-
1
-
-
0031459386
-
A small, stable RNA induced by oxidative stress: Role as a pleiotropic regulator and antimutator
-
Altuvia S, Weinstein-Fischer D, Zhang A, Postow L, Storz G. 1997. A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutator. Cell 90(1):43-53
-
(1997)
Cell
, vol.90
, Issue.1
, pp. 43-53
-
-
Altuvia, S.1
Weinstein-Fischer, D.2
Zhang, A.3
Postow, L.4
Storz, G.5
-
2
-
-
0035954304
-
Novel small RNA-encoding genes in the intergenic regions of Escherichia coli
-
Argaman L,Hershberg R, Vogel J, Bejerano G,Wagner EGH, et al. 2001. Novel small RNA-encoding genes in the intergenic regions of Escherichia coli. Curr. Biol. 11(12):941-50
-
(2001)
Curr. Biol
, vol.11
, Issue.12
, pp. 941-950
-
-
Argaman, L.1
Hershberg, R.2
Vogel, J.3
Bejerano, G.4
Wagner, E.G.H.5
-
3
-
-
81755177792
-
Sequence-based analysis uncovers an abundance of non-coding RNA in the total transcriptome of Mycobacterium tuberculosis
-
Arnvig KB, Comas I, Thomson NR, Houghton J, Boshoff HI, et al. 2011. Sequence-based analysis uncovers an abundance of non-coding RNA in the total transcriptome of Mycobacterium tuberculosis. PLOS Pathog. 7(11):e1002342
-
(2011)
PLOS Pathog
, vol.7
, Issue.11
, pp. e1002342
-
-
Arnvig, K.B.1
Comas, I.2
Thomson, N.R.3
Houghton, J.4
Boshoff, H.I.5
-
4
-
-
0037133970
-
The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand
-
Artsimovitch I, Landick R. 2002. The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand. Cell 109(2):193-203
-
(2002)
Cell
, vol.109
, Issue.2
, pp. 193-203
-
-
Artsimovitch, I.1
Landick, R.2
-
5
-
-
84924388692
-
MinIon nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island
-
Ashton PM, Nair S, Dallman T, Rubino S, Rabsch W, et al. 2014. MinIon nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island. Nat. Biotechnol. 33:296-300
-
(2014)
Nat. Biotechnol
, vol.33
, pp. 296-300
-
-
Ashton, P.M.1
Nair, S.2
Dallman, T.3
Rubino, S.4
Rabsch, W.5
-
6
-
-
84860764110
-
Non-coding sRNAs regulate virulence in the bacterial pathogen Vibrio cholerae
-
Bardill JP, Hammer BK. 2012. Non-coding sRNAs regulate virulence in the bacterial pathogen Vibrio cholerae. RNA Biol. 9(4):392-401
-
(2012)
RNA Biol
, vol.9
, Issue.4
, pp. 392-401
-
-
Bardill, J.P.1
Hammer, B.K.2
-
7
-
-
84880876168
-
Approaches to querying bacterial genomes with transposoninsertion sequencing
-
Barquist L, Boinett CJ, Cain AK. 2013. Approaches to querying bacterial genomes with transposoninsertion sequencing. RNA Biol. 10(7):1161-69
-
(2013)
RNA Biol
, vol.10
, Issue.7
, pp. 1161-1169
-
-
Barquist, L.1
Boinett, C.J.2
Cain, A.K.3
-
8
-
-
77955155869
-
Base pairing small RNAs and their roles in global regulatory networks
-
Beisel CL, Storz G. 2010. Base pairing small RNAs and their roles in global regulatory networks. FEMS Microbiol. Rev. 34(5):866-82
-
(2010)
FEMS Microbiol. Rev
, vol.34
, Issue.5
, pp. 866-882
-
-
Beisel, C.L.1
Storz, G.2
-
9
-
-
84859915108
-
Multiple factors dictate target selection by Hfqbinding small RNAs
-
Beisel CL, Updegrove TB, Janson BJ, Storz G. 2012. Multiple factors dictate target selection by Hfqbinding small RNAs. EMBO J. 31(8):1961-74
-
(2012)
EMBO J
, vol.31
, Issue.8
, pp. 1961-1974
-
-
Beisel, C.L.1
Updegrove, T.B.2
Janson, B.J.3
Storz, G.4
-
10
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner FR, Plunkett G 3rd, Bloch CA, Perna NT, Burland V, et al. 1997. The complete genome sequence of Escherichia coli K-12. Science 277(5331):1453-62
-
(1997)
Science
, vol.277
, Issue.5331
, pp. 1453-1462
-
-
Blattner, F.R.1
Plunkett, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
-
11
-
-
84888612605
-
Regulation of bacterial metabolism by small RNAs using diverse mechanisms
-
Bobrovskyy M, Vanderpool CK. 2013. Regulation of bacterial metabolism by small RNAs using diverse mechanisms. Annu. Rev. Genet. 47:209-32
-
(2013)
Annu. Rev. Genet
, vol.47
, pp. 209-232
-
-
Bobrovskyy, M.1
Vanderpool, C.K.2
-
12
-
-
34249881878
-
Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator rot by an antisense mechanism
-
Boisset S,Geissmann T, Huntzinger E, Fechter P, Bendridi N, et al. 2007. Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator rot by an antisense mechanism. Genes Dev. 21(11):1353-66
-
(2007)
Genes Dev
, vol.21
, Issue.11
, pp. 1353-1366
-
-
Boisset, S.1
Geissmann, T.2
Huntzinger, E.3
Fechter, P.4
Bendridi, N.5
-
13
-
-
84892788440
-
Constraint-based models predict metabolic and associated cellular functions
-
Bordbar A, Monk JM, King ZA, Palsson BO. 2014. Constraint-based models predict metabolic and associated cellular functions. Nat. Rev. Genet. 15(2):107-20
-
(2014)
Nat. Rev. Genet
, vol.15
, Issue.2
, pp. 107-120
-
-
Bordbar, A.1
Monk, J.M.2
King, Z.A.3
Palsson, B.O.4
-
14
-
-
34447542213
-
A small RNA downregulates LamB maltoporin in Salmonella
-
Bossi L, Figueroa-Bossi N. 2007. A small RNA downregulates LamB maltoporin in Salmonella. Mol. Microbiol. 65(3):799-810
-
(2007)
Mol. Microbiol
, vol.65
, Issue.3
, pp. 799-810
-
-
Bossi, L.1
Figueroa-Bossi, N.2
-
15
-
-
84865096593
-
A role for Rho-dependent polarity in gene regulation by a noncoding small RNA
-
Bossi L, Schwartz A, Guillemardet B, Boudvillain M, Figueroa-Bossi N. 2012. A role for Rho-dependent polarity in gene regulation by a noncoding small RNA. Genes Dev. 26(16):1864-73
-
(2012)
Genes Dev
, vol.26
, Issue.16
, pp. 1864-1873
-
-
Bossi, L.1
Schwartz, A.2
Guillemardet, B.3
Boudvillain, M.4
Figueroa-Bossi, N.5
-
16
-
-
84906355091
-
Small regulatory RNAs from low-GC Gram-positive bacteria
-
Brantl S, Bruckner R. 2014. Small regulatory RNAs from low-GC Gram-positive bacteria. RNA Biol. 11(5):443-56
-
(2014)
RNA Biol
, vol.11
, Issue.5
, pp. 443-456
-
-
Brantl, S.1
Bruckner, R.2
-
18
-
-
0015208767
-
Sequence of 6S RNA of e
-
Brownlee GG. 1971. Sequence of 6S RNA of E. coli. Nature 229(5):147-49
-
(1971)
Coli. Nature
, vol.229
, Issue.5
, pp. 147-149
-
-
Brownlee, G.G.1
-
19
-
-
84867729107
-
Developing insights into the mechanisms of evolution of bacterial pathogens from whole-genome sequences
-
Bryant J, Chewapreecha C, Bentley SD. 2012. Developing insights into the mechanisms of evolution of bacterial pathogens from whole-genome sequences. Future Microbiol. 7(11):1283-96
-
(2012)
Future Microbiol
, vol.7
, Issue.11
, pp. 1283-1296
-
-
Bryant, J.1
Chewapreecha, C.2
Bentley, S.D.3
-
20
-
-
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(24):2849-56
-
(2008)
Bioinformatics
, vol.24
, Issue.24
, pp. 2849-2856
-
-
Busch, A.1
Richter, A.S.2
Backofen, R.3
-
21
-
-
84885162961
-
RNA-mediated regulation in pathogenic bacteria
-
Caldelari I, Chao Y, Romby P, Vogel J. 2013. RNA-mediated regulation in pathogenic bacteria. Cold Spring Harb. Perspect. Med. 3(9):a010298
-
(2013)
Cold Spring Harb. Perspect. Med
, vol.3
, Issue.9
, pp. a010298
-
-
Caldelari, I.1
Chao, Y.2
Romby, P.3
Vogel, J.4
-
22
-
-
84877294439
-
Measurement and modeling of intrinsic transcription terminators
-
Cambray G, Guimaraes JC,Mutalik VK, Lam C, Mai Q-A, et al. 2013. Measurement and modeling of intrinsic transcription terminators. Nucleic Acids Res. 41(9):5139-48
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.9
, pp. 5139-5148
-
-
Cambray, G.1
Guimaraes, J.C.2
Mutalik, V.K.3
Lam, C.4
Mai, Q.-A.5
-
23
-
-
77953753696
-
Small RNA-mediated regulation at the level of transcript stability
-
Caron M-P, Lafontaine DA, Masse E. 2010. Small RNA-mediated regulation at the level of transcript stability. RNA Biol. 7(2):140-44
-
(2010)
RNA Biol
, vol.7
, Issue.2
, pp. 140-144
-
-
Caron, M.-P.1
Lafontaine, D.A.2
Masse, E.3
-
24
-
-
84867577054
-
An atlas of Hfq-bound transcripts reveals 3-UTRs as a genomic reservoir of regulatory small RNAs
-
Chao Y, Papenfort K, Reinhardt R, Vogel J. 2012. An atlas of Hfq-bound transcripts reveals 3-UTRs as a genomic reservoir of regulatory small RNAs. EMBO J. 31(20):4005-19
-
(2012)
EMBO J
, vol.31
, Issue.20
, pp. 4005-4019
-
-
Chao, Y.1
Papenfort, K.2
Reinhardt, R.3
Vogel, J.4
-
25
-
-
75249100904
-
The role of Hfq in bacterial pathogens
-
Chao Y, Vogel J. 2010. The role of Hfq in bacterial pathogens. Curr. Opin. Microbiol. 13(1):24-33
-
(2010)
Curr. Opin. Microbiol
, vol.13
, Issue.1
, pp. 24-33
-
-
Chao, Y.1
Vogel, J.2
-
26
-
-
84876848287
-
Comprehensive assignment of roles for Salmonella Typhimurium genes in intestinal colonization of food-producing animals
-
