-
1
-
-
77954563760
-
Identification of differentially expressed small non-protein-coding RNAs in Staphylococcus aureus displaying both the normal and the small-colony variant phenotype
-
Abu-Qatouseh LF, Chinni SV, Seggewiss J, Proctor RA, Brosius J, Rozhdestvensky TS, Peters G, von Eiff C, Becker K. 2010. Identification of differentially expressed small non-protein-coding RNAs in Staphylococcus aureus displaying both the normal and the small-colony variant phenotype. J Mol Med (Berl) 88: 565-575.
-
(2010)
J Mol Med (Berl)
, vol.88
, pp. 565-575
-
-
Abu-Qatouseh, L.F.1
Chinni, S.V.2
Seggewiss, J.3
Proctor, R.A.4
Brosius, J.5
Rozhdestvensky, T.S.6
Peters, G.7
Von Eiff, C.8
Becker, K.9
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J Mol Biol 215: 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
84928987900
-
HTSeq - A Python framework to work with high-throughput sequencing data
-
Anders S, Pyl PT, Huber W. 2014. HTSeq - a Python framework to work with high-throughput sequencing data. Bioinformatics 31: 166-169.
-
(2014)
Bioinformatics
, vol.31
, pp. 166-169
-
-
Anders, S.1
Pyl, P.T.2
Huber, W.3
-
4
-
-
33749316678
-
Characterization of the Staphylococcus aureus heat shock, cold shock, stringent, and SOS responses and their effects on log-phase mRNA turnover
-
Anderson KL, Roberts C, Disz T, Vonstein V, Hwang K, Overbeek R, Olson PD, Projan SJ, Dunman PM. 2006. Characterization of the Staphylococcus aureus heat shock, cold shock, stringent, and SOS responses and their effects on log-phase mRNA turnover. J Bacteriol 188: 6739-6756.
-
(2006)
J Bacteriol
, vol.188
, pp. 6739-6756
-
-
Anderson, K.L.1
Roberts, C.2
Disz, T.3
Vonstein, V.4
Hwang, K.5
Overbeek, R.6
Olson, P.D.7
Projan, S.J.8
Dunman, P.M.9
-
5
-
-
37549035397
-
Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: Polymorphism and evolution of two major pathogenicity islands
-
Baba T, Bae T, Schneewind O, Takeuchi F, Hiramatsu K. 2008. Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: polymorphism and evolution of two major pathogenicity islands. J Bacteriol 190: 300-310.
-
(2008)
J Bacteriol
, vol.190
, pp. 300-310
-
-
Baba, T.1
Bae, T.2
Schneewind, O.3
Takeuchi, F.4
Hiramatsu, K.5
-
6
-
-
77956278172
-
Cartography of methicillin-resistant S. aureus transcripts: Detection, orientation and temporal expression during growth phase and stress conditions
-
Beaume M, Hernandez D, Farinelli L, Deluen C, Linder P, Gaspin C, Romby P, Schrenzel J, Francois P. 2010. Cartography of methicillin-resistant S. aureus transcripts: detection, orientation and temporal expression during growth phase and stress conditions. PLoS One 5: e10725.
-
(2010)
PLoS One
, vol.5
, pp. e10725
-
-
Beaume, M.1
Hernandez, D.2
Farinelli, L.3
Deluen, C.4
Linder, P.5
Gaspin, C.6
Romby, P.7
Schrenzel, J.8
Francois, P.9
-
7
-
-
78049393967
-
Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolism
-
Bohn C, Rigoulay C, Chabelskaya S, Sharma CM, Marchais A, Skorski P, Borezée-Durant E, Barbet R, Jacquet E, Jacq A, et al. 2010. Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolism. Nucleic Acids Res 38: 6620-6636.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 6620-6636
-
-
Bohn, C.1
Rigoulay, C.2
Chabelskaya, S.3
Sharma, C.M.4
Marchais, A.5
Skorski, P.6
Borezée-Durant, E.7
Barbet, R.8
Jacquet, E.9
Jacq, A.10
-
8
-
-
84906355091
-
Small regulatory RNAs from low-GC Grampositive bacteria
-
Brantl S, Brückner R. 2014. Small regulatory RNAs from low-GC Grampositive bacteria. RNA Biol 11: 443-456.
