-
1
-
-
38949138481
-
Computational RNA structure prediction
-
Capriotti E, Marti-Renom MA (2008) Computational RNA structure prediction. Curr Bioinf 3:32-45.
-
(2008)
Curr Bioinf
, vol.3
, pp. 32-45
-
-
Capriotti, E.1
Marti-Renom, M.A.2
-
2
-
-
34248393495
-
Low-resolution models for nucleic acids from small-angle X-ray scattering with applications to electrostatic modeling
-
Lipfert J, Chu VB, Bai Y, Herschlag D, Doniach S (2007) Low-resolution models for nucleic acids from small-angle X-ray scattering with applications to electrostatic modeling. J Appl Crystallogr 40:S229-S234.
-
(2007)
J Appl Crystallogr
, vol.40
-
-
Lipfert, J.1
Chu, V.B.2
Bai, Y.3
Herschlag, D.4
Doniach, S.5
-
4
-
-
27144451444
-
RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme
-
Chauhan S, et al. (2005) RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme. J Mol Biol 353:1199-1209.
-
(2005)
J Mol Biol
, vol.353
, pp. 1199-1209
-
-
Chauhan, S.1
-
5
-
-
33845328453
-
Size, shape, and flexibility of RNA structures
-
Hyeon C, Dima RI, Thirumalai D (2006) Size, shape, and flexibility of RNA structures. J Chem Phys 125:194905.
-
(2006)
J Chem Phys
, vol.125
, pp. 194905
-
-
Hyeon, C.1
Dima, R.I.2
Thirumalai, D.3
-
6
-
-
0034637111
-
The complete atomic structure of the large ribosomal subunit at 2.4 angstrom resolution
-
Ban N, Nissen P, Hansen J, Moore PB, Steitz TA (2000) The complete atomic structure of the large ribosomal subunit at 2.4 angstrom resolution. Science 289:905-920.
-
(2000)
Science
, vol.289
, pp. 905-920
-
-
Ban, N.1
Nissen, P.2
Hansen, J.3
Moore, P.B.4
Steitz, T.A.5
-
7
-
-
33947413060
-
An extended stem-loop 1 is necessary for human immunodeficiency virus type 2 replication and affects genomic RNA encapsidation
-
Lanchy JM, Lodmell JS (2007) An extended stem-loop 1 is necessary for human immunodeficiency virus type 2 replication and affects genomic RNA encapsidation. J Virol 81:3285-3292.
-
(2007)
J Virol
, vol.81
, pp. 3285-3292
-
-
Lanchy, J.M.1
Lodmell, J.S.2
-
8
-
-
0037154257
-
tRNA elements mediate the assembly of an icosahedral RNA virus
-
Choi YG, Dreher TW, Rao ALN (2002) tRNA elements mediate the assembly of an icosahedral RNA virus. Proc Natl Acad Sci USA 99:655-660.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 655-660
-
-
Choi, Y.G.1
Dreher, T.W.2
Rao, A.L.N.3
-
9
-
-
18744362727
-
Long-range RNA-RNA interactions circularize the dengue virus genome
-
Alvarez DE, Lodeiro MF, Luduena SJ, Pietrasanta LI, Gamarnik AV (2005) Long-range RNA-RNA interactions circularize the dengue virus genome. J Virol 79:6631-6643.
-
(2005)
J Virol
, vol.79
, pp. 6631-6643
-
-
Alvarez, D.E.1
Lodeiro, M.F.2
Luduena, S.J.3
Pietrasanta, L.I.4
Gamarnik, A.V.5
-
10
-
-
34248388501
-
Modelling of bacteriophage capsids and free nucleic acids
-
Zipper P, Durchschlag H (2007) Modelling of bacteriophage capsids and free nucleic acids. J Appl Crystallogr 40:S153-S158.
-
(2007)
J Appl Crystallogr
, vol.40
-
-
Zipper, P.1
Durchschlag, H.2
-
11
-
-
0001446319
-
Reconstitution of active tobacco mosaic virus from its inactive protein and nucleic acid components
-
Fraenkel-Conrat H, Williams RC (1955) Reconstitution of active tobacco mosaic virus from its inactive protein and nucleic acid components. Proc Natl Acad Sci USA 41:690-698.