Chaudhuri RR, Morgan E, Peters SE, Pleasance SJ,Hudson DL, et al. 2013. Comprehensive assignment of roles for Salmonella Typhimurium genes in intestinal colonization of food-producing animals. PLOS Genet. 9(4):e1003456
-
(2013)
PLOS Genet
, vol.9
, Issue.4
, pp. e1003456
-
-
Chaudhuri, R.R.1
Morgan, E.2
Peters, S.E.3
Pleasance, S.J.4
Hudson, D.L.5
-
27
-
-
70049087126
-
Comprehensive identification of Salmonella enterica serovar Typhimurium genes required for infection of BALB/c mice
-
Chaudhuri RR, Peters SE, Pleasance SJ, Northen H, Willers C, et al. 2009. Comprehensive identification of Salmonella enterica serovar Typhimurium genes required for infection of BALB/c mice. PLOS Pathog. 5(7):e1000529
-
(2009)
PLOS Pathog
, vol.5
, Issue.7
, pp. e1000529
-
-
Chaudhuri, R.R.1
Peters, S.E.2
Pleasance, S.J.3
Northen, H.4
Willers, C.5
-
28
-
-
84879681227
-
Characterization of 582 natural and synthetic terminators and quantification of their design constraints
-
Chen Y-J, Liu P, Nielsen AAK, Brophy JAN, Clancy K, et al. 2013. Characterization of 582 natural and synthetic terminators and quantification of their design constraints. Nat. Methods 10(7):659-64
-
(2013)
Nat. Methods
, vol.10
, Issue.7
, pp. 659-664
-
-
Chen, Y.-J.1
Liu, P.2
Nielsen, A.A.K.3
Brophy, J.A.N.4
Clancy, K.5
-
29
-
-
70449370314
-
The transcription unit architecture of the Escherichia coli genome
-
Cho B-K, Zengler K, Qiu Y, Park YS, Knight EM, et al. 2009. The transcription unit architecture of the Escherichia coli genome. Nat. Biotechnol. 27(11):1043-49
-
(2009)
Nat. Biotechnol
, vol.27
, Issue.11
, pp. 1043-1049
-
-
Cho, B.-K.1
Zengler, K.2
Qiu, Y.3
Park, Y.S.4
Knight, E.M.5
-
30
-
-
84908310507
-
Unprecedented highresolution view of bacterial operon architecture revealed by RNA sequencing
-
Conway T, Creecy JP, Maddox SM, Grissom JE, Conkle TL, et al. 2014. Unprecedented highresolution view of bacterial operon architecture revealed by RNA sequencing. mBio 5(4):e01442-14
-
(2014)
MBio
, vol.5
, Issue.4
, pp. e01442-e01514
-
-
Conway, T.1
Creecy, J.P.2
Maddox, S.M.3
Grissom, J.E.4
Conkle, T.L.5
-
31
-
-
84859988230
-
Superfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA
-
Corcoran CP, Podkaminski D, Papenfort K, Urban JH, Hinton JCD, Vogel J. 2012. Superfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA. Mol. Microbiol. 84(3):428-45
-
(2012)
Mol. Microbiol
, vol.84
, Issue.3
, pp. 428-445
-
-
Corcoran, C.P.1
Podkaminski, D.2
Papenfort, K.3
Urban, J.H.4
Hinton, J.C.D.5
Vogel, J.6
-
32
-
-
84916917530
-
Quantitative bacterial transcriptomics with RNA-seq
-
Creecy JP, Conway T. 2014. Quantitative bacterial transcriptomics with RNA-seq. Curr. Opin.Microbiol. 23:133-40
-
(2014)
Curr. Opin. Microbiol
, vol.23
, pp. 133-140
-
-
Creecy, J.P.1
Conway, T.2
-
33
-
-
84919359586
-
The application of genomics to tracing bacterial pathogen transmission
-
CroucherNJ, Didelot X. 2014. The application of genomics to tracing bacterial pathogen transmission. Curr. Opin. Microbiol. 23:62-67
-
(2014)
Curr. Opin. Microbiol
, vol.23
, pp. 62-67
-
-
Croucher, N.J.1
Didelot, X.2
-
34
-
-
77957802374
-
Studying bacterial transcriptomes using RNA-seq
-
Croucher NJ, Thomson NR. 2010. Studying bacterial transcriptomes using RNA-seq. Curr. Opin. Microbiol. 13(5):619-24
-
(2010)
Curr. Opin. Microbiol
, vol.13
, Issue.5
, pp. 619-624
-
-
Croucher, N.J.1
Thomson, N.R.2
-
35
-
-
84920613211
-
The gut commensal Bacteroides thetaiotaomicron exacerbates enteric infection through modification of the metabolic landscape
-
Curtis MM, Hu Z, Klimko C, Narayanan S, Deberardinis R, Sperandio V. 2014. The gut commensal Bacteroides thetaiotaomicron exacerbates enteric infection through modification of the metabolic landscape. Cell Host Microbe 16(6):759-69
-
(2014)
Cell Host Microbe
, vol.16
, Issue.6
, pp. 759-769
-
-
Curtis, M.M.1
Hu, Z.2
Klimko, C.3
Narayanan, S.4
Deberardinis, R.5
Sperandio, V.6
-
36
-
-
77953928753
-
HITS-CLIP: Panoramic views of protein-RNA regulation in living cells
-
Darnell RB. 2010. HITS-CLIP: panoramic views of protein-RNA regulation in living cells. Wiley Interdiscip. Rev. RNA 1(2):266-86
-
(2010)
Wiley Interdiscip. Rev. RNA
, vol.1
, Issue.2
, pp. 266-286
-
-
Darnell, R.B.1
-
37
-
-
84875457350
-
Bacterial small RNA-based negative regulation: Hfq and its accomplices
-
De Lay N, Schu DJ, Gottesman S. 2013. Bacterial small RNA-based negative regulation: Hfq and its accomplices. J. Biol. Chem. 288(12):7996-8003
-
(2013)
J. Biol. Chem
, vol.288
, Issue.12
, pp. 7996-8003
-
-
De Lay, N.1
Schu, D.J.2
Gottesman, S.3
-
38
-
-
67349095027
-
Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA
-
Desnoyers G,Morissette A, Prevost K, Masse E. 2009. Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA. EMBO J. 28(11):1551-61
-
(2009)
EMBO J
, vol.28
, Issue.11
, pp. 1551-1561
-
-
Desnoyers, G.1
Morissette, A.2
Prevost, K.3
Masse, E.4
-
39
-
-
84929002871
-
Recognition of the small regulatory RNA RydC by the bacterial Hfq protein
-
Dimastrogiovanni D, Fr ohlich KS, Bandyra KJ, Bruce HA,Hohensee S, et al. 2014. Recognition of the small regulatory RNA RydC by the bacterial Hfq protein. eLife doi:10.7554/eLife.05375
-
(2014)
ELife
-
-
Dimastrogiovanni, D.1
Fr ohlich, K.S.2
Bandyra, K.J.3
Bruce, H.A.4
Hohensee, S.5
-
40
-
-
84878482772
-
High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates
-
DugarG,Herbig A, ForstnerKU, Heidrich N, Reinhardt R, et al. 2013. High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates. PLOS Genet. 9(5):e1003495
-
(2013)
PLOS Genet
, vol.9
, Issue.5
, pp. e1003495
-
-
Dugar, G.1
Herbig, A.2
Forstner, K.U.3
Heidrich, N.4
Reinhardt, R.5
-
41
-
-
84924354204
-
A nitric oxide regulated small RNA controls expression of genes involved in redox homeostasis in Bacillus subtilis
-
Durand S, Braun F, Lioliou E, Romilly C, Helfer A-C, et al. 2015. A nitric oxide regulated small RNA controls expression of genes involved in redox homeostasis in Bacillus subtilis. PLOS Genet. 11(2):e1004957
-
(2015)
PLOS Genet
, vol.11
, Issue.2
, pp. e1004957
-
-
Durand, S.1
Braun, F.2
Lioliou, E.3
Romilly, C.4
Helfer, A.-C.5
-
42
-
-
84901979228
-
Computational analysis of conserved RNA secondary structure in transcriptomes and genomes
-
Eddy SR. 2014. Computational analysis of conserved RNA secondary structure in transcriptomes and genomes. Annu. Rev. Biophys. 43:433-56
-
(2014)
Annu. Rev. Biophys
, vol.43
, pp. 433-456
-
-
Eddy, S.R.1
-
44
-
-
84907536806
-
RNA-RNAinteractions enable specific targeting of noncoding RNAs to nascent pre-mRNAs and chromatin sites
-
Engreitz JM, SirokmanK,McDonel P, Shishkin AA, SurkaC, et al. 2014.RNA-RNAinteractions enable specific targeting of noncoding RNAs to nascent pre-mRNAs and chromatin sites. Cell 159(1):188-99
-
(2014)
Cell
, vol.159
, Issue.1
, pp. 188-199
-
-
Engreitz, J.M.1
Sirokman, K.2
McDonel, P.3
Shishkin, A.A.4
Surka, C.5
-
45
-
-
0037188519
-
The evolutionary history of methicillin-resistant Staphylococcus aureus (MRSA)
-
Enright MC, Robinson DA, Randle G, Feil EJ, Grundmann H, Spratt BG. 2002. The evolutionary history of methicillin-resistant Staphylococcus aureus (MRSA). PNAS 99(11):7687-92
-
(2002)
PNAS
, vol.99
, Issue.11
, pp. 7687-7692
-
-
Enright, M.C.1
Robinson, D.A.2
Randle, G.3
Feil, E.J.4
Grundmann, H.5
Spratt, B.G.6
-
46
-
-
84920911067
-
Release of nonstop ribosomes is essential
-
Feaga HA, Viollier PH, Keiler KC. 2014. Release of nonstop ribosomes is essential. mBio 5(6):e01916
-
(2014)
MBio
, vol.5
, Issue.6
, pp. e01916
-
-
Feaga, H.A.1
Viollier, P.H.2
Keiler, K.C.3
-
47
-
-
84862886432
-
Invasive non-typhoidal Salmonella disease: An emerging and neglected tropical disease in Africa
-
Feasey NA, Dougan G, Kingsley RA, Heyderman RS, Gordon MA. 2012. Invasive non-typhoidal Salmonella disease: an emerging and neglected tropical disease in Africa. Lancet 379(9835):2489-99
-
(2012)
Lancet
, vol.379
, Issue.9835
, pp. 2489-2499
-
-
Feasey, N.A.1
Dougan, G.2
Kingsley, R.A.3
Heyderman, R.S.4
Gordon, M.A.5
-
48
-
-
84920992591
-
A Qrr noncoding RNA deploys four different regulatorymechanisms to optimize quorum-sensing dynamics
-
Feng L, Rutherford ST, Papenfort K, Bagert JD, van Kessel JC, et al. 2015. A Qrr noncoding RNA deploys four different regulatorymechanisms to optimize quorum-sensing dynamics. Cell 160(1-2):228-40
-
(2015)
Cell
, vol.160
, Issue.1-2
, pp. 228-240
-
-
Feng, L.1
Rutherford, S.T.2
Papenfort, K.3
Bagert, J.D.4
Van Kessel, J.C.5
-
49
-
-
84920621547
-
Gutmicrobiota-produced succinate promotes C difficile infection after antibiotic treatment or motility disturbance