-
(2014)
RNA Biol
, vol.11
, pp. 443-456
-
-
Brantl, S.1
Brückner, R.2
-
9
-
-
84874266637
-
Rfam 11.0: 10 Years of RNA families
-
Burge SW, Daub J, Eberhardt R, Tate J, Barquist L, Nawrocki EP, Eddy SR, Gardner PP, Bateman A. 2013. Rfam 11.0: 10 years of RNA families. Nucleic Acids Res 41: D226-D232.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D226-D232
-
-
Burge, S.W.1
Daub, J.2
Eberhardt, R.3
Tate, J.4
Barquist, L.5
Nawrocki, E.P.6
Eddy, S.R.7
Gardner, P.P.8
Bateman, A.9
-
10
-
-
57249083988
-
IntaRNA: Efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions
-
Busch A, Richter AS, 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
-
12
-
-
78149343511
-
sRNATarBase: A comprehensive database of bacterial sRNA targets verified by experiments
-
Cao Y, Wu J, Liu Q, Zhao Y, Ying X, Cha L, Wang L, Li W. 2010. sRNATarBase: a comprehensive database of bacterial sRNA targets verified by experiments. RNA 16: 2051-2057.
-
(2010)
RNA
, vol.16
, pp. 2051-2057
-
-
Cao, Y.1
Wu, J.2
Liu, Q.3
Zhao, Y.4
Ying, X.5
Cha, L.6
Wang, L.7
Li, W.8
-
13
-
-
84857188863
-
Artemis: An integrated platform for visualization and analysis of high-throughput sequence-based experimental data
-
Carver T, Harris SR, Berriman M, Parkhill J, McQuillan JA. 2012. Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data. Bioinformatics 28: 464-469.
-
(2012)
Bioinformatics
, vol.28
, pp. 464-469
-
-
Carver, T.1
Harris, S.R.2
Berriman, M.3
Parkhill, J.4
McQuillan, J.A.5
-
14
-
-
77954665866
-
A Staphylococcus aureus small RNA is required for bacterial virulence and regulates the expression of an immune-evasion molecule
-
Chabelskaya S, Gaillot O, Felden B. 2010. A Staphylococcus aureus small RNA is required for bacterial virulence and regulates the expression of an immune-evasion molecule. PLoS Pathog 6: e1000927.
-
(2010)
PLoS Pathog
, vol.6
, pp. e1000927
-
-
Chabelskaya, S.1
Gaillot, O.2
Felden, B.3
-
15
-
-
80054737356
-
RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA
-
Cros MJ, de Monte A, Mariette J, Bardou P, Grenier-Boley B, Gautheret D, Touzet H, Gaspin C. 2011. RNAspace.org: an integrated environment for the prediction, annotation, and analysis of ncRNA. RNA 17: 1947-1956.
-
(2011)
RNA
, vol.17
, pp. 1947-1956
-
-
Cros, M.J.1
De Monte, A.2
Mariette, J.3
Bardou, P.4
Grenier-Boley, B.5
Gautheret, D.6
Touzet, H.7
Gaspin, C.8
-
16
-
-
77956193448
-
ProgressiveMauve: Multiple genome alignment with gene gain, loss and rearrangement
-
Darling AE, Mau B, Perna NT. 2010. progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS One 5: e11147.
-
(2010)
PLoS One
, vol.5
, pp. e11147
-
-
Darling, A.E.1
Mau, B.2
Perna, N.T.3
-
17
-
-
0036081355
-
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
-
Edgar R, Domrachev M, Lash AE. 2002. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res 30: 207-210.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 207-210
-
-
Edgar, R.1
Domrachev, M.2
Lash, A.E.3
-
19
-
-
84904253051
-
Novel aspects of RNA regulation in Staphylococcus aureus
-
Fechter P, Caldelari I, Lioliou E, Romby P. 2014. Novel aspects of RNA regulation in Staphylococcus aureus. FEBS Lett 588: 2523-2529.
