-
1
-
-
80053019485
-
Regulation by small RNAs in bacteria: Expanding frontiers
-
Storz,G., Vogel,J. and Wassarman,K.M. (2011) Regulation by small RNAs in bacteria: expanding frontiers. Mol. Cell, 43, 880-891.
-
(2011)
Mol. Cell
, vol.43
, pp. 880-891
-
-
Storz, G.1
Vogel, J.2
Wassarman, K.M.3
-
2
-
-
79958047291
-
Cis-antisense RNA, another level of gene regulation in bacteria
-
Georg,J. and Hess,W.R. (2011) cis-antisense RNA, another level of gene regulation in bacteria. Microbiol. Mol. Biol. Rev., 75, 286-300.
-
(2011)
Microbiol. Mol. Biol. Rev.
, vol.75
, pp. 286-300
-
-
Georg, J.1
Hess, W.R.2
-
3
-
-
68249156618
-
Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation.Nat
-
Pfeiffer,V., Papenfort,K., Lucchini,S., Hinton,J.C.D. and Vogel,J. (2009) Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation.Nat. Struct. Mol. Biol., 16, 840-846.
-
(2009)
Struct. Mol. Biol.
, vol.16
, pp. 840-846
-
-
Pfeiffer, V.1
Papenfort, K.2
Lucchini, S.3
Hinton, J.C.D.4
Vogel, J.5
-
4
-
-
67349095027
-
Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA
-
Desnoyers,G., Morissette,A., Prevost,K. and Masse,E. (2009) Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA. EMBO J., 28, 1551-1561.
-
(2009)
EMBO J.
, vol.28
, pp. 1551-1561
-
-
Desnoyers, G.1
Morissette, A.2
Prevost, K.3
Masse, E.4
-
5
-
-
34249777280
-
The small RNA RyhB activates the translation of shiA mRNA encoding a permease of shikimate, a compound involved in siderophore synthesis
-
Prevost,K., Salvail,H., Desnoyers,G., Jacques,J.F., Phaneuf,E. and Masse,E. (2007) The small RNA RyhB activates the translation of shiA mRNA encoding a permease of shikimate, a compound involved in siderophore synthesis. Mol. Microbiol., 64, 1260-1273.
-
(2007)
Mol. Microbiol.
, vol.64
, pp. 1260-1273
-
-
Prevost, K.1
Salvail, H.2
Desnoyers, G.3
Jacques, J.F.4
Phaneuf, E.5
Masse, E.6
-
6
-
-
41749124288
-
Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translation
-
Urban,J.H. and Vogel,J. (2008) Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translation. PLoS Biol., 6, e64.
-
(2008)
PLoS Biol.
, vol.6
-
-
Urban, J.H.1
Vogel, J.2
-
7
-
-
67349192582
-
Multiple target regulation by small noncoding RNAs rewires gene expression at the post-transcriptional level
-
Papenfort,K. and Vogel,J. (2009) Multiple target regulation by small noncoding RNAs rewires gene expression at the post-transcriptional level. Res. Microbiol., 160, 278-287.
-
(2009)
Res. Microbiol.
, vol.160
, pp. 278-287
-
-
Papenfort, K.1
Vogel, J.2
-
8
-
-
36448976216
-
Prediction of small, noncoding RNAs in bacteria using heterogeneous data
-
Tjaden,B. (2008) Prediction of small, noncoding RNAs in bacteria using heterogeneous data. J. Math. Biol., 55, 183-200.
-
(2008)
J. Math. Biol.
, vol.55
, pp. 183-200
-
-
Tjaden, B.1
-
9
-
-
34250709662
-
Target identification of small noncoding RNAs in bacteria
-
Vogel,J. and Wagner,E.G.H. (2007) Target identification of small noncoding RNAs in bacteria. Curr. Opin. Microbiol., 10, 262-270.
-
(2007)
Curr. Opin. Microbiol.
, vol.10
, pp. 262-270
-
-
Vogel, J.1
Wagner, E.G.H.2
-
10
-
-
70349736084
-
Experimental approaches for the discovery and characterization of regulatory small RNAs
-
Sharma,C.M. and Vogel,J. (2009) Experimental approaches for the discovery and characterization of regulatory small RNAs. Curr. Opin. Microbiol., 12, 536-546.
-
(2009)
Curr. Opin. Microbiol.
, vol.12
, pp. 536-546
-
-
Sharma, C.M.1
Vogel, J.2
-
11
-
-
85011941303
-
Computational prediction of sRNAs and their targets in bacteria
-
Backofen,R. and Hess,W.R. (2010) Computational prediction of sRNAs and their targets in bacteria. RNA Biol., 7, 33-42.
-
(2010)
RNA Biol.