-
Ferreyra JA,WuKJ, Hryckowian AJ, Bouley DM,Weimer BC, Sonnenburg JL. 2014. Gutmicrobiota-produced succinate promotes C. difficile infection after antibiotic treatment or motility disturbance. Cell Host Microbe 16(6):770-77
-
(2014)
Cell Host Microbe
, vol.16
, Issue.6
, pp. 770-777
-
-
Ferreyra, J.A.1
Wu, K.J.2
Hryckowian, A.J.3
Bouley, D.M.4
Weimer, B.C.5
Sonnenburg, J.L.6
-
50
-
-
0011736531
-
Mutants of Salmonella typhimurium that cannot survive within the macrophage are avirulent
-
Fields PI, Swanson RV, Haidaris CG, Heffron F. 1986. Mutants of Salmonella typhimurium that cannot survive within the macrophage are avirulent. PNAS 83(14):5189-93
-
(1986)
PNAS
, vol.83
, Issue.14
, pp. 5189-5193
-
-
Fields, P.I.1
Swanson, R.V.2
Haidaris, C.G.3
Heffron, F.4
-
51
-
-
69749123311
-
Caught at its own game: Regulatory small RNA inactivated by an inducible transcript mimicking its target
-
Figueroa-Bossi N, ValentiniM,Malleret L, Fiorini F, Bossi L. 2009. Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its target. Genes Dev. 23(17):2004-15
-
(2009)
Genes Dev
, vol.23
, Issue.17
, pp. 2004-2015
-
-
Figueroa-Bossi, N.1
Valentini, M.2
Malleret, L.3
Fiorini, F.4
Bossi, L.5
-
52
-
-
84891687767
-
Advancing the functional utility of PAR-CLIP by quantifying background binding to mRNAs and lncRNAs
-
FriedersdorfMB, Keene JD. 2014. Advancing the functional utility of PAR-CLIP by quantifying background binding to mRNAs and lncRNAs. Genome Biol. 15(1):R2
-
(2014)
Genome Biol
, vol.15
, Issue.1
, pp. R2
-
-
Friedersdorf, M.B.1
Keene, J.D.2
-
53
-
-
84887826391
-
A small RNA activates CFA synthase by isoformspecific mRNA stabilization
-
Fr ohlich KS, Papenfort K, Fekete A, Vogel J. 2013. A small RNA activates CFA synthase by isoformspecific mRNA stabilization. EMBO J. 32(22):2963-79
-
(2013)
EMBO J
, vol.32
, Issue.22
, pp. 2963-2979
-
-
Fr ohlich, K.S.1
Papenfort, K.2
Fekete, A.3
Vogel, J.4
-
54
-
-
71549126189
-
Activation of gene expression by small RNA
-
Fr ohlich KS, Vogel J. 2009. Activation of gene expression by small RNA. Curr. Opin. Microbiol. 12(6):674-82
-
(2009)
Curr. Opin. Microbiol
, vol.12
, Issue.6
, pp. 674-682
-
-
Fr ohlich, K.S.1
Vogel, J.2
-
55
-
-
80051763231
-
RNIE: Genome-wide prediction of bacterial intrinsic terminators
-
Gardner PP, Barquist L, Bateman A,Nawrocki EP, Weinberg Z. 2011. RNIE: genome-wide prediction of bacterial intrinsic terminators. Nucleic Acids Res. 39(14):5845-52
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.14
, pp. 5845-5852
-
-
Gardner, P.P.1
Barquist, L.2
Bateman, A.3
Nawrocki, E.P.4
Weinberg, Z.5
-
56
-
-
80053458416
-
A Salmonella small non-coding RNA facilitates bacterial invasion and intracellular replication by modulating the expression of virulence factors
-
Gong H, Vu G-P, Bai Y, Chan E, Wu R, et al. 2011. A Salmonella small non-coding RNA facilitates bacterial invasion and intracellular replication by modulating the expression of virulence factors. PLOS Pathog. 7(9):e1002120
-
(2011)
PLOS Pathog
, vol.7
, Issue.9
, pp. e1002120
-
-
Gong, H.1
Vu, G.-P.2
Bai, Y.3
Chan, E.4
Wu, R.5
-
57
-
-
84921472110
-
Global analysis of the RNAprotein interaction and RNA secondary structure landscapes of the Arabidopsis nucleus
-
Gosai SJ, Foley SW, Wang D, Silverman IM, Selamoglu N, et al. 2015. Global analysis of the RNAprotein interaction and RNA secondary structure landscapes of the Arabidopsis nucleus. Mol. Cell 57(2):376-88
-
(2015)
Mol. Cell
, vol.57
, Issue.2
, pp. 376-388
-
-
Gosai, S.J.1
Foley, S.W.2
Wang, D.3
Silverman, I.M.4
Selamoglu, N.5
-
58
-
-
4344682527
-
The small RNA regulators of Escherichia coli: Roles and mechanisms
-
Gottesman S. 2004. The small RNA regulators of Escherichia coli: roles and mechanisms. Annu. Rev. Microbiol. 58:303-28
-
(2004)
Annu. Rev. Microbiol
, vol.58
, pp. 303-328
-
-
Gottesman, S.1
-
59
-
-
84863924309
-
Bacterial small RNA regulators: Versatile roles and rapidly evolving variations
-
Gottesman S, Storz G. 2011. Bacterial small RNA regulators: versatile roles and rapidly evolving variations. Cold Spring Harb. Perspect. Biol. 3(12): pii:a003798
-
(2011)
Cold Spring Harb. Perspect. Biol
, vol.3
, Issue.12
, pp. a003798
-
-
Gottesman, S.1
Storz, G.2
-
60
-
-
43249099379
-
Modelling within-host spatiotemporal dynamics of invasive bacterial disease
-
Grant AJ, Restif O, McKinley TJ, Sheppard M, Maskell DJ, Mastroeni P. 2008. Modelling within-host spatiotemporal dynamics of invasive bacterial disease. PLOS Biol. 6(4):e74
-
(2008)
PLOS Biol
, vol.6
, Issue.4
, pp. e74
-
-
Grant, A.J.1
Restif, O.2
McKinley, T.J.3
Sheppard, M.4
Maskell, D.J.5
Mastroeni, P.6
-
61
-
-
78449267911
-
RNAs: Regulators of bacterial virulence
-
Gripenland J, Netterling S, Loh E, Tiensuu T, Toledo-Arana A, Johansson J. 2010. RNAs: regulators of bacterial virulence. Nat. Rev. Microbiol. 8(12):857-66
-
(2010)
Nat. Rev. Microbiol
, vol.8
, Issue.12
, pp. 857-866
-
-
Gripenland, J.1
Netterling, S.2
Loh, E.3
Tiensuu, T.4
Toledo-Arana, A.5
Johansson, J.6
-
62
-
-
84903616729
-
Unambiguous identification of miRNA:target site interactions by different types of ligation reactions
-
Grosswendt S, Filipchyk A, ManzanoM, Klironomos F, SchillingM, et al. 2014. Unambiguous identification of miRNA:target site interactions by different types of ligation reactions. Mol. Cell 54(6):1042-54
-
(2014)
Mol. Cell
, vol.54
, Issue.6
, pp. 1042-1054
-
-
Grosswendt, S.1
Filipchyk, A.2
Manzano, M.3
Klironomos, F.4
Schilling, M.5
-
63
-
-
70849119931
-
Transcriptome complexity in a genome-reduced bacterium
-
Guell M, van Noort V, Yus E, Chen W-H, Leigh-Bell J, et al. 2009. Transcriptome complexity in a genome-reduced bacterium. Science 326(5957):1268-71
-
(2009)
Science
, vol.326
, Issue.5957
, pp. 1268-1271
-
-
Guell, M.1
Van Noort, V.2
Yus, E.3
Chen, W.-H.4
Leigh-Bell, J.5
-
64
-
-
80051732583
-
Bacterial transcriptomics:What is beyond the RNA horiz-ome
-
Guell M, Yus E, Lluch-Senar M, Serrano L. 2011. Bacterial transcriptomics:What is beyond the RNA horiz-ome? Nat. Rev. Microbiol. 9(9):658-69
-
(2011)
Nat. Rev. Microbiol
, vol.9
, Issue.9
, pp. 658-669
-
-
Guell, M.1
Yus, E.2
Lluch-Senar, M.3
Serrano, L.4
-
65
-
-
84904362234
-
MicL, a new σedependent sRNA, combats envelope stress by repressing synthesis of Lpp, the major outer membrane lipoprotein
-
Guo MS, Updegrove TB, Gogol EB, Shabalina SA, Gross CA, Storz G. 2014. MicL, a new σEdependent sRNA, combats envelope stress by repressing synthesis of Lpp, the major outer membrane lipoprotein. Genes Dev. 28(14):1620-34
-
(2014)
Genes Dev
, vol.28
, Issue.14
, pp. 1620-1634
-
-
Guo, M.S.1
Updegrove, T.B.2
Gogol, E.B.3
Shabalina, S.A.4
Gross, C.A.5
Storz, G.6
-
66
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, et al. 2010. Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat. Biotechnol. 28(5):503-10
-
(2010)
Nat. Biotechnol
, vol.28
, Issue.5
, pp. 503-510
-
-
Guttman, M.1
Garber, M.2
Levin, J.Z.3
Donaghey, J.4
Robinson, J.5
-
67
-
-
77950920903
-
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP
-
Hafner M, Landthaler M, Burger L, Khorshid M, Hausser J, et al. 2010. Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell 141(1):129-41
-
(2010)
Cell
, vol.141
, Issue.1
, pp. 129-141
-
-
Hafner, M.1
Landthaler, M.2
Burger, L.3
Khorshid, M.4
Hausser, J.5
-
68
-
-
84908020489
-
Amethod tomap changes in bacterial surface composition induced by regulatory RNAs in Escherichia coli and Staphylococcus aureus
-
Hammann P, Parmentier D, Cerciat M, Reimegard J,Helfer A-C, et al. 2014. Amethod tomap changes in bacterial surface composition induced by regulatory RNAs in Escherichia coli and Staphylococcus aureus. Biochimie 106:175-79
-
(2014)
Biochimie
, vol.106
, pp. 175-179
-
-
Hammann, P.1
Parmentier, D.2
Cerciat, M.3
Reimegard, J.4
Helfer, A.-C.5
-
69
-
-
84887621185
-
The fun of identifying gene function in bacterial pathogens; Insights from Salmonella functional genomics
-
Hammarlof DL, Canals R, Hinton JCD. 2013. The fun of identifying gene function in bacterial pathogens; insights from Salmonella functional genomics. Curr. Opin. Microbiol. 16(5):643-51
-
(2013)
Curr. Opin. Microbiol
, vol.16
, Issue.5
, pp. 643-651
-
-
Hammarlof, D.L.1
Canals, R.2
Hinton, J.C.D.3
-
70
-
-
84926145856
-
Widespread expression of conserved small RNAs in small symbiont genomes
-
Hansen AK, Degnan PH. 2014. Widespread expression of conserved small RNAs in small symbiont genomes. ISME J. 8(12):2490-502
