-
1
-
-
20444478991
-
Riboswitches as versatile gene control elements
-
Tucker, B.J.; Breaker, R.R. Riboswitches as versatile gene control elements. Curr. Opin. Struct. Biol. 2005, 15, 342-348
-
(2005)
Curr. Opin. Struct. Biol.
, vol.15
, pp. 342-348
-
-
Tucker, B.J.1
Breaker, R.R.2
-
3
-
-
84877260669
-
CoFold: An RNA secondary structure prediction method that takes co-transcriptional folding into account
-
doi:10.1093/nar/gkt174
-
Proctor, J.R.; Meyer, I.M. CoFold: An RNA secondary structure prediction method that takes co-transcriptional folding into account. Nucleic Acids Res. 2013, 41, doi:10.1093/nar/gkt174
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Proctor, J.R.1
Meyer, I.M.2
-
4
-
-
15944382675
-
The speed of RNA transcription and metabolite binding kinetics operate an FMN Riboswitch
-
Wickiser, J.; Winkler, W.; Breaker, R.; Crothers, D. The speed of RNA transcription and metabolite binding kinetics operate an FMN Riboswitch. Mol. Cell 2005, 18, 49-60
-
(2005)
Mol. Cell
, vol.18
, pp. 49-60
-
-
Wickiser, J.1
Winkler, W.2
Breaker, R.3
Crothers, D.4
-
5
-
-
79954629519
-
Arrhenius lifetimes of RNA structures from free energy landscapes
-
Sauerwine, B.; Widom, M. Arrhenius lifetimes of RNA structures from free energy landscapes. J. Stat. Phys. 2011, 142, 1337-1352
-
(2011)
J. Stat. Phys.
, vol.142
, pp. 1337-1352
-
-
Sauerwine, B.1
Widom, M.2
-
6
-
-
13444252847
-
Rfam: Annotating non-coding RNAs in complete genomes
-
Griffiths-Jones, S.; Moxon, S.; Marshall, M.; Khanna, A.; Eddy, S.R.; Bateman, A. Rfam: Annotating non-coding RNAs in complete genomes. Nucleic Acids Res. 2005, 33, D121-D124
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Griffiths-Jones, S.1
Moxon, S.2
Marshall, M.3
Khanna, A.4
Eddy, S.R.5
Bateman, A.6
-
7
-
-
2242446202
-
Comparative genomics of thiamin biosynthesis in procaryotes: New genes and regulatory mechanisms
-
Rodionov, D.A.; Vitreschak, A.G.; Mironov, A.A.; Gelfand, M.S. Comparative genomics of thiamin biosynthesis in procaryotes: New genes and regulatory mechanisms. J. Biol. Chem. 2002, 277, 48949-48959
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 48949-48959
-
-
Rodionov, D.A.1
Vitreschak, A.G.2
Mironov, A.A.3
Gelfand, M.S.4
-
8
-
-
34249772381
-
Fast folding and comparison of RNA secondary structures
-
Hofacker, I.L.; Fontana, W.; Stadler, P.F.; Bonhoeffer, S.; Tacker, M.; Schuster, P. Fast folding and comparison of RNA secondary structures. Monatshefte f ̈ur Chemie 1994, 125, 167-188
-
(1994)
Monatshefte f ̈ur Chemie
, vol.125
, pp. 167-188
-
-
Hofacker, I.L.1
Fontana, W.2
Stadler, P.F.3
Bonhoeffer, S.4
Tacker, M.5
Schuster, P.6
-
9
-
-
0033591465
-
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
-
Mathews, D.H.; Sabina, J.; Zuker, M.; Turner, D.H. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol. 1999, 288, 911-940
-
(1999)
J. Mol. Biol.
, vol.288
, pp. 911-940
-
-
Mathews, D.H.1
Sabina, J.2
Zuker, M.3
Turner, D.H.4
-
10
-
-
34247871418
-
RNA helix stability in mixed Na+/Mg2+ solution
-
Tan, Z.J.; Chen, S.J. RNA helix stability in mixed Na+/Mg2+ solution. Biophys. J. 2007, 92, 3615-3632
-
(2007)
Biophys. J.