-
(2014)
FEBS Lett
, vol.588
, pp. 2523-2529
-
-
Fechter, P.1
Caldelari, I.2
Lioliou, E.3
Romby, P.4
-
20
-
-
79953268826
-
The Staphylococcus aureus RNome and its commitment to virulence
-
Felden B, Vandenesch F, Bouloc P, Romby P. 2011. The Staphylococcus aureus RNome and its commitment to virulence. PLoS Pathog 7: e1002006.
-
(2011)
PLoS Pathog
, vol.7
, pp. e1002006
-
-
Felden, B.1
Vandenesch, F.2
Bouloc, P.3
Romby, P.4
-
21
-
-
73849116916
-
A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation
-
Geissmann T, Chevalier C, Cros MJ, Boisset S, Fechter P, Noirot C, Schrenzel J, Francois P, Vandenesch F, Gaspin C, et al. 2009. A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation. Nucleic Acids Res 37: 7239-7257.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 7239-7257
-
-
Geissmann, T.1
Chevalier, C.2
Cros, M.J.3
Boisset, S.4
Fechter, P.5
Noirot, C.6
Schrenzel, J.7
Francois, P.8
Vandenesch, F.9
Gaspin, C.10
-
22
-
-
33745150284
-
Staphylococcus aureus NCTC8325 genome
-
(ed. Fischetti V, et al.), ASM Press, Washington, DC
-
Gillaspy AF, Worrell V, Orvis J, Roe BA, Dyer DW, Landollo JJ. 2006. Staphylococcus aureus NCTC8325 genome. In Gram-positive pathogens (ed. Fischetti V, et al.), pp. 381-412. ASM Press, Washington, DC.
-
(2006)
Gram-positive Pathogens
, pp. 381-412
-
-
Gillaspy, A.F.1
Worrell, V.2
Orvis, J.3
Roe, B.A.4
Dyer, D.W.5
Landollo, J.J.6
-
23
-
-
84892854028
-
Emerging functions for the Staphylococcus aureus RNome
-
Guillet J, Hallier M, Felden B. 2013. Emerging functions for the Staphylococcus aureus RNome. PLoS Pathog 9: e1003767.
-
(2013)
PLoS Pathog
, vol.9
, pp. e1003767
-
-
Guillet, J.1
Hallier, M.2
Felden, B.3
-
24
-
-
84880279404
-
Analysis of the small RNA transcriptional response in multidrug-resistant Staphylococcus aureus after antimicrobial exposure
-
Howden BP, Beaume M, Harrison PF, Hernandez D, Schrenzel J, Seemann T, Francois P, Stinear TP. 2013. Analysis of the small RNA transcriptional response in multidrug-resistant Staphylococcus aureus after antimicrobial exposure. Antimicrob Agents Chemother 57: 3864-3874.
-
(2013)
Antimicrob Agents Chemother
, vol.57
, pp. 3864-3874
-
-
Howden, B.P.1
Beaume, M.2
Harrison, P.F.3
Hernandez, D.4
Schrenzel, J.5
Seemann, T.6
Francois, P.7
Stinear, T.P.8
-
25
-
-
58149177178
-
sRNAMap: Genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes
-
Huang HY, Chang HY, Chou CH, Tseng CP, Ho SY, Yang CD, Ju YW, Huang HD. 2009. sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes. Nucleic Acids Res 37: D150-D154.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D150-D154
-
-
Huang, H.Y.1
Chang, H.Y.2
Chou, C.H.3
Tseng, C.P.4
Ho, S.Y.5
Yang, C.D.6
Ju, Y.W.7
Huang, H.D.8
-
26
-
-
30744470609
-
Application of phylogenetic networks in evolutionary studies
-
Huson DH, Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23: 254-267.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 254-267
-
-
Huson, D.H.1
Bryant, D.2
-
27
-
-
84904813263
-
Target RNA2: Identifying targets of small regulatory RNAs in bacteria
-
Kery MB, Feldman M, Livny J, Tjaden B. 2014. TargetRNA2: identifying targets of small regulatory RNAs in bacteria. Nucleic Acids Res 42: W124-W129.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. W124-W129
-
-
Kery, M.B.1
Feldman, M.2
Livny, J.3
Tjaden, B.4
-
28
-
-
84876996918
-
TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
-
Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. 2013. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol 14: R36.