-
(2014)
ISME J
, vol.8
, Issue.12
, pp. 2490-2502
-
-
Hansen, A.K.1
Degnan, P.H.2
-
71
-
-
84871990888
-
Emergence and global spread of epidemic healthcare-associated Clostridium difficile
-
He M, Miyajima F, Roberts P, Ellison L, Pickard DJ, et al. 2013. Emergence and global spread of epidemic healthcare-associated Clostridium difficile. Nat. Genet. 45(1):109-13
-
(2013)
Nat. Genet
, vol.45
, Issue.1
, pp. 109-113
-
-
He, M.1
Miyajima, F.2
Roberts, P.3
Ellison, L.4
Pickard, D.J.5
-
72
-
-
84860774336
-
SRNAs and the virulence of Salmonella enterica serovar Typhimurium
-
Hebrard M, Kroger C, Srikumar S, Colgan A,Handler K, Hinton JCD. 2012. sRNAs and the virulence of Salmonella enterica serovar Typhimurium. RNA Biol. 9(4):437-45
-
(2012)
RNA Biol
, vol.9
, Issue.4
, pp. 437-445
-
-
Hebrard, M.1
Kroger, C.2
Srikumar, S.3
Colgan, A.4
Handler, K.5
Hinton, J.C.D.6
-
73
-
-
84876935138
-
Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding
-
Helwak A, Kudla G, Dudnakova T, Tollervey D. 2013. Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding. Cell 153(3):654-65
-
(2013)
Cell
, vol.153
, Issue.3
, pp. 654-665
-
-
Helwak, A.1
Kudla, G.2
Dudnakova, T.3
Tollervey, D.4
-
74
-
-
0037387973
-
A survey of small RNA-encoding genes in Escherichia coli
-
Hershberg R, Altuvia S, Margalit H. 2003. A survey of small RNA-encoding genes in Escherichia coli. Nucleic Acids Res. 31(7):1813-20
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.7
, pp. 1813-1820
-
-
Hershberg, R.1
Altuvia, S.2
Margalit, H.3
-
75
-
-
84904260973
-
Riboregulators and the role of Hfq in photosynthetic bacteria
-
Hess WR, Berghoff BA, Wilde A, Steglich C, Klug G. 2014. Riboregulators and the role of Hfq in photosynthetic bacteria. RNA Biol. 11(5):413-26
-
(2014)
RNA Biol
, vol.11
, Issue.5
, pp. 413-426
-
-
Hess, W.R.1
Berghoff, B.A.2
Wilde, A.3
Steglich, C.4
Klug, G.5
-
76
-
-
77953120292
-
Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis
-
Holmqvist E, Reimegard J, Sterk M, Grantcharova N, RomlingU,Wagner EGH. 2010. Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis. EMBO J. 29(11):1840-50
-
(2010)
EMBO J
, vol.29
, Issue.11
, pp. 1840-1850
-
-
Holmqvist, E.1
Reimegard, J.2
Sterk, M.3
Grantcharova, N.4
Romling, U.5
Wagner, E.G.H.6
-
77
-
-
84877983042
-
Massive functional mapping of a 5-UTR by saturation mutagenesis, phenotypic sorting and deep sequencing
-
Holmqvist E, Reimegard J,Wagner EGH. 2013. Massive functional mapping of a 5-UTR by saturation mutagenesis, phenotypic sorting and deep sequencing. Nucleic Acids Res. 41(12):e122
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.12
, pp. e122
-
-
Holmqvist, E.1
Reimegard, J.2
Wagner, E.G.H.3
-
78
-
-
84859996025
-
A mixed double negative feedback loop between the sRNA MicF and the global regulator Lrp
-
Holmqvist E, Unoson C, Reimegard J, Wagner EGH. 2012. A mixed double negative feedback loop between the sRNA MicF and the global regulator Lrp. Mol. Microbiol. 84(3):414-27
-
(2012)
Mol. Microbiol
, vol.84
, Issue.3
, pp. 414-427
-
-
Holmqvist, E.1
Unoson, C.2
Reimegard, J.3
Wagner, E.G.H.4
-
79
-
-
79551650983
-
Disruption of small RNA signaling caused by competition for Hfq
-
Hussein R, Lim HN. 2011. Disruption of small RNA signaling caused by competition for Hfq. PNAS 108(3):1110-15
-
(2011)
PNAS
, vol.108
, Issue.3
, pp. 1110-1115
-
-
Hussein, R.1
Lim, H.N.2
-
80
-
-
84894318608
-
Ribosome profiling: New views of translation, from single codons to genome scale
-
Ingolia NT. 2014. Ribosome profiling: new views of translation, from single codons to genome scale. Nat. Rev. Genet. 15(3):205-13
-
(2014)
Nat. Rev. Genet
, vol.15
, Issue.3
, pp. 205-213
-
-
Ingolia, N.T.1
-
81
-
-
62549134121
-
Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
-
Ingolia NT, Ghaemmaghami S, Newman JRS, Weissman JS. 2009. Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science 324(5924):218-23
-
(2009)
Science
, vol.324
, Issue.5924
, pp. 218-223
-
-
Ingolia, N.T.1
Ghaemmaghami, S.2
Newman, J.R.S.3
Weissman, J.S.4
-
82
-
-
78649714014
-
Analysis and design of RNA sequencing experiments for identifying isoform regulation
-
Katz Y, Wang ET, Airoldi EM, Burge CB. 2010. Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat. Methods 7(12):1009-15
-
(2010)
Nat. Methods
, vol.7
, Issue.12
, pp. 1009-1015
-
-
Katz, Y.1
Wang, E.T.2
Airoldi, E.M.3
Burge, C.B.4
-
83
-
-
84866160409
-
Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling
-
Kim D, Hong JS-J, Qiu Y, Nagarajan H, Seo J-H, et al. 2012. Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling. PLOS Genet. 8(8):e1002867
-
(2012)
PLOS Genet
, vol.8
, Issue.8
, pp. e1002867
-
-
Kim, D.1
Hong, J.S.-J.2
Qiu, Y.3
Nagarajan, H.4
Seo, J.-H.5
-
84
-
-
84855916545
-
Protein-RNA interactions: New genomic technologies and perspectives
-
Konig J, Zarnack K, LuscombeNM, Ule J. 2012. Protein-RNA interactions: new genomic technologies and perspectives. Nat. Rev. Genet. 13(2):77-83
-
(2012)
Nat. Rev. Genet
, vol.13
, Issue.2
, pp. 77-83
-
-
Konig, J.1
Zarnack, K.2
Luscombe, N.M.3
Ule, J.4
-
85
-
-
77954387023
-
ICLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution
-
Konig J, Zarnack K, Rot G, Curk T, Kayikci M, et al. 2010. iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution. Nat. Struct. Mol. Biol. 17(7):909-15
-
(2010)
Nat. Struct. Mol. Biol
, vol.17
, Issue.7
, pp. 909-915
-
-
Konig, J.1
Zarnack, K.2
Rot, G.3
Curk, T.4
Kayikci, M.5
-
86
-
-
84913554630
-
One chromosome, one contig: Complete microbial genomes from longread sequencing and assembly
-
Koren S, Phillippy AM. 2015. One chromosome, one contig: complete microbial genomes from longread sequencing and assembly. Curr. Opin. Microbiol. 23:110-20
-
(2015)
Curr. Opin. Microbiol
, vol.23
, pp. 110-120
-
-
Koren, S.1
Phillippy, A.M.2
-
87
-
-
84890302568
-
An infection-relevant transcriptomic compendium for Salmonella enterica serovar Typhimurium
-
Kroger C, Colgan A, Srikumar S, Handler K, Sivasankaran SK, et al. 2013. An infection-relevant transcriptomic compendium for Salmonella enterica serovar Typhimurium. Cell Host Microbe 14(6):683-95
-
(2013)
Cell Host Microbe
, vol.14
, Issue.6
, pp. 683-695
-
-
Kroger, C.1
Colgan, A.2
Srikumar, S.3
Handler, K.4
Sivasankaran, S.K.5
-
88
-
-
84860742976
-
The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium
-
Kroger C, Dillon SC, Cameron ADS, Papenfort K, Sivasankaran SK, et al. 2012. The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. PNAS 109(20):E1277-86
-
(2012)
PNAS
, vol.109
, Issue.20
, pp. E1277-E1286
-
-
Kroger, C.1
Dillon, S.C.2
Cameron, A.D.S.3
Papenfort, K.4
Sivasankaran, S.K.5
-
89
-
-
79959946169
-
Cross-linking, ligation, and sequencing of hybrids reveals RNA-RNA interactions in yeast
-
KudlaG,Granneman S,HahnD, Beggs JD, Tollervey D. 2011. Cross-linking, ligation, and sequencing of hybrids reveals RNA-RNA interactions in yeast. PNAS 108(24):10010-15
-
(2011)
PNAS
, vol.108
, Issue.24
, pp. 10010-10015
-
-
Kudla, G.1
Granneman, S.2
Hahn, D.3
Beggs, J.D.4
Tollervey, D.5
-
90
-
-
84928893761
-
A 3 external transcribed spacer in a tRNA transcript acts as a sponge for small RNAs to prevent transcriptional noise
-
Lalaouna D, Carrier M-C, Semsey S, Brouard J-S, Wang J, Wade JT, Masse E. 2015. A 3 external transcribed spacer in a tRNA transcript acts as a sponge for small RNAs to prevent transcriptional noise. Mol. Cell. 58(3):393-405
-
(2015)
Mol. Cell
, vol.58
, Issue.3
, pp. 393-405
-
-
Lalaouna, D.1
Carrier, M.-C.2
Semsey, S.3
Brouard, J.-S.4
Wang, J.5
Wade, J.T.6
Masse, E.7
-
91
-
-
73249130761
-
Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants
-
Langridge GC, Phan M-D, Turner DJ, Perkins TT, Parts L, et al. 2009. Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants. Genome Res. 19(12):2308-16
-
(2009)
Genome Res
, vol.19
, Issue.12
, pp. 2308-2316
-
-
Langridge, G.C.1
Phan, M.-D.2
Turner, D.J.3
Perkins, T.T.4
Parts, L.5
-
92
-
-
84896735766
-
Voom: Precision weights unlock linear model analysis tools for RNA-seq read counts
-
Law CW, Chen Y, Shi W, Smyth GK. 2014. Voom: precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol. 15(2):R29
-
(2014)
Genome Biol
, vol.15
, Issue.2
, pp. R29
-
-
Law, C.W.1
Chen, Y.2
Shi, W.3
Smyth, G.K.4
-
93
-
-
0032514643
-
Riboregulation in Escherichia coli: DsrA RNAacts by RNA:RNA interactions at multiple loci
-
Lease RA, Cusick ME, Belfort M. 1998. Riboregulation in Escherichia coli: DsrA RNAacts by RNA:RNA interactions at multiple loci. PNAS 95(21):12456-61