, vol.7
, pp. 33-42
-
-
Backofen, R.1
Hess, W.R.2
-
12
-
-
33744800020
-
Target prediction for small, noncoding RNAs in bacteria
-
Tjaden,B., Goodwin,S.S., Opdyke,J.A., Guillier,M., Fu,D.X., Gottesman,S. and Storz,G. (2006) Target prediction for small, noncoding RNAs in bacteria. Nucleic Acids Res., 34, 2791-2802.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 2791-2802
-
-
Tjaden, B.1
Goodwin, S.S.2
Opdyke, J.A.3
Guillier, M.4
Fu, D.X.5
Gottesman, S.6
Storz, G.7
-
13
-
-
57249083988
-
IntaRNA: Efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions
-
Busch,A., Richter,A.S. and Backofen,R. (2008) IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions. Bioinformatics, 24, 2849-2856.
-
(2008)
Bioinformatics
, vol.24
, pp. 2849-2856
-
-
Busch, A.1
Richter, A.S.2
Backofen, R.3
-
14
-
-
79959937873
-
RNApredator: Fast accessibility-based prediction of sRNA targets
-
Eggenhofer,F., Tafer,H., Stadler,P.F. and Hofacker,I.L. (2011) RNApredator: fast accessibility-based prediction of sRNA targets. Nucleic Acids Res., 39, W149-W154.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Eggenhofer, F.1
Tafer, H.2
Stadler, P.F.3
Hofacker, I.L.4
-
15
-
-
55749083578
-
RNAplex: A fast tool for RNA-RNA interaction search
-
Tafer,H. and Hofacker,I.L. (2008) RNAplex: a fast tool for RNA-RNA interaction search. Bioinformatics, 24, 2657-2663.
-
(2008)
Bioinformatics
, vol.24
, pp. 2657-2663
-
-
Tafer, H.1
Hofacker, I.L.2
-
16
-
-
79952786136
-
Accessibility and evolutionary conservation mark bacterial small-RNA target-binding regions
-
Peer,A. and Margalit,H. (2011) Accessibility and evolutionary conservation mark bacterial small-RNA target-binding regions. J. Bacteriol., 193, 1690-1701.
-
(2011)
J. Bacteriol.
, vol.193
, pp. 1690-1701
-
-
Peer, A.1
Margalit, H.2
-
17
-
-
84859436530
-
NCBI Reference Sequences (RefSeq): Current status, new features and genome annotation policy
-
Pruitt,K.D., Tatusova,T., Brown,G.R. and Maglott,D.R. (2012) NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Res., 40, D130-D135.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Pruitt, K.D.1
Tatusova, T.2
Brown, G.R.3
Maglott, D.R.4
-
18
-
-
48449090786
-
NCBI BLAST: A better web interface
-
Johnson,M., Zaretskaya,I., Raytselis,Y., Merezhuk,Y., McGinnis,S. and Madden,T.L. (2008) NCBI BLAST: a better web interface. Nucleic Acids Res., 36, W5-W9.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Johnson, M.1
Zaretskaya, I.2
Raytselis, Y.3
Merezhuk, Y.4
McGinnis, S.5
Madden, T.L.6
-
19
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin,M.A., Blackshields,G., Brown,N.P., Chenna,R., McGettigan,P.A., McWilliam,H., Valentin,F., Wallace,I.M., Wilm,A., Lopez,R. et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics, 23, 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
-
20
-
-
82055164092
-
ViennaRNA package 2.0
-
Lorenz,R., Bernhart,S.H., Höner Zu Siederdissen,C., Tafer,H., Flamm,C., Stadler,P.F. and Hofacker,I.L. (2011) ViennaRNA Package 2.0. Algorithms Mol. Biol.: AMB, 6, 26.
-
(2011)
Algorithms Mol. Biol.: AMB
, vol.6
, pp. 26
-
-
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
-
21
-
-
33644853766
-
Local RNA base pairing probabilities in large sequences
-
Bernhart,S.H., Hofacker,I.L. and Stadler,P.F. (2006) Local RNA base pairing probabilities in large sequences. Bioinformatics, 22, 614-615.
-
(2006)
Bioinformatics
, vol.22
, pp. 614-615
-
-
Bernhart, S.H.1
Hofacker, I.L.2
Stadler, P.F.3
-
22
-
-
48449101958
-
TargetRNA: A tool for predicting targets of small RNA action in bacteria
-
Tjaden,B. (2008) TargetRNA: a tool for predicting targets of small RNA action in bacteria. Nucleic Acids Res., 36, W109-W113.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Tjaden, B.1
-
23
-
-
84881504578
-
Computational analysis of bacterial RNA-seq data
-
McClure,R., Balasubramanian,D., Sun,Y., Bobrovskyy,M., Sumby,P., Genco,C.A., Vanderpool,C.K. and Tjaden,B. (2013) Computational analysis of bacterial RNA-seq data. Nucleic Acids Res., 41, e140.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
McClure, R.1
Balasubramanian, D.2
Sun, Y.3
Bobrovskyy, M.4
Sumby, P.5
Genco, C.A.6
Vanderpool, C.K.7
Tjaden, B.8
|