-
(2013)
Genome Biol
, vol.14
, pp. R36
-
-
Kim, D.1
Pertea, G.2
Trapnell, C.3
Pimentel, H.4
Kelley, R.5
Salzberg, S.L.6
-
29
-
-
33846056835
-
fRNAdb: A platform for mining/annotating functional RNA candidates from non-coding RNA sequences
-
Kin T, Yamada K, Terai G, Okida H, Yoshinari Y, Ono Y, Kojima A, Kimura Y, Komori T, Asai K. 2007. fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequences. Nucleic Acids Res 35: D145-D148.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. D145-D148
-
-
Kin, T.1
Yamada, K.2
Terai, G.3
Okida, H.4
Yoshinari, Y.5
Ono, Y.6
Kojima, A.7
Kimura, Y.8
Komori, T.9
Asai, K.10
-
30
-
-
35748954014
-
Prokaryotic taxonomy and phylogeny in the genomic era: Advancements and challenges ahead
-
Konstantinidis KT, Tiedje JM. 2007. Prokaryotic taxonomy and phylogeny in the genomic era: advancements and challenges ahead. Curr Opin Microbiol 10: 504-509.
-
(2007)
Curr Opin Microbiol
, vol.10
, pp. 504-509
-
-
Konstantinidis, K.T.1
Tiedje, J.M.2
-
31
-
-
0035925904
-
Whole genome sequencing of meticillin-resistant Staphylococcus aureus
-
Kuroda M, Ohta T, Uchiyama I, Baba T, Yuzawa H, Kobayashi I, Cui L, Oguchi A, Aoki K, Nagai Y, et al. 2001. Whole genome sequencing of meticillin-resistant Staphylococcus aureus. Lancet 357: 1225-1240.
-
(2001)
Lancet
, vol.357
, pp. 1225-1240
-
-
Kuroda, M.1
Ohta, T.2
Uchiyama, I.3
Baba, T.4
Yuzawa, H.5
Kobayashi, I.6
Cui, L.7
Oguchi, A.8
Aoki, K.9
Nagai, Y.10
-
32
-
-
84928006932
-
Regulatory RNAs involved in bacterial antibiotic resistance
-
Lalaouna D, Eyraud A, Chabelskaya S, Felden B, Massé E. 2014. Regulatory RNAs involved in bacterial antibiotic resistance. PLoS Pathog 10: e1004299.
-
(2014)
PLoS Pathog
, vol.10
, pp. e1004299
-
-
Lalaouna, D.1
Eyraud, A.2
Chabelskaya, S.3
Felden, B.4
Massé, E.5
-
33
-
-
84055200530
-
Genome-wide antisense transcription drives mRNA processing in bacteria
-
Lasa I, Toledo-Arana A, Dobin A, Villanueva M, de los Mozos IR, Vergara-Irigaray M, Segura V, Fagegaltier D, Penades JR, Valle J, et al. 2011. Genome-wide antisense transcription drives mRNA processing in bacteria. Proc Natl Acad Sci 108: 20172-20177.
-
(2011)
Proc Natl Acad Sci
, vol.108
, pp. 20172-20177
-
-
Lasa, I.1
Toledo-Arana, A.2
Dobin, A.3
Villanueva, M.4
De Los Mozos, I.R.5
Vergara-Irigaray, M.6
Segura, V.7
Fagegaltier, D.8
Penades, J.R.9
Valle, J.10
-
34
-
-
77949587649
-
Fast and accurate long-read alignment with Burrows-Wheeler transform
-
Li H, Durbin R. 2010. Fast and accurate long-read alignment with Burrows-Wheeler transform. Bioinformatics 26: 589-595.
-
(2010)
Bioinformatics
, vol.26
, pp. 589-595
-
-
Li, H.1
Durbin, R.2
-
35
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. 2009. The sequence alignment/map format and SAMtools. Bioinformatics 25: 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
Marth, G.7
Abecasis, G.8
Durbin, R.9
-
36
-
-
84876577653
-
BSRD: A repository for bacterial small regulatory RNA
-
Li L, Huang D, Cheung MK, Nong W, Huang Q, Kwan HS. 2013. BSRD: a repository for bacterial small regulatory RNA. Nucleic Acids Res 41: D233-D238.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D233-D238
-
-
Li, L.1
Huang, D.2
Cheung, M.K.3
Nong, W.4
Huang, Q.5
Kwan, H.S.6
-
37
-
-
84864052473
-
Global regulatory functions of the Staphylococcus aureus endoribonuclease III in gene expression
-
Lioliou E, Sharma CM, Caldelari I, Helfer AC, Fechter P, Vandenesch F, Vogel J, Romby P. 2012. Global regulatory functions of the Staphylococcus aureus endoribonuclease III in gene expression. PLoS Genet 8: e1002782.
-
(2012)
PLoS Genet
, vol.8
, pp. e1002782
-
-
Lioliou, E.1
Sharma, C.M.2
Caldelari, I.3
Helfer, A.C.4
Fechter, P.5
Vandenesch, F.6
Vogel, J.7
Romby, P.8
-
38
-
-
64549149245
-
Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing
-
Liu JM, Livny J, Lawrence MS, Kimball MD, Waldor MK, Camilli A. 2009. Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing. Nucleic Acids Res 37: e46.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. e46
-
-
Liu, J.M.1
Livny, J.2
Lawrence, M.S.3
Kimball, M.D.4
Waldor, M.K.5
Camilli, A.6
-
39
-
-
66449091512
-
Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles
-
Marchais A, Naville M, Bohn C, Bouloc P, Gautheret D. 2009. Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles. Genome Res 19: 1084-1092.
-
(2009)
Genome Res
, vol.19
, pp. 1084-1092
-
-
Marchais, A.1
Naville, M.2
Bohn, C.3
Bouloc, P.4
Gautheret, D.5
-
40
-
-
0344363037
-
A unique mechanism regulating gene expression: Translational inhibition by a complementary RNA transcript (micRNA)
-
Mizuno T, Chou MY, Inouye M. 1984. A unique mechanism regulating gene expression: translational inhibition by a complementary RNA transcript (micRNA). Proc Natl Acad Sci 81: 1966-1970.
-
(1984)
Proc Natl Acad Sci
, vol.81
, pp. 1966-1970
-
-
Mizuno, T.1
Chou, M.Y.2
Inouye, M.3
-
41
-
-
84864015491
-
Characterization of SSR42, a novel virulence factor regulatory RNA that contributes to the pathogenesis of a Staphylococcus aureus USA300 representative
-
Morrison JM, Miller EW, Benson MA, Alonzo F III, Yoong P, Torres VJ, Hinrichs SH, Dunman PM. 2012. Characterization of SSR42, a novel virulence factor regulatory RNA that contributes to the pathogenesis of a Staphylococcus aureus USA300 representative. J Bacteriol 194: 2924-2938.
-
(2012)
J Bacteriol
, vol.194
, pp. 2924-2938
-
-
Morrison, J.M.1
Miller, E.W.2
Benson, M.A.3
Alonzo, F.4
Yoong, P.5
Torres, V.J.6
Hinrichs, S.H.7
Dunman, P.M.8
-
43
-
-
0024473736
-
pT181 plasmid replication is regulated by a countertranscript-driven transcriptional attenuator
-
Novick RP, Iordanescu S, Projan SJ, Kornblum J, Edelman I. 1989. pT181 plasmid replication is regulated by a countertranscript-driven transcriptional attenuator. Cell 59: 395-404.