-
(1998)
PNAS
, vol.95
, Issue.21
, pp. 12456-12461
-
-
Lease, R.A.1
Cusick, M.E.2
Belfort, M.3
-
94
-
-
3142564584
-
The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae
-
Lenz DH, Mok KC, Lilley BN, Kulkarni RV, Wingreen NS, Bassler BL. 2004. The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae. Cell. 118(1):69-82
-
(2004)
Cell
, vol.118
, Issue.1
, pp. 69-82
-
-
Lenz, D.H.1
Mok, K.C.2
Lilley, B.N.3
Kulkarni, R.V.4
Wingreen, N.S.5
Bassler, B.L.6
-
95
-
-
84860231100
-
The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria
-
Li G-W, Oh E, Weissman JS. 2012. The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria. Nature 484(7395):538-41
-
(2012)
Nature
, vol.484
, Issue.7395
, pp. 538-541
-
-
Li, G.-W.1
Oh, E.2
Weissman, J.S.3
-
96
-
-
84908336343
-
Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling
-
Lindgreen S, Umu SU, Lai AS-W, Eldai H, Liu W, et al. 2014. Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling. PLOS Comput. Biol. 10(10):e1003907
-
(2014)
PLOS Comput. Biol
, vol.10
, Issue.10
, pp. e1003907
-
-
Lindgreen, S.1
Umu, S.U.2
Lai, A.S.-W.3
Eldai, H.4
Liu, W.5
-
97
-
-
34247173351
-
Identification of small RNAs in diverse bacterial species
-
Livny J, Waldor MK. 2007. Identification of small RNAs in diverse bacterial species. Curr. Opin. Microbiol. 10(2):96-101
-
(2007)
Curr. Opin. Microbiol
, vol.10
, Issue.2
, pp. 96-101
-
-
Livny, J.1
Waldor, M.K.2
-
98
-
-
84865179264
-
High-throughput bacterial genome sequencing: An embarrassment of choice, a world of opportunity
-
Loman NJ, Constantinidou C, Chan JZM, Halachev M, Sergeant M, et al. 2012. High-throughput bacterial genome sequencing: an embarrassment of choice, a world of opportunity. Nat. Rev. Microbiol. 10(9):599-606
-
(2012)
Nat. Rev. Microbiol
, vol.10
, Issue.9
, pp. 599-606
-
-
Loman, N.J.1
Constantinidou, C.2
Chan, J.Z.M.3
Halachev, M.4
Sergeant, M.5
-
99
-
-
84924629414
-
Moderated estimation of fold change and dispersion for RNA-seq data with DEseq2
-
Love M, HuberW, Anders S. 2014. Moderated estimation of fold change and dispersion for RNA-seq data with DEseq2. Genome Biol. 15(12):550
-
(2014)
Genome Biol
, vol.15
, Issue.12
, pp. 550
-
-
Love, M.1
Huber, W.2
Anders, S.3
-
100
-
-
65349177758
-
A genetic approach for finding small RNA regulators of genes of interest identifies RybC as regulating the DpiA/DpiB two-component system
-
Mandin P, Gottesman S. 2009. A genetic approach for finding small RNA regulators of genes of interest identifies RybC as regulating the DpiA/DpiB two-component system. Mol. Microbiol. 72(3):551-65
-
(2009)
Mol. Microbiol
, vol.72
, Issue.3
, pp. 551-565
-
-
Mandin, P.1
Gottesman, S.2
-
101
-
-
84864590175
-
Control of virulence by small RNAs in Streptococcus pneumoniae
-
Mann B, van Opijnen T,Wang J,Obert C, Wang Y-D, et al. 2012. Control of virulence by small RNAs in Streptococcus pneumoniae. PLOS Pathog. 8(7):e1002788
-
(2012)
PLOS Pathog
, vol.8
, Issue.7
, pp. e1002788
-
-
Mann, B.1
Van Opijnen, T.2
Wang, J.3
Obert, C.4
Wang, Y.-D.5
-
102
-
-
77952274420
-
Bacillus anthracis genome organization in light of whole transcriptome sequencing
-
Martin J, ZhuW, Passalacqua KD, Bergman N, Borodovsky M. 2010. Bacillus anthracis genome organization in light of whole transcriptome sequencing. BMC Bioinform. 11(Suppl. 3):S10
-
(2010)
BMC Bioinform
, vol.11
, pp. S10
-
-
Martin, J.1
Zhu, W.2
Passalacqua, K.D.3
Bergman, N.4
Borodovsky, M.5
-
103
-
-
26444505976
-
Effect of RyhB smallRNAon global iron use in Escherichia coli
-
MasseE, Vanderpool CK, Gottesman S. 2005. Effect of RyhB smallRNAon global iron use in Escherichia coli. J. Bacteriol. 187(20):6962-71
-
(2005)
J. Bacteriol
, vol.187
, Issue.20
, pp. 6962-6971
-
-
Masse, E.1
Vanderpool, C.K.2
Gottesman, S.3
-
104
-
-
57649232149
-
A dynamic view of the spread and intracellular distribution of Salmonella enterica
-
Mastroeni P, Grant A, Restif O, Maskell D. 2009. A dynamic view of the spread and intracellular distribution of Salmonella enterica. Nat. Rev. Microbiol. 7(1):73-80
-
(2009)
Nat. Rev. Microbiol
, vol.7
, Issue.1
, pp. 73-80
-
-
Mastroeni, P.1
Grant, A.2
Restif, O.3
Maskell, D.4
-
105
-
-
33845311869
-
Signature-tagged mutagenesis: Barcoding mutants for genome-wide screens
-
Mazurkiewicz P, Tang CM, Boone C, Holden DW. 2006. Signature-tagged mutagenesis: barcoding mutants for genome-wide screens. Nat. Rev. Genet. 7(12):929-39
-
(2006)
Nat. Rev. Genet
, vol.7
, Issue.12
, pp. 929-939
-
-
Mazurkiewicz, P.1
Tang, C.M.2
Boone, C.3
Holden, D.W.4
-
107
-
-
84858041341
-
Differential expression analysis of multifactor RNA-seq experiments with respect to biological variation
-
McCarthy DJ, Chen Y, Smyth GK. 2012. Differential expression analysis of multifactor RNA-seq experiments with respect to biological variation. Nucleic Acids Res. 40(10):4288-97
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.10
, pp. 4288-4297
-
-
McCarthy, D.J.1
Chen, Y.2
Smyth, G.K.3
-
108
-
-
0035950182
-
Complete genome sequence of Salmonella enterica serovar Typhimurium LT2
-
McClellandM, Sanderson KE, Spieth J,Clifton SW,Latreille P, et al. 2001. Complete genome sequence of Salmonella enterica serovar Typhimurium LT2. Nature 413(6858):852-56
-
(2001)
Nature
, vol.413
, Issue.6858
, pp. 852-856
-
-
McClelland, M.1
Sanderson, K.E.2
Spieth, J.3
Clifton, S.W.4
Latreille, P.5
-
109
-
-
84881504578
-
Computational analysis of bacterial RNA-seq data
-
McClure R, Balasubramanian D, Sun Y, Bobrovskyy M, Sumby P, et al. 2013. Computational analysis of bacterial RNA-seq data. Nucleic Acids Res. 41(14):e140
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.14
, pp. e140
-
-
McClure, R.1
Balasubramanian, D.2
Sun, Y.3
Bobrovskyy, M.4
Sumby, P.5
-
110
-
-
84892999996
-
Methods for comprehensive experimental identification of RNA-protein interactions
-
McHugh CA, Russell P, Guttman M. 2014. Methods for comprehensive experimental identification of RNA-protein interactions. Genome Biol. 15(1):203
-
(2014)
Genome Biol
, vol.15
, Issue.1
, pp. 203
-
-
McHugh, C.A.1
Russell, P.2
Guttman, M.3
-
111
-
-
84860720471
-
The non-codingRNAworld of the bacterial pathogen Listeria monocytogenes
-
Mellin JR,Cossart P. 2012. The non-codingRNAworld of the bacterial pathogen Listeria monocytogenes. RNA Biol. 9(4):372-78
-
(2012)
RNA Biol
, vol.9
, Issue.4
, pp. 372-378
-
-
Mellin, J.R.1
Cossart, P.2
-
112
-
-
70449380939
-
Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in e
-
Mendoza-Vargas A, Olvera L, Olvera M, Grande R, Vega-Alvarado L, et al. 2009. Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli. PLOS ONE 4(10):e7526
-
(2009)
Coli. PLOS ONE
, vol.4
, Issue.10
, pp. e7526
-
-
Mendoza-Vargas, A.1
Olvera, L.2
Olvera, M.3
Grande, R.4
Vega-Alvarado, L.5
-
114
-
-
84906330407
-
Small RNAs in the control of RpoS, CsgD, and biofilm architecture of Escherichia coli
-
Mika F, Hengge R. 2014. Small RNAs in the control of RpoS, CsgD, and biofilm architecture of Escherichia coli. RNA Biol. 11(5):494-507
-
(2014)
RNA Biol
, vol.11
, Issue.5
, pp. 494-507
-
-
Mika, F.1
Hengge, R.2
-
115
-
-
84858800600
-
Transcriptome-wide analysis of protein-RNA interactions using high-throughput sequencing
-
Milek M, Wyler E, Landthaler M. 2012. Transcriptome-wide analysis of protein-RNA interactions using high-throughput sequencing. Semin. Cell Dev. Biol. 23(2):206-12
-
(2012)
Semin. Cell Dev. Biol
, vol.23
, Issue.2
, pp. 206-212
-
-
Milek, M.1
Wyler, E.2
Landthaler, M.3
-
116
-
-
7044272280
-
Evidence for reassociation of RNA-binding proteins after cell lysis: Implications for the interpretation of immunoprecipitation analyses
-
Mili S, Steitz JA. 2004. Evidence for reassociation of RNA-binding proteins after cell lysis: implications for the interpretation of immunoprecipitation analyses. RNA 10(11):1692-94
-
(2004)
RNA
, vol.10
, Issue.11
, pp. 1692-1694
-
-
Mili, S.1
Steitz, J.A.2
-
117
-
-
84931570743
-
Cross talk between ABC transportermRNAs via a targetmRNAderived sponge of the GcvB small RNA
-
MiyakoshiM, Chao Y, Vogel J. 2015. Cross talk between ABC transportermRNAs via a targetmRNAderived sponge of the GcvB small RNA. EMBO J. 34(11):1478-92
-
(2015)
EMBO J
, vol.34
, Issue.11
, pp. 1478-1492
-
-
Miyakoshi, M.1
Chao, Y.2
Vogel, J.3
-
118
-
-
84922444526
-
Regulatory small RNAs from the 3-regions of bacterial mRNAs
-