-
(1955)
Proc Natl Acad Sci USA
, vol.41
, pp. 690-698
-
-
Fraenkel-Conrat, H.1
Williams, R.C.2
-
12
-
-
0014905804
-
The self-assembly of spherical plant viruses
-
Bancroft JB (1970) The self-assembly of spherical plant viruses. Adv Virus Res 16:99-134.
-
(1970)
Adv Virus Res
, vol.16
, pp. 99-134
-
-
Bancroft, J.B.1
-
13
-
-
0023045777
-
Relation between genomic and capsid structures in RNA viruses
-
Yamamoto K, Yoshikura H (1986) Relation between genomic and capsid structures in RNA viruses. Nucleic Acids Res 14:389-396.
-
(1986)
Nucleic Acids Res
, vol.14
, pp. 389-396
-
-
Yamamoto, K.1
Yoshikura, H.2
-
14
-
-
0028910588
-
Secondary structure model for the last two domains of single-stranded RNA phage Qβ
-
Beekwilder MJ, Nieuwenhuizen R, Vanduin J (1995) Secondary structure model for the last two domains of single-stranded RNA phage Qβ. J Mol Biol 247:903-917.
-
(1995)
J Mol Biol
, vol.247
, pp. 903-917
-
-
Beekwilder, M.J.1
Nieuwenhuizen, R.2
Vanduin, J.3
-
15
-
-
14144252651
-
Atomic force microscopy analysis of icosahedral virus RNA
-
Kuznetsov YG, Daijogo S, Zhou J, Semler BL, McPherson A (2005) Atomic force microscopy analysis of icosahedral virus RNA. J Mol Biol 347:41-52.
-
(2005)
J Mol Biol
, vol.347
, pp. 41-52
-
-
Kuznetsov, Y.G.1
Daijogo, S.2
Zhou, J.3
Semler, B.L.4
McPherson, A.5
-
17
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
Hofacker IL et al. (1994) Fast folding and comparison of RNA secondary structures. Monatsh Chem 125:167-188.
-
(1994)
Monatsh Chem
, vol.125
, pp. 167-188
-
-
Hofacker, I.L.1
-
18
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
Zuker M (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31:3406-3415.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
-
19
-
-
0019082587
-
Fast algorithm for predicting the secondary structure of single-stranded RNA
-
Nussinov R, Jacobson AB (1980) Fast algorithm for predicting the secondary structure of single-stranded RNA. Proc Natl Acad Sci USA 77:6309-6313.
-
(1980)
Proc Natl Acad Sci USA
, vol.77
, pp. 6309-6313
-
-
Nussinov, R.1
Jacobson, A.B.2
-
21
-
-
0025264854
-
The equilibrium partition function and base pair binding probabilities for RNA secondary structure
-
McCaskill JS (1990) The equilibrium partition function and base pair binding probabilities for RNA secondary structure. Biopolymers 29:1105-1119.
-
(1990)
Biopolymers
, vol.29
, pp. 1105-1119
-
-
McCaskill, J.S.1
-
22
-
-
0346888665
-
A statistical sampling algorithm for RNA secondary structure prediction
-
Ding Y, Lawrence CE (2003) A statistical sampling algorithm for RNA secondary structure prediction. Nucleic Acids Res 31:7280-7301.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 7280-7301
-
-
Ding, Y.1
Lawrence, C.E.2
-
24
-
-
0031599142
-
Mersenne twister: A 623-dimensionally equidistributed uniform pseudo-random number generator
-
Matsumoto M, Nishimura T (1998) Mersenne twister: A 623-dimensionally equidistributed uniform pseudo-random number generator. ACM Trans Model Comput Simulat 8:3-30.
-
(1998)
ACM Trans Model Comput Simulat
, vol.8
, pp. 3-30
-
-
Matsumoto, M.1
Nishimura, T.2
-
26
-
-
3342977915
-
Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization
-
Mathews DH (2004) Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization. RNA 10:1178-1190.
-
(2004)
RNA
, vol.10
, pp. 1178-1190
-
-
Mathews, D.H.1
-
27
-
-
41349099117
-
Statistical mechanics of secondary structures formed by random RNA sequences
-
Bundschuh R, Hwa T (2002) Statistical mechanics of secondary structures formed by random RNA sequences. Phys Rev E 65:031903.