, vol.92
, pp. 3615-3632
-
-
Tan, Z.J.1
Chen, S.J.2
-
11
-
-
11244333076
-
Monte Carlo simulation for single RNA unfolding by force
-
Liu, F.; Ou-Yang, Z.C. Monte Carlo simulation for single RNA unfolding by force. Biophys. J. 2005, 88, 76-84
-
(2005)
Biophys. J.
, vol.88
, pp. 76-84
-
-
Liu, F.1
Ou-Yang, Z.C.2
-
12
-
-
0034021259
-
RNA folding at elementary step resolution
-
Flamm, C.; Fontana, W.; Hofacker, I.L.; Schuster, P. RNA folding at elementary step resolution. RNA 2000, 6, 325-338
-
(2000)
RNA
, vol.6
, pp. 325-338
-
-
Flamm, C.1
Fontana, W.2
Hofacker, I.L.3
Schuster, P.4
-
13
-
-
44149101971
-
Ab initio RNA folding by discrete molecular dynamics: From structure prediction to folding mechanisms
-
Ding, F.; Sharma, S.; Chalasani, P.; Demidov, V.V.; Broude, N.E.; Dokholyan, N.V. Ab initio RNA folding by discrete molecular dynamics: From structure prediction to folding mechanisms. RNA 2008, 14, 1164-73
-
(2008)
RNA
, vol.14
, pp. 1164-1173
-
-
Ding, F.1
Sharma, S.2
Chalasani, P.3
Demidov, V.V.4
Broude, N.E.5
Dokholyan, N.V.6
-
14
-
-
84877022321
-
Coarse-grained model for predicting RNA folding thermodynamics
-
Denesyuk, N.; Thirumalai, D. Coarse-grained model for predicting RNA folding thermodynamics. J. Phys. Chem. B 2013, 117, 4901-11
-
(2013)
J. Phys. Chem. B
, vol.117
, pp. 4901-4911
-
-
Denesyuk, N.1
Thirumalai, D.2
-
15
-
-
2142738304
-
WebLogo: A sequence logo generator
-
Crooks, G.E.; Hon, G.; Chandonia, J.M.; Brenner, S.E. WebLogo: A sequence logo generator. Genome Res. 2004, 14, 1188-1190
-
(2004)
Genome Res
, vol.14
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.M.3
Brenner, S.E.4
-
16
-
-
0029073396
-
Transcription termination at intrinsic terminators: The role of the RNA hairpin
-
Wilson, K.S.; von Hippel, P.H. Transcription termination at intrinsic terminators: The role of the RNA hairpin. Proc. Natl. Acad. Sci. 1995, 92, 8793-8797
-
(1995)
Proc. Natl. Acad. Sci.
, vol.92
, pp. 8793-8797
-
-
Wilson, K.S.1
von Hippel, P.H.2
-
17
-
-
0035444240
-
Prediction of rho-independent transcriptional terminators in Escherichia coli
-
Lesnik, E.A.; Sampath, R.; Levene, H.B.; Henderson, T.J.; McNeil, J.A.; Ecker, D.J. Prediction of rho-independent transcriptional terminators in Escherichia coli. Nucleic Acids Res. 2001, 29, 3583-94
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 3583-3594
-
-
Lesnik, E.A.1
Sampath, R.2
Levene, H.B.3
Henderson, T.J.4
McNeil, J.A.5
Ecker, D.J.6
-
18
-
-
0036668461
-
Transcription termination and anti-trmination in E. coli
-
Nudler, E.; Gottesman, M.E. Transcription termination and anti-trmination in E. coli. Genes Cells 2002, 7, 755-68
-
(2002)
Genes Cells
, vol.7
, pp. 755-768
-
-
Nudler, E.1
Gottesman, M.E.2
-
19
-
-
84867629183
-
Direct observation of cotranscriptional folding in an adenine riboswitch
-
Frieda, K.L.; Block, S.M. Direct observation of cotranscriptional folding in an adenine riboswitch. Science 2012, 338, 397-400.
-
(2012)
Science
, vol.338
, pp. 397-400
-
-
Frieda, K.L.1
Block, S.M.2
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