helix-coil transitions in polypeptides. J Chem Phys 34:1963–1974
-
(1961)
J Chem Phys
, vol.34
, pp. 1963-1974
-
-
Lifson, S.1
-
65
-
-
82055164092
-
ViennaRNA package 2.0
-
Lorenz R, Bernhart SH, Höner zu Siederdissen C, Tafer H, Flamm C, Stadler PF, Hofacker IL (2011) ViennaRNA package 2.0. Algorithms Mol Biol 6:e26
-
(2011)
Algorithms Mol Biol
, vol.6
-
-
Lorenz, R.1
Bernhart, S.H.2
Höner Zu Siederdissen, C.3
Tafer, H.4
Flamm, C.5
Stadler, P.F.6
Hofacker, I.L.7
-
66
-
-
84961672987
-
The origin of the “adaptive landscape”concept
-
McCoy JW (1979) The origin of the “adaptive landscape” concept. Am Nat 113:610–613
-
(1979)
Am Nat
, vol.113
, pp. 610-613
-
-
McCoy, J.W.1
-
68
-
-
0014107493
-
An extracellular Darwinian experiment with a self-duplicating nucleic acid molecule
-
Mills DR, Peterson RL, Spiegelman S (1967) An extracellular Darwinian experiment with a self-duplicating nucleic acid molecule. Proc Natl Acad Sci USA 58:217–224
-
(1967)
Proc Natl Acad Sci USA
, vol.58
, pp. 217-224
-
-
Mills, D.R.1
Peterson, R.L.2
Spiegelman, S.3
-
71
-
-
79958266389
-
Efficient solution of evolution models for virus populations
-
Niederbrucker G, Gansterer WN (2011) Efficient solution of evolution models for virus populations. Procedia Comput Sci 4:126–135
-
(2011)
Procedia Comput Sci
, vol.4
, pp. 126-135
-
-
Niederbrucker, G.1
Gansterer, W.N.2
-
72
-
-
0024974481
-
Error thresholds of replication in finite populations. Mutation frequencies and the onset of Muller’s ratchet
-
Nowak M, Schuster P (1989) Error thresholds of replication in finite populations. Mutation frequencies and the onset of Muller’s ratchet. J Theor Biol 137:375–395
-
(1989)
J Theor Biol
, vol.137
, pp. 375-395
-
-
Nowak, M.1
Schuster, P.2
-
73
-
-
75349091080
-
Quasispecies theory for finite populations
-
Park J-M, noz EM, Deem MW (2010) Quasispecies theory for finite populations. Phys Rev E 81: e011902
-
(2010)
Phys Rev E
, vol.81
-
-
Park, J.-M.1
Noz, E.M.2
Deem, M.W.3
-
74
-
-
77957963240
-
Rapid construction of empirical RNA fitness landscapes
-
Pitt JN, Ferré-D’Amaré AR (2010) Rapid construction of empirical RNA fitness landscapes. Science 330:376–379
-
(2010)
Science
, vol.330
, pp. 376-379
-
-
Pitt, J.N.1
Ferré-D’amaré, A.R.2
-
75
-
-
84961633947
-
Generic properties of combinatory maps. Neutral networks of RNA secondary structure
-
University of Chicago Press, Chicago Reidys C, Stadler PF, Schuster P
-
Provine WB (1986) Sewall wright and evolutionary biology. University of Chicago Press, Chicago Reidys C, Stadler PF, Schuster P (1997) Generic properties of combinatory maps. Neutral networks of RNA secondary structure. Bull Math Biol 59:339–397
-
(1986)
Sewall Wright and Evolutionary Biology
, vol.59
, pp. 339-397
-
-
Provine, W.B.1
-
78
-
-
19944416657
-
Are pictures really necessary? The case of Sewall Wright’s ‘adaptive lanscapes’
-
In: Baigrie BS, University of Toronto Press, Toronto
-
Ruse M (1996) Are pictures really necessary? The case of Sewall Wright’s ‘adaptive lanscapes’. In: Baigrie BS (ed) Picturing knowledge: historical and philosophical problems concerning the use of art in science. University of Toronto Press, Toronto, pp 303–337
-