-
(2002)
Phys Rev E
, vol.65
, pp. 031903
-
-
Bundschuh, R.1
Hwa, T.2
-
28
-
-
33644873919
-
VIPERdb: A relational database for structural virology
-
Shepherd CM et al. (2006) VIPERdb: A relational database for structural virology. Nucleic Acids Res 34:D386-D389.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Shepherd, C.M.1
-
29
-
-
55849149688
-
-
Fauquet CM, Mayo MA, Maniloff J, Desselberger U, Ball LA, eds , Academic, San Diego
-
Fauquet CM, Mayo MA, Maniloff J, Desselberger U, Ball LA, eds (2005) Virus Taxonomy: 8th Report of the International Committee on Taxonomy of Viruses (Academic, San Diego).
-
(2005)
Virus Taxonomy: 8th Report of the International Committee on Taxonomy of Viruses
-
-
-
30
-
-
0017116164
-
Occurrence of short particles in beans infected with the cowpea strain of TMV
-
Whitfeld PR, Higgins TJV (1976) Occurrence of short particles in beans infected with the cowpea strain of TMV. Virology 71:471-485.
-
(1976)
Virology
, vol.71
, pp. 471-485
-
-
Whitfeld, P.R.1
Higgins, T.J.V.2
-
31
-
-
0037155223
-
In vitro evidence for a long range pseudoknot in the 5′-untranslated and matrix coding regions of HIV-1 genomic RNA
-
Paillart JC, Skripkin E, Ehresmann B, Ehresmann C, Marquet R (2002) In vitro evidence for a long range pseudoknot in the 5′-untranslated and matrix coding regions of HIV-1 genomic RNA. J Biol Chem 277:5995-6004.
-
(2002)
J Biol Chem
, vol.277
, pp. 5995-6004
-
-
Paillart, J.C.1
Skripkin, E.2
Ehresmann, B.3
Ehresmann, C.4
Marquet, R.5
-
32
-
-
22144455993
-
Single-molecule measurements of the persistence length of double-stranded RNA
-
Abels JA, Moreno-Herrero F, van der Heijden T, Dekker C, Dekker NH (2005) Single-molecule measurements of the persistence length of double-stranded RNA. Biophys J 88:2737-2744.
-
(2005)
Biophys J
, vol.88
, pp. 2737-2744
-
-
Abels, J.A.1
Moreno-Herrero, F.2
van der Heijden, T.3
Dekker, C.4
Dekker, N.H.5
-
33
-
-
1942423138
-
Probing single-stranded DNA conformational flexibility using fluorescence spectroscopy
-
Murphy MC, Rasnik I, Cheng W, Lohman TM, Ha T (2004) Probing single-stranded DNA conformational flexibility using fluorescence spectroscopy. Biophys J 86:2530-2537.
-
(2004)
Biophys J
, vol.86
, pp. 2530-2537
-
-
Murphy, M.C.1
Rasnik, I.2
Cheng, W.3
Lohman, T.M.4
Ha, T.5
-
34
-
-
33646941247
-
The dimensions of chain molecules containing branches and rings
-
Zimm BH, Stockmayer WH (1949) The dimensions of chain molecules containing branches and rings. J Chem Phys 17:1301-1314.
-
(1949)
J Chem Phys
, vol.17
, pp. 1301-1314
-
-
Zimm, B.H.1
Stockmayer, W.H.2
-
35
-
-
33751235599
-
Electrostatic origin of the genome packing in viruses
-
Belyi VA, Muthukumar M (2006) Electrostatic origin of the genome packing in viruses. Proc Natl Acad Sci USA 103:17174-17178.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17174-17178
-
-
Belyi, V.A.1
Muthukumar, M.2
-
36
-
-
0029258928
-
Keeping RNA Happy
-
Uhlenbeck OC (1995) Keeping RNA Happy. RNA 1:4-6.
-
(1995)
RNA
, vol.1
, pp. 4-6
-
-
Uhlenbeck, O.C.1
-
37
-
-
21244459458
-
Kinetics and thermodynamics make different contributions to RNA folding in vitro and in yeast
-
Mahen EM, Harger JW, Calderon EM, Fedor MJ (2005) Kinetics and thermodynamics make different contributions to RNA folding in vitro and in yeast. Mol Cell 19:27-37.
-
(2005)
Mol Cell
, vol.19
, pp. 27-37
-
-
Mahen, E.M.1
Harger, J.W.2
Calderon, E.M.3
Fedor, M.J.4
|