-
(1989)
Cell
, vol.59
, pp. 395-404
-
-
Novick, R.P.1
Iordanescu, S.2
Projan, S.J.3
Kornblum, J.4
Edelman, I.5
-
44
-
-
0027180031
-
Synthesis of staphylococcal virulence factors is controlled by a regulatory RNA molecule
-
Novick RP, Ross HF, Projan SJ, Kornblum J, Kreiswirth B, Moghazeh S. 1993. Synthesis of staphylococcal virulence factors is controlled by a regulatory RNA molecule. EMBO J 12: 3967-3975.
-
(1993)
EMBO J
, vol.12
, pp. 3967-3975
-
-
Novick, R.P.1
Ross, H.F.2
Projan, S.J.3
Kornblum, J.4
Kreiswirth, B.5
Moghazeh, S.6
-
45
-
-
33846074755
-
RNAdb 2.0 - An expanded database of mammalian non-coding RNAs
-
Pang KC, Stephen S, Dinger ME, Engström PG, Lenhard B, Mattick JS. 2007. RNAdb 2.0 - an expanded database of mammalian non-coding RNAs. Nucleic Acids Res 35: D178-D182.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. D178-D182
-
-
Pang, K.C.1
Stephen, S.2
Dinger, M.E.3
Engström, P.G.4
Lenhard, B.5
Mattick, J.S.6
-
46
-
-
26444600764
-
Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains
-
Pichon C, Felden B. 2005. Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains. Proc Natl Acad Sci 102: 14249-14254.
-
(2005)
Proc Natl Acad Sci
, vol.102
, pp. 14249-14254
-
-
Pichon, C.1
Felden, B.2
-
47
-
-
84899628221
-
Dual toxic peptide-coding Staphylococcus aureus RNA under antisense regulation targets host cells and bacterial rivals unequally
-
Pinel-Marie ML, Brielle R, Felden B. 2014. Dual toxic peptide-coding Staphylococcus aureus RNA under antisense regulation targets host cells and bacterial rivals unequally. Cell Rep 7: 424-435.
-
(2014)
Cell Rep
, vol.7
, pp. 424-435
-
-
Pinel-Marie, M.L.1
Brielle, R.2
Felden, B.3
-
48
-
-
84864823820
-
sRNAdb: A small non-coding RNA database for gram-positive bacteria
-
Pischimarov J, Kuenne C, Billion A, Hemberger J, Cemič F, Chakraborty T, Hain T. 2012. sRNAdb: a small non-coding RNA database for gram-positive bacteria. BMC Genomics 13: 384.
-
(2012)
BMC Genomics
, vol.13
, pp. 384
-
-
Pischimarov, J.1
Kuenne, C.2
Billion, A.3
Hemberger, J.4
Cemič, F.5
Chakraborty, T.6
Hain, T.7
-
49
-
-
33645210668
-
Characterizing the effect of the Staphylococcus aureus virulence factor regulator, SarA, on log-phase mRNA half-lives
-
Roberts C, Anderson KL, Murphy E, Projan SJ, Mounts W, Hurlburt B, Smeltzer M, Overbeek R, Disz T, Dunman PM. 2006. Characterizing the effect of the Staphylococcus aureus virulence factor regulator, SarA, on log-phase mRNA half-lives. J Bacteriol 188: 2593-2603.
-
(2006)
J Bacteriol
, vol.188
, pp. 2593-2603
-
-
Roberts, C.1
Anderson, K.L.2
Murphy, E.3
Projan, S.J.4
Mounts, W.5
Hurlburt, B.6
Smeltzer, M.7
Overbeek, R.8
Disz, T.9
Dunman, P.M.10
-
50
-
-
84860769484
-
Current knowledge on regulatory RNAs and their machineries in Staphylococcus aureus
-
Romilly C, Caldelari I, Parmentier D, Lioliou E, Romby P, Fechter P. 2012. Current knowledge on regulatory RNAs and their machineries in Staphylococcus aureus. RNA Biol 9: 402-413.