MiyakoshiM, Chao Y, Vogel J. 2015. Regulatory small RNAs from the 3-regions of bacterial mRNAs. Curr. Opin. Microbiol. 24:132-39
-
(2015)
Curr. Opin. Microbiol
, vol.24
, pp. 132-139
-
-
Miyakoshi, M.1
Chao, Y.2
Vogel, J.3
-
119
-
-
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). PNAS 81(7):1966-70
-
(1984)
PNAS
, vol.81
, Issue.7
, pp. 1966-1970
-
-
Mizuno, T.1
Chou, M.Y.2
Inouye, M.3
-
120
-
-
80053079335
-
Functional characterization of bacterial sRNAs using a network biology approach
-
Modi SR, Camacho DM, Kohanski MA, Walker GC, Collins JJ. 2011. Functional characterization of bacterial sRNAs using a network biology approach. PNAS 108(37):15522-27
-
(2011)
PNAS
, vol.108
, Issue.37
, pp. 15522-15527
-
-
Modi, S.R.1
Camacho, D.M.2
Kohanski, M.A.3
Walker, G.C.4
Collins, J.J.5
-
121
-
-
0002782867
-
Hfq: A bacterial Sm-like protein that mediates RNA-RNA interaction
-
Møller T, Franch T, Højrup P, Keene DR, Bachinger HP, et al. 2002. Hfq: a bacterial Sm-like protein that mediates RNA-RNA interaction. Mol. Cell 9(1):23-30
-
(2002)
Mol. Cell
, vol.9
, Issue.1
, pp. 23-30
-
-
Møller, T.1
Franch, T.2
Højrup, P.3
Keene, D.R.4
Bachinger, H.P.5
-
122
-
-
83355177980
-
Competition among Hfq-binding small RNAs in Escherichia coli
-
Moon K, Gottesman S. 2011. Competition among Hfq-binding small RNAs in Escherichia coli. Mol. Microbiol. 82(6):1545-62
-
(2011)
Mol. Microbiol
, vol.82
, Issue.6
, pp. 1545-1562
-
-
Moon, K.1
Gottesman, S.2
-
123
-
-
24944507588
-
RNase E-based ribonucleoprotein complexes: Mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAs
-
Morita T, Maki K, Aiba H. 2005. RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAs. Genes Dev. 19(18):2176-86
-
(2005)
Genes Dev
, vol.19
, Issue.18
, pp. 2176-2186
-
-
Morita, T.1
Maki, K.2
Aiba, H.3
-
124
-
-
33845648557
-
Bacterial contingency loci: The role of simple sequence DNA repeats in bacterial adaptation
-
Moxon R, Bayliss C, Hood D. 2006. Bacterial contingency loci: the role of simple sequence DNA repeats in bacterial adaptation. Annu. Rev. Genet. 40:307-33
-
(2006)
Annu. Rev. Genet
, vol.40
, pp. 307-333
-
-
Moxon, R.1
Bayliss, C.2
Hood, D.3
-
125
-
-
84907226126
-
The digital toolbox
-
Nature
-
Nature. 2014. The digital toolbox. Nature 513(7516):6
-
(2014)
Nature
, vol.513
, Issue.7516
, pp. 6
-
-
-
126
-
-
84883355771
-
Matters of significance
-
Nat. Methods
-
Nat. Methods. 2013. Matters of significance. Nat. Methods 10(9):805
-
(2013)
Nat. Methods
, vol.10
, Issue.9
, pp. 805
-
-
-
127
-
-
73349114916
-
Bacterial quorum-sensing network architectures
-
Ng W-L, Bassler BL. 2009. Bacterial quorum-sensing network architectures. Annu. Rev. Genet. 43:197-222
-
(2009)
Annu. Rev. Genet
, vol.43
, pp. 197-222
-
-
Ng, W.-L.1
Bassler, B.L.2
-
128
-
-
78650475398
-
Phenotypic landscape of a bacterial cell
-
Nichols RJ, Sen S, Choo YJ, Beltrao P, Zietek M, et al. 2011. Phenotypic landscape of a bacterial cell. Cell 144(1):143-56
-
(2011)
Cell
, vol.144
, Issue.1
, pp. 143-156
-
-
Nichols, R.J.1
Sen, S.2
Choo, Y.J.3
Beltrao, P.4
Zietek, M.5
-
129
-
-
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(10):3967-75
-
(1993)
EMBO J
, vol.12
, Issue.10
, pp. 3967-3975
-
-
Novick, R.P.1
Ross, H.F.2
Projan, S.J.3
Kornblum, J.4
Kreiswirth, B.5
Moghazeh, S.6
-
130
-
-
84879565885
-
Iron-responsive bacterial small RNAs: Variations on a theme
-
Oglesby-Sherrouse AG, Murphy ER. 2013. Iron-responsive bacterial small RNAs: variations on a theme. Metallomics 5(4):276-86
-
(2013)
Metallomics
, vol.5
, Issue.4
, pp. 276-286
-
-
Oglesby-Sherrouse, A.G.1
Murphy, E.R.2
-
131
-
-
83255164895
-
Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo
-
Oh E, Becker AH, Sandikci A, Huber D, Chaba R, et al. 2011. Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo. Cell 147(6):1295-308
-
(2011)
Cell
, vol.147
, Issue.6
, pp. 1295-1308
-
-
Oh, E.1
Becker, A.H.2
Sandikci, A.3
Huber, D.4
Chaba, R.5
-
132
-
-
84868201561
-
Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa
-
Okoro CK, Kingsley RA, Connor TR, Harris SR, Parry CM, et al. 2012. Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa. Nat. Genet. 44(11):1215-21
-
(2012)
Nat. Genet
, vol.44
, Issue.11
, pp. 1215-1221
-
-
Okoro, C.K.1
Kingsley, R.A.2
Connor, T.R.3
Harris, S.R.4
Parry, C.M.5
-
133
-
-
69749114176
-
Switching off small RNA regulation with trap-mRNA
-
Overgaard M, Johansen J, Møller-Jensen J, Valentin-Hansen P. 2009. Switching off small RNA regulation with trap-mRNA. Mol. Microbiol. 73(5):790-800
-
(2009)
Mol. Microbiol
, vol.73
, Issue.5
, pp. 790-800
-
-
Overgaard, M.1
Johansen, J.2
Møller-Jensen, J.3
Valentin-Hansen, P.4
-
134
-
-
41849139346
-
Small RNAs encoded within genetic islands of Salmonella Typhimurium show host-induced expression and role in virulence
-
Padalon-Brauch G, Hershberg R, Elgrably-WeissM, Baruch K, Rosenshine I, et al. 2008. Small RNAs encoded within genetic islands of Salmonella Typhimurium show host-induced expression and role in virulence. Nucleic Acids Res. 36(6):1913-27
-
(2008)
Nucleic Acids Res
, vol.36
, Issue.6
, pp. 1913-1927
-
-
Padalon-Brauch, G.1
Hershberg, R.2
Elgrably-Weiss, M.3
Baruch, K.4
Rosenshine, I.5
-
135
-
-
84939288737
-
An assessment of bacterial small RNA target prediction programs
-
Pain A, Ott A, Amine H, Rochet T, Bouloc P, Gauthret D. 2015. An assessment of bacterial small RNA target prediction programs. RNA Biol. 12(5):509-13
-
(2015)
RNA Biol
, vol.12
, Issue.5
, pp. 509-513
-
-
Pain, A.1
Ott, A.2
Amine, H.3
Rochet, T.4
Bouloc, P.5
Gauthret, D.6
-
136
-
-
78650532236
-
Evidence for an autonomous 5-target recognition domain in an Hfq-associated small RNA
-
Papenfort K, Bouvier M, Mika F, Sharma CM, Vogel J. 2010. Evidence for an autonomous 5-target recognition domain in an Hfq-associated small RNA. PNAS 107(47):20435-40
-
(2010)
PNAS
, vol.107
, Issue.47
, pp. 20435-20440
-
-
Papenfort, K.1
Bouvier, M.2
Mika, F.3
Sharma, C.M.4
Vogel, J.5
-
137
-
-
33751383274
-
σe-dependent small RNAs of salmonella respond to membrane stress by accelerating global omp mRNA decay
-
Papenfort K, Pfeiffer V, Mika F, Lucchini S, Hinton JCD, Vogel J. 2006. σE-dependent small RNAs of salmonella respond to membrane stress by accelerating global omp mRNA decay. Mol. Microbiol. 62(6):1674-88
-
(2006)
Mol. Microbiol
, vol.62
, Issue.6
, pp. 1674-1688
-
-
Papenfort, K.1
Pfeiffer, V.2
Mika, F.3
Lucchini, S.4
Hinton, J.C.D.5
Vogel, J.6
-
138
-
-
70350176597
-
Specific and pleiotropic patterns ofmRNA regulation by ArcZ, a conserved,Hfq-dependent small RNA
-
Papenfort K, Said N, Welsink T, Lucchini S, Hinton JCD, Vogel J. 2009. Specific and pleiotropic patterns ofmRNA regulation by ArcZ, a conserved,Hfq-dependent small RNA. Mol. Microbiol. 74(1):139-58
-
(2009)
Mol. Microbiol
, vol.74
, Issue.1
, pp. 139-158
-
-
Papenfort, K.1
Said, N.2
Welsink, T.3
Lucchini, S.4
Hinton, J.C.D.5
Vogel, J.6
-
139
-
-
84876234571
-
Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis
-
Papenfort K, Sun Y, MiyakoshiM, Vanderpool CK, Vogel J. 2013. Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis. Cell 153(2):426-37
-
(2013)
Cell
, vol.153
, Issue.2
, pp. 426-437
-
-
Papenfort, K.1
Sun, Y.2
Miyakoshi, M.3
Vanderpool, C.K.4
Vogel, J.5
-
140
-
-
84915760848
-
Small RNA functions in carbon metabolism and virulence of enteric pathogens
-
Papenfort K, Vogel J. 2014. Small RNA functions in carbon metabolism and virulence of enteric pathogens. Front. Cell. Infect. Microbiol. 4:91
-
(2014)
Front. Cell. Infect. Microbiol
, vol.4
, pp. 91
-
-
Papenfort, K.1
Vogel, J.2
-
141
-
-
0035950154
-
Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18
-
Parkhill J, Dougan G, James KD, Thomson NR, Pickard D, et al. 2001. Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18. Nature 413(6858):848-52
-
(2001)
Nature
, vol.413
, Issue.6858
, pp. 848-852
-
-
Parkhill, J.1
Dougan, G.2
James, K.D.3
Thomson, N.R.4
Pickard, D.5
-
142
-
-
79952786136
-
Accessibility and evolutionary conservationmark bacterial small-RNA targetbinding regions
-
Peer A, Margalit H. 2011. Accessibility and evolutionary conservationmark bacterial small-RNA targetbinding regions. J. Bacteriol. 193(7):1690-701
-
(2011)
J. Bacteriol
, vol.193
, Issue.7
, pp. 1690-1701
-
-
Peer, A.1
Margalit, H.2
-
143
-
-
84902678434
-
Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions
-
Peer A, Margalit H. 2014. Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions. RNA 20(7):994-1003
-
(2014)
RNA
, vol.20
, Issue.7
, pp. 994-1003
-
-
Peer, A.1
Margalit, H.2
-