(1996)
Picturing Knowledge: Historical and Philosophical Problems concerning the Use of Art in Science
, pp. 303-337
-
-
Ruse, M.1
-
79
-
-
33645510409
-
Exact solution of the Eigen model with general fitness functions and degradation rates
-
Saakian DB, Hu C-K (2006) Exact solution of the Eigen model with general fitness functions and degradation rates. Proc Natl Acad Sci USA 113:4935–4939
-
(2006)
Proc Natl Acad Sci USA
, vol.113
, pp. 4935-4939
-
-
Saakian, D.B.1
Hu, C.-K.2
-
80
-
-
37649032281
-
Solvable biological evolution models with general fitness functions and multiple mutations in parallel mutation-selection scheme
-
Saakian DB, Hu C-K, Khachatryan H (2004) Solvable biological evolution models with general fitness functions and multiple mutations in parallel mutation-selection scheme. Phys Rev E 70: e041908
-
(2004)
Phys Rev E
, vol.70
-
-
Saakian, D.B.1
Hu, C.-K.2
Khachatryan, H.3
-
81
-
-
2942565781
-
The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus
-
Sanjuán R, Moya A, Elena SF (2004) The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus. Proc Natl Acad Sci USA 101:8396–8401
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 8396-8401
-
-
Sanjuán, R.1
Moya, A.2
Elena, S.F.3
-
83
-
-
3242666489
-
-
In: Crutchfield JP, Schuster P (eds) Evolutionary dynamics—exploring the interplay of accident, selection, neutrality, and function. Oxford University Press, New York
-
Schuster P (2003) Molecular insight into the evolution of phenotypes. In: Crutchfield JP, Schuster P (eds) Evolutionary dynamics—exploring the interplay of accident, selection, neutrality, and function. Oxford University Press, New York, pp 163–215
-
(2003)
Molecular Insight into the Evolution of Phenotypes
, pp. 163-215
-
-
Schuster, P.1
-
84
-
-
33744995763
-
Prediction of RNA secondary structures: From theory to models and real molecules
-
Schuster P (2006) Prediction of RNA secondary structures: from theory to models and real molecules. Rep Prog Phys 69:1419–1477
-
(2006)
Rep Prog Phys
, vol.69
, pp. 1419-1477
-
-
Schuster, P.1
-
85
-
-
79952192799
-
Mathematical modeling of evolution. Solved and open problems
-
Schuster P (2011) Mathematical modeling of evolution. Solved and open problems. Theory Biosci 130:71–89
-
(2011)
Theory Biosci
, vol.130
, pp. 71-89
-
-
Schuster, P.1
-
86
-
-
84961596511
-
-
Working Paper 12-06-006, Santa Fe Institute, Santa Fe, NM
-
Schuster P (2012) Evolution on “realistic” fitness landscapes. Phase transitions, strong quasispecies, and neutrality. Working Paper 12-06-006, Santa Fe Institute, Santa Fe, NM
-
(2012)
Evolution on “realistic” Fitness Landscapes. Phase Transitions, Strong Quasispecies, and Neutrality
-
-
Schuster, P.1
-
87
-
-
84961596542
-
Present day biology seen in the looking glass of physics of complexity
-
In: Rubio RG, Ryazantsev YS, Starov VM, Huang G, Chetverikov AP, Arena P, Nepomnyashchy AA, Ferrus A, Morozov EG, Springer, Berlin
-
Schuster P (2013) Present day biology seen in the looking glass of physics of complexity. In: Rubio RG, Ryazantsev YS, Starov VM, Huang G, Chetverikov AP, Arena P, Nepomnyashchy AA, Ferrus A, Morozov EG (eds) Without bounds: a scientific canvas of nonlinearity and complex dynamics. Springer, Berlin, pp 589–622