-
(2012)
RNA Biol
, vol.9
, pp. 402-413
-
-
Romilly, C.1
Caldelari, I.2
Parmentier, D.3
Lioliou, E.4
Romby, P.5
Fechter, P.6
-
51
-
-
84855464046
-
A cis-antisense RNA acts in trans in Staphylococcus aureus to control translation of a human cytolytic peptide
-
Sayed N, Jousselin A, Felden B. 2012. A cis-antisense RNA acts in trans in Staphylococcus aureus to control translation of a human cytolytic peptide. Nat Struct Mol Biol 19: 105-112.
-
(2012)
Nat Struct Mol Biol
, vol.19
, pp. 105-112
-
-
Sayed, N.1
Jousselin, A.2
Felden, B.3
-
52
-
-
84882623924
-
Advantages and limitations of genomics in prokaryotic taxonomy
-
Sentausa E, Fournier PE. 2013. Advantages and limitations of genomics in prokaryotic taxonomy. Clin Microbiol Infect 19: 790-795.
-
(2013)
Clin Microbiol Infect
, vol.19
, pp. 790-795
-
-
Sentausa, E.1
Fournier, P.E.2
-
53
-
-
0032900532
-
Genome phylogeny based on gene content
-
Snel B, Bork P, Huynen MA. 1999. Genome phylogeny based on gene content. Nat Genet 21: 108-110.
-
(1999)
Nat Genet
, vol.21
, pp. 108-110
-
-
Snel, B.1
Bork, P.2
Huynen, M.A.3
-
55
-
-
80053019485
-
Regulation by small RNAs in bacteria: Expanding frontiers
-
Storz G, Vogel J, Wassarman KM. 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
-
56
-
-
84893762795
-
The importance of regulatory RNAs in Staphylococcus aureus
-
Tomasini A, Francois P, Howden BP, Fechter P, Romby P, Caldelari I. 2014. The importance of regulatory RNAs in Staphylococcus aureus. Infect Genet Evol 21: 616-626.
-
(2014)
Infect Genet Evol
, vol.21
, pp. 616-626
-
-
Tomasini, A.1
Francois, P.2
Howden, B.P.3
Fechter, P.4
Romby, P.5
Caldelari, I.6
-
57
-
-
84891798006
-
NONCODEv4: Exploring the world of long non-coding RNA genes
-
Xie C, Yuan J, Li H, Li M, Zhao G, Bu D, Zhu W, Wu W, Chen R, Zhao Y. 2014. NONCODEv4: exploring the world of long non-coding RNA genes. Nucleic Acids Res 42: D98-D103.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D98-D103
-
-
Xie, C.1
Yuan, J.2
Li, H.3
Li, M.4
Zhao, G.5
Bu, D.6
Zhu, W.7
Wu, W.8
Chen, R.9
Zhao, Y.10
-
58
-
-
84894252717
-
ArtR, a novel sRNA of Staphylococcus aureus, regulates α-toxin expression by targeting the 5′ UTR of sarT mRNA
-
Xue T, Zhang X, Sun H, Sun B. 2014. ArtR, a novel sRNA of Staphylococcus aureus, regulates α-toxin expression by targeting the 5′ UTR of sarT mRNA. Med Microbiol Immunol 203: 1-12.
-
(2014)
Med Microbiol Immunol
, vol.203
, pp. 1-12
-
-
Xue, T.1
Zhang, X.2
Sun, H.3
Sun, B.4
-
59
-
-
62649160909
-
Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing
-
Yoder-Himes DR, Chain PS, Zhu Y, Wurtzel O, Rubin EM, Tiedje JM, Sorek R. 2009. Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing. Proc Natl Acad Sci 106: 3976-3981.
-
(2009)
Proc Natl Acad Sci
, vol.106
, pp. 3976-3981
-
-
Yoder-Himes, D.R.1
Chain, P.S.2
Zhu, Y.3
Wurtzel, O.4
Rubin, E.M.5
Tiedje, J.M.6
Sorek, R.7
-
60
-
-
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
|