144
-
-
84914125314
-
Structural model of an mRNA in complex with the bacterial chaperone Hfq
-
Peng Y, Curtis JE, Fang X, Woodson SA. 2014. Structural model of an mRNA in complex with the bacterial chaperone Hfq. PNAS 111(48):17134-39
-
(2014)
PNAS
, vol.111
, Issue.48
, pp. 17134-17139
-
-
Peng, Y.1
Curtis, J.E.2
Fang, X.3
Woodson, S.A.4
-
145
-
-
84893387968
-
A variable homopolymeric G-repeat defines small RNA-mediated posttranscriptional regulation of a chemotaxis receptor in Helicobacter pylori
-
Pernitzsch SR, Tirier SM, Beier D, Sharma CM. 2014. A variable homopolymeric G-repeat defines small RNA-mediated posttranscriptional regulation of a chemotaxis receptor in Helicobacter pylori.PNAS 111(4):E501-10
-
(2014)
PNAS
, vol.111
, Issue.4
, pp. E501-E510
-
-
Pernitzsch, S.R.1
Tirier, S.M.2
Beier, D.3
Sharma, C.M.4
-
146
-
-
84925283037
-
Large-scale mapping of sequence-function relations in small regulatory RNAs reveals plasticity and modularity
-
Peterman N, Lavi-Itzkovitz A, Levine E. 2014. Large-scale mapping of sequence-function relations in small regulatory RNAs reveals plasticity and modularity. Nucleic Acids Res. 42(19):12177-88
-
(2014)
Nucleic Acids Res
, vol.42
, Issue.19
, pp. 12177-12188
-
-
Peterman, N.1
Lavi-Itzkovitz, A.2
Levine, E.3
-
147
-
-
79960395328
-
Bacterial transcription terminators: The RNA 3-end chronicles
-
Peters JM, Vangeloff AD, Landick R. 2011. Bacterial transcription terminators: the RNA 3-end chronicles. J. Mol. Biol. 412(5):793-813
-
(2011)
J. Mol. Biol
, vol.412
, Issue.5
, pp. 793-813
-
-
Peters, J.M.1
Vangeloff, A.D.2
Landick, R.3
-
148
-
-
36148969305
-
A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome
-
Pfeiffer V, Sittka A, Tomer R, Tedin K, Brinkmann V, Vogel J. 2007. A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome. Mol. Microbiol. 66(5):1174-91
-
(2007)
Mol. Microbiol
, vol.66
, Issue.5
, pp. 1174-1191
-
-
Pfeiffer, V.1
Sittka, A.2
Tomer, R.3
Tedin, K.4
Brinkmann, V.5
Vogel, J.6
-
149
-
-
84908075358
-
Epithelial il-22ra1-mediated fucosylation promotes intestinal colonization resistance to an opportunistic pathogen
-
Pham TAN, Clare S, Goulding D, Arasteh JM, Stares MD, et al. 2014. Epithelial il-22ra1-mediated fucosylation promotes intestinal colonization resistance to an opportunistic pathogen. Cell HostMicrobe 16(4):504-16
-
(2014)
Cell HostMicrobe
, vol.16
, Issue.4
, pp. 504-516
-
-
Pham, T.A.N.1
Clare, S.2
Goulding, D.3
Arasteh, J.M.4
Stares, M.D.5
-
150
-
-
84891123514
-
Emerging insights on intestinal dysbiosis during bacterial infections
-
Pham TAN, Lawley TD. 2014. Emerging insights on intestinal dysbiosis during bacterial infections. Curr. Opin. Microbiol. 17:67-74
-
(2014)
Curr. Opin. Microbiol
, vol.17
, pp. 67-74
-
-
Pham, T.A.N.1
Lawley, T.D.2
-
151
-
-
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. PNAS 102(40):14249-54
-
(2005)
PNAS
, vol.102
, Issue.40
, pp. 14249-14254
-
-
Pichon, C.1
Felden, B.2
-
152
-
-
84865591846
-
A tale of three next generation sequencing platforms: Comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers
-
Quail MA, Smith M, Coupland P, Otto TD, Harris SR, et al. 2012. A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers. BMC Genomics 13:341
-
(2012)
BMC Genomics
, vol.13
, pp. 341
-
-
Quail, M.A.1
Smith, M.2
Coupland, P.3
Otto, T.D.4
Harris, S.R.5
-
153
-
-
84942520038
-
A reference bacterial genome dataset generated on the MinIonTM portable single-molecule nanopore sequencer
-
Quick J, Quinlan AR, Loman NJ. 2014. A reference bacterial genome dataset generated on the MinIonTM portable single-molecule nanopore sequencer. GigaScience 3:22
-
(2014)
GigaScience
, vol.3
, pp. 22
-
-
Quick, J.1
Quinlan, A.R.2
Loman, N.J.3
-
154
-
-
84919952154
-
High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies
-
Rabani M, Raychowdhury R, Jovanovic M, Rooney M, Stumpo DJ, et al. 2014. High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies. Cell 159(7):1698-710
-
(2014)
Cell
, vol.159
, Issue.7
, pp. 1698-1710
-
-
Rabani, M.1
Raychowdhury, R.2
Jovanovic, M.3
Rooney, M.4
Stumpo, D.J.5
-
155
-
-
80052526246
-
Genome-wide detection of novel regulatory RNAs in e
-
Raghavan R, Groisman EA, Ochman H. 2011. Genome-wide detection of novel regulatory RNAs in E. coli. Genome Res. 21(9):1487-97
-
(2011)
Coli. Genome Res
, vol.21
, Issue.9
, pp. 1487-1497
-
-
Raghavan, R.1
Groisman, E.A.2
Ochman, H.3
-
156
-
-
28244471582
-
Regulation of OmpA mRNA stability: The role of a small regulatory RNA in growth phase-dependent control
-
Rasmussen AA, Eriksen M, Gilany K, Udesen C, Franch T, et al. 2005. Regulation of OmpA mRNA stability: the role of a small regulatory RNA in growth phase-dependent control. Mol. Microbiol. 58(5):1421-29
-
(2005)
Mol. Microbiol
, vol.58
, Issue.5
, pp. 1421-1429
-
-
Rasmussen, A.A.1
Eriksen, M.2
Gilany, K.3
Udesen, C.4
Franch, T.5
-
157
-
-
84880427394
-
A compendium of RNA-binding motifs for decoding gene regulation
-
RayD,Kazan H, Cook KB,WeirauchMT, Najafabadi HS, et al. 2013. A compendium of RNA-binding motifs for decoding gene regulation. Nature 499(7457):172-77
-
(2013)
Nature
, vol.499
, Issue.7457
, pp. 172-177
-
-
Ray, D.1
Kazan, H.2
Cook, K.B.3
Weirauch, M.T.4
Najafabadi, H.S.5
-
158
-
-
84865302975
-
Accessibility and conservation: General features of bacterial small RNA-mRNA interactions
-
Richter AS, Backofen R. 2012. Accessibility and conservation: general features of bacterial small RNA-mRNA interactions? RNA Biol. 9(7):954-65
-
(2012)
RNA Biol
, vol.9
, Issue.7
, pp. 954-965
-
-
Richter, A.S.1
Backofen, R.2
-
159
-
-
84874273543
-
The "observer effect" in genome-wide surveys of protein-RNA interactions
-
Riley KJ, Steitz JA. 2013. The "observer effect" in genome-wide surveys of protein-RNA interactions. Mol. Cell 49(4):601-4
-
(2013)
Mol. Cell
, vol.49
, Issue.4
, pp. 601-604
-
-
Riley, K.J.1
Steitz, J.A.2
-
160
-
-
0035806973
-
Computational identification of noncoding RNAs in e coli by comparative genomics
-
Rivas E, Klein RJ, Jones TA, Eddy SR. 2001. Computational identification of noncoding RNAs in E. coli by comparative genomics. Curr. Biol. 11(17):1369-73
-
(2001)
Curr. Biol
, vol.11
, Issue.17
, pp. 1369-1373
-
-
Rivas, E.1
Klein, R.J.2
Jones, T.A.3
Eddy, S.R.4
-
161
-
-
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(4):402-13
-
(2012)
RNA Biol
, vol.9
, Issue.4
, pp. 402-413
-
-
Romilly, C.1
Caldelari, I.2
Parmentier, D.3
Lioliou, E.4
Romby, P.5
Fechter, P.6
-
162
-
-
0018361839
-
A small, unstable RNA molecule of Escherichia coli: Spot 42 RNA: I nucleotide sequence analysis
-
Sahagan BG, Dahlberg JE. 1979. A small, unstable RNA molecule of Escherichia coli: spot 42 RNA: I. nucleotide sequence analysis. J. Mol. Biol. 131(3):573-92
-
(1979)
J. Mol. Biol
, vol.131
, Issue.3
, pp. 573-592
-
-
Sahagan, B.G.1
Dahlberg, J.E.2
-
163
-
-
84906228597
-
Single-cell RNA-seq: Advances and future challenges
-
Saliba A-E, Westermann AJ, Gorski SA, Vogel J. 2014. Single-cell RNA-seq: advances and future challenges. Nucleic Acids Res. 42(14):8845-60
-
(2014)
Nucleic Acids Res
, vol.42
, Issue.14
, pp. 8845-8860
-
-
Saliba, A.-E.1
Westermann, A.J.2
Gorski, S.A.3
Vogel, J.4
-
164
-
-
84857893016
-
GAGE: A critical evaluation of genome assemblies and assembly algorithms
-
Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, et al. 2012. GAGE: a critical evaluation of genome assemblies and assembly algorithms. Genome Res. 22(3):557-67
-
(2012)
Genome Res
, vol.22
, Issue.3
, pp. 557-567
-
-
Salzberg, S.L.1
Phillippy, A.M.2
Zimin, A.3
Puiu, D.4
Magoc, T.5
-
165
-
-
69349099557
-
Analysis of pools of targeted Salmonella deletion mutants identifies novel genes affecting fitness during competitive infection inmice
-
Santiviago CA, Reynolds MM, Porwollik S, Choi S-H, Long F, et al. 2009. Analysis of pools of targeted Salmonella deletion mutants identifies novel genes affecting fitness during competitive infection inmice. PLOS Pathog. 5(7):e1000477
-
(2009)
PLOS Pathog
, vol.5
, Issue.7
, pp. e1000477
-
-
Santiviago, C.A.1
Reynolds, M.M.2
Porwollik, S.3
Choi, S.-H.4
Long, F.5
-
166
-
-
0035674970
-
Animal models of Salmonella infections: Enteritis versus typhoid fever
-
Santos RL, Zhang S, Tsolis RM, Kingsley RA, Adams LG, Baumler AJ. 2001. Animal models of Salmonella infections: enteritis versus typhoid fever. Microbes Infect. 3(14-15):1335-44
-
(2001)
Microbes Infect
, vol.3
, Issue.14-15
, pp. 1335-1344
-
-
Santos, R.L.1
Zhang, S.2