-
(2013)
Without Bounds: A Scientific Canvas of Nonlinearity and Complex Dynamics
, pp. 589-622
-
-
Schuster, P.1
-
90
-
-
0023811909
-
Stationary mutant distribution and evolutionary optimization
-
Schuster P, Swetina J (1988) Stationary mutant distribution and evolutionary optimization. Bull Math Biol 50:635–660
-
(1988)
Bull Math Biol
, vol.50
, pp. 635-660
-
-
Schuster, P.1
Swetina, J.2
-
91
-
-
0014296443
-
General theoretical approach to the thermodynamic and kinetic properties of cooperative intramolecular transformations of linear biopolymers
-
Schwarz G (1968) General theoretical approach to the thermodynamic and kinetic properties of cooperative intramolecular transformations of linear biopolymers. Biopolymers 6:873–897
-
(1968)
Biopolymers
, vol.6
, pp. 873-897
-
-
Schwarz, G.1
-
94
-
-
19944389901
-
The heuristic role of Sewall Wright’s 1932 adaptive landscape diagram
-
Skipper RA Jr (2004) The heuristic role of Sewall Wright’s 1932 adaptive landscape diagram. Philos Sci 71:1176–1188
-
(2004)
Philos Sci
, vol.71
, pp. 1176-1188
-
-
Skipper, R.A.1
-
95
-
-
84974325243
-
An approach to the experimental analysis of precellular evolution
-
Spiegelman S (1971) An approach to the experimental analysis of precellular evolution. Quart Rev Biophys 4:213–253
-
(1971)
Quart Rev Biophys
, vol.4
, pp. 213-253
-
-
Spiegelman, S.1
-
97
-
-
0020437078
-
Self-replication with errors—a model for polynucleotide replication
-
Swetina J, Schuster P (1982) Self-replication with errors—a model for polynucleotide replication. Biophys Chem 16:329–345
-
(1982)
Biophys Chem
, vol.16
, pp. 329-345
-
-
Swetina, J.1
Schuster, P.2
-
98
-
-
0000829918
-
Error thresholds for molecular quasispecies as phase transitions: From simple landscapes to spin glasses
-
Tarazona P (1992) Error thresholds for molecular quasispecies as phase transitions: from simple landscapes to spin glasses. Phys Rev A 45:6038–6050
-
(1992)
Phys Rev A
, vol.45
, pp. 6038-6050
-
-
Tarazona, P.1
-
99
-
-
77649341255
-
Effect of lethality on the extinction and on the error threshold of quasispecies
-
Tejero H, Marín A, Moran F (2010) Effect of lethality on the extinction and on the error threshold of quasispecies. J Theor Biol 262:733–741
-
(2010)
J Theor Biol
, vol.262
, pp. 733-741
-
-
Tejero, H.1
Marín, A.2
Moran, F.3
-
100
-
-
0016292754
-
On Eigen’s theory of the self-organization of matter and the evolution of biological macromolecules
-
Thompson CJ, McBride JL (1974) On Eigen’s theory of the self-organization of matter and the evolution of biological macromolecules. Math Biosci 21:127–142
-
(1974)
Math Biosci
, vol.21
, pp. 127-142
-
-
Thompson, C.J.1
McBride, J.L.2
-
101
-
-
0001726160
-
Theory of frustration effect in spin-glasses. I
-
Toulouse G (1977) Theory of frustration effect in spin-glasses. I. Commun Phys 2:115–119
-
(1977)
Commun Phys
, vol.2
, pp. 115-119
-
-
Toulouse, G.1
-
102
-
-
0004042599
-
The frustration model
-
In: Pękalski A, Przystawa JA, Lecture Notes in PhysicsBerlin, Springer
-
Toulouse G (1980) The frustration model. In: Pękalski A, Przystawa JA (eds) Modern trends in the theory of condensed matter, vol 115., Lecture Notes in PhysicsBerlin, Springer, pp 195–203
-
(1980)
Modern Trends in the Theory of Condensed Matter
, vol.115
, pp. 195-203
-
-
Toulouse, G.1
-
104
-
-
76249110585
-
Abundant variation + strong selection = multivariate genetic constraints: A geometric view of adaptation
-
Walsh B, Blows MV (2009) Abundant variation + strong selection = multivariate genetic constraints: a geometric view of adaptation. Annu Rev Ecol Evol Syst 40:41–59
-
(2009)
Annu Rev Ecol Evol Syst
, vol.40
, pp. 41-59
-
-
Walsh, B.1
Blows, M.V.2
-
105
-
-
0038497542
-
A structure for deoxyribose nucleic acid
-
Watson JD, Crick FHC (1953) A structure for deoxyribose nucleic acid. Nature 171:737–738
-
(1953)
Nature
, vol.171
, pp. 737-738
-
-
Watson, J.D.1
Crick, F.2
-
106
-
-
79955377821
-
High-throughput identification of genetic interactions in HIV-1
-
Weinreich DM (2011) High-throughput identification of genetic interactions in HIV-1. Nat Genet 41:398–400
-
(2011)
Nat Genet
, vol.41
, pp. 398-400
-
-
Weinreich, D.M.1
-
107
-
-
0030789022
-
Model dependency of error thresholds: The role of fitness functions and contrasts between the finite and infinite sites models
-
Wiehe T (1997) Model dependency of error thresholds: the role of fitness functions and contrasts between the finite and infinite sites models. Genet Res Camb 69:127–136
-
(1997)
Genet Res Camb
, vol.69
, pp. 127-136
-
-
Wiehe, T.1
-
108
-
-
0035913336
-
Evolution of digital organisms at high mutation rates leads to survival of the flattest
-
Wilke CO, Wang JL, Ofria C (2001) Evolution of digital organisms at high mutation rates leads to survival of the flattest. Nature 412:331–333
-
(2001)
Nature
, vol.412
, pp. 331-333
-
-
Wilke, C.O.1
Wang, J.L.2
Ofria, C.3
-
109
-
-
0001771498
-
Evolution in Mendelian populations
-
Wright S (1931) Evolution in Mendelian populations. Genetics 16:97–159
-
(1931)
Genetics
, vol.16
, pp. 97-159
-
-
Wright, S.1
-
110
-
-
0000907353
-
The roles of mutation, inbreeding, crossbreeding and selection in evolution
-
In: Jones DF, Brooklyn Botanic Garden, Ithaca, NY
-
Wright S (1932) The roles of mutation, inbreeding, crossbreeding and selection in evolution. In: Jones DF (ed) International proceedings of the sixth international congress on genetics, vol 1. Brooklyn Botanic Garden, Ithaca, NY, pp 356–366
-
(1932)
International Proceedings of the Sixth International Congress on Genetics
, vol.1
, pp. 356-366
-
-
Wright, S.1
-
111
-
-
0001416961
-
Surfaces of selective value revisited
-
Wright S (1988) Surfaces of selective value revisited. American Naturalist 131:115–123
-
(1988)
American Naturalist
, vol.131
, pp. 115-123
-
-
Wright, S.1
-
112
-
-
0000754002
-
Theory of “melting” of the helical form in double chains of the DNA type
-
Zimm BH (1960) Theory of “melting” of the helical form in double chains of the DNA type. J Chem Phys 33:1349–1356
-
(1960)
J Chem Phys
, vol.33
, pp. 1349-1356
-
-
Zimm, B.H.1
-
113
-
-
0024477261
-
On finding all suboptimal foldings of an RNA molecule
-
Zuker M (1989) On finding all suboptimal foldings of an RNA molecule. Science 244:48–52
-
(1989)
Science
, vol.244
, pp. 48-52
-
-
Zuker, M.1
|