Tsolis, R.M.3
Kingsley, R.A.4
Adams, L.G.5
Baumler, A.J.6
-
167
-
-
84905454831
-
The coding and noncoding architecture of the Caulobacter crescentus genome
-
Schrader JM, Zhou B, Li G-W, Lasker K, Childers WS, et al. 2014. The coding and noncoding architecture of the Caulobacter crescentus genome. PLOS Genet. 10(7):e1004463
-
(2014)
PLOS Genet
, vol.10
, Issue.7
, pp. e1004463
-
-
Schrader, J.M.1
Zhou, B.2
Li, G.-W.3
Lasker, K.4
Childers, W.S.5
-
168
-
-
35948970194
-
A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sites
-
Sharma CM, Darfeuille F, Plantinga TH, Vogel J. 2007. A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sites. Genes Dev. 21(21):2804-17
-
(2007)
Genes Dev
, vol.21
, Issue.21
, pp. 2804-2817
-
-
Sharma, C.M.1
Darfeuille, F.2
Plantinga, T.H.3
Vogel, J.4
-
169
-
-
77949425194
-
The primary transcriptome of the major human pathogen Helicobacter pylori
-
Sharma CM, Hoffmann S, Darfeuille F, Reignier J, Findeiss S, et al. 2010. The primary transcriptome of the major human pathogen Helicobacter pylori. Nature 464(7286):250-55
-
(2010)
Nature
, vol.464
, Issue.7286
, pp. 250-255
-
-
Sharma, C.M.1
Hoffmann, S.2
Darfeuille, F.3
Reignier, J.4
Findeiss, S.5
-
170
-
-
70349736084
-
Experimental approaches for the discovery and characterization of regulatory small RNA
-
Sharma CM, Vogel J. 2009. Experimental approaches for the discovery and characterization of regulatory small RNA. Curr. Opin. Microbiol. 12(5):536-46
-
(2009)
Curr. Opin. Microbiol
, vol.12
, Issue.5
, pp. 536-546
-
-
Sharma, C.M.1
Vogel, J.2
-
171
-
-
84904265834
-
Differential RNA-seq: The approach behind and the biological insight gained
-
Sharma CM, Vogel J. 2014. Differential RNA-seq: the approach behind and the biological insight gained. Curr. Opin. Microbiol. 19:97-105
-
(2014)
Curr. Opin. Microbiol
, vol.19
, pp. 97-105
-
-
Sharma, C.M.1
Vogel, J.2
-
172
-
-
84891697468
-
RNase-mediated protein footprint sequencing reveals protein-binding sites throughout the human transcriptome
-
Silverman IM, Li F, Alexander A, Goff L, Trapnell C, et al. 2014. RNase-mediated protein footprint sequencing reveals protein-binding sites throughout the human transcriptome. Genome Biol. 15(1):R3
-
(2014)
Genome Biol
, vol.15
, Issue.1
, pp. R3
-
-
Silverman, I.M.1
Li, F.2
Alexander, A.3
Goff, L.4
Trapnell, C.5
-
173
-
-
84892843450
-
Identification of regulatory RNA in bacterial genomes by genome-scale mapping of transcription start sites
-
Singh N, Wade JT. 2014. Identification of regulatory RNA in bacterial genomes by genome-scale mapping of transcription start sites. Methods Mol. Biol. 1103:1-10
-
(2014)
Methods Mol. Biol
, vol.1103
, pp. 1-10
-
-
Singh, N.1
Wade, J.T.2
-
174
-
-
50849105413
-
Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq
-
Sittka A, Lucchini S, Papenfort K, Sharma CM, Rolle K, et al. 2008. Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq. PLOS Genet. 4(8):e1000163
-
(2008)
PLOS Genet
, vol.4
, Issue.8
, pp. e1000163
-
-
Sittka, A.1
Lucchini, S.2
Papenfort, K.3
Sharma, C.M.4
Rolle, K.5
-
175
-
-
72849114230
-
Prokaryotic transcriptomics: A new view on regulation, physiology and pathogenicity
-
Sorek R, Cossart P. 2010. Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity. Nat. Rev. Genet. 11(1):9-16
-
(2010)
Nat. Rev. Genet
, vol.11
, Issue.1
, pp. 9-16
-
-
Sorek, R.1
Cossart, P.2
-
176
-
-
70349327918
-
Molecular insights into farm animal and zoonotic Salmonella infections
-
Stevens MP, Humphrey TJ, Maskell DJ. 2009. Molecular insights into farm animal and zoonotic Salmonella infections. Philos. Trans. R. Soc. Lond. B 364(1530):2709-23
-
(2009)
Philos. Trans. R. Soc. Lond. B
, vol.364
, Issue.1530
, pp. 2709-2723
-
-
Stevens, M.P.1
Humphrey, T.J.2
Maskell, D.J.3
-
177
-
-
84924974806
-
RNA reflections: Converging on Hfq
-
Storz G, Gottesman S. 2015. RNA reflections: converging on Hfq. RNA 21:511-512
-
(2015)
RNA
, vol.21
, pp. 511-512
-
-
Storz, G.1
Gottesman, S.2
-
178
-
-
84892388084
-
Genome-scale analyses of Escherichia coli and Salmonella enterica AraC reveal noncanonical targets and an expanded core regulon
-
Stringer AM, Currenti S, Bonocora RP, Baranowski C, Petrone BL, et al. 2014. Genome-scale analyses of Escherichia coli and Salmonella enterica AraC reveal noncanonical targets and an expanded core regulon. J. Bacteriol. 196(3):660-71
-
(2014)
J. Bacteriol
, vol.196
, Issue.3
, pp. 660-671
-
-
Stringer, A.M.1
Currenti, S.2
Bonocora, R.P.3
Baranowski, C.4
Petrone, B.L.5
-
179
-
-
84907960591
-
Carbapenem-resistant Enterobacteriaceae: Biology, epidemiology, and management
-
Temkin E, Adler A, Lerner A, Carmeli Y. 2014. Carbapenem-resistant Enterobacteriaceae: biology, epidemiology, and management. Ann. N. Y. Acad. Sci. 1323:22-42
-
(2014)
Ann. N. Y. Acad. Sci
, vol.1323
, pp. 22-42
-
-
Temkin, E.1
Adler, A.2
Lerner, A.3
Carmeli, Y.4
-
180
-
-
33744800020
-
Target prediction for small, noncoding RNAs in bacteria
-
Tjaden B, Goodwin SS, Opdyke JA, Guillier M, Fu DX, et al. 2006. Target prediction for small, noncoding RNAs in bacteria. Nucleic Acids Res. 34(9):2791-802
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.9
, pp. 2791-2802
-
-
Tjaden, B.1
Goodwin, S.S.2
Opdyke, J.A.3
Guillier, M.4
Fu, D.X.5
-
181
-
-
0036713509
-
Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays
-
Tjaden B, Saxena RM, Stolyar S, Haynor DR, Kolker E, Rosenow C. 2002. Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays. Nucleic Acids Res. 30(17):3732-38
-
(2002)
Nucleic Acids Res
, vol.30
, Issue.17
, pp. 3732-3738
-
-
Tjaden, B.1
Saxena, R.M.2
Stolyar, S.3
Haynor, D.R.4
Kolker, E.5
Rosenow, C.6
-
182
-
-
84869770569
-
Transcriptomic profiling of the oyster pathogen Vibrio splendidus opens a window on the evolutionary dynamics of the small RNA repertoire in the Vibrio genus
-
Toffano-Nioche C, Nguyen AN, Kuchly C, Ott A, Gautheret D, et al. 2012. Transcriptomic profiling of the oyster pathogen Vibrio splendidus opens a window on the evolutionary dynamics of the small RNA repertoire in the Vibrio genus. RNA 18(12):2201-19
-
(2012)
RNA
, vol.18
, Issue.12
, pp. 2201-2219
-
-
Toffano-Nioche, C.1
Nguyen, A.N.2
Kuchly, C.3
Ott, A.4
Gautheret, D.5
-
183
-
-
67649268395
-
The Listeria transcriptional landscape from saprophytism to virulence
-
Toledo-Arana A, Dussurget O, Nikitas G, Sesto N, Guet-Revillet H, et al. 2009. The Listeria transcriptional landscape from saprophytism to virulence. Nature 459(7249):950-56
-
(2009)
Nature
, vol.459
, Issue.7249
, pp. 950-956
-
-
Toledo-Arana, A.1
Dussurget, O.2
Nikitas, G.3
Sesto, N.4
Guet-Revillet, H.5
-
184
-
-
0019547284
-
Inhibition of colE1 RNA primer formation by a plasmidspecified small RNA
-
Tomizawa J, Itoh T, Selzer G, Som T. 1981. Inhibition of colE1 RNA primer formation by a plasmidspecified small RNA. PNAS 78(3):1421-25
-
(1981)
PNAS
, vol.78
, Issue.3
, pp. 1421-1425
-
-
Tomizawa, J.1
Itoh, T.2
Selzer, G.3
Som, T.4
-
185
-
-
84859885816
-
Differential gene and transcript expression analysis of RNA-seq experiments with Tophat and Cufflinks
-
Trapnell C, Roberts A,Goff L, PerteaG, Kim D, et al. 2012. Differential gene and transcript expression analysis of RNA-seq experiments with Tophat and Cufflinks. Nat. Protoc. 7(3):562-78
-
(2012)
Nat. Protoc
, vol.7
, Issue.3
, pp. 562-578
-
-
Trapnell, C.1
Roberts, A.2
Goff, L.3
Pertea, G.4
Kim, D.5
-
186
-
-
84904467798
-
Identification of bacteriophageencoded anti-sRNAs in pathogenic Escherichia coli
-
Tree JJ, Granneman S, McAteer SP, Tollervey D, Gally DL. 2014. Identification of bacteriophageencoded anti-sRNAs in pathogenic Escherichia coli. Mol. Cell 55(2):199-213
-
(2014)
Mol. Cell
, vol.55
, Issue.2
, pp. 199-213
-
-
Tree, J.J.1
Granneman, S.2
McAteer, S.P.3
Tollervey, D.4
Gally, D.L.5
-
187
-
-
79955593196
-
How to become a top model: Impact of animal experimentation on human Salmonella disease research
-
Tsolis RM, Xavier MN, Santos RL, Baumler AJ. 2011. How to become a top model: impact of animal experimentation on human Salmonella disease research. Infect. Immun. 79(5):1806-14
-
(2011)
Infect. Immun
, vol.79
, Issue.5
, pp. 1806-1814
-
-
Tsolis, R.M.1
Xavier, M.N.2
Santos, R.L.3
Baumler, A.J.4
-
188
-
-
25844458478
-
Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA
-
Udekwu KI, Darfeuille F, Vogel J, Reimegard J, Holmqvist E, Wagner EGH. 2005. Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA. Genes Dev. 19(19):2355-66
-
(2005)
Genes Dev
, vol.19
, Issue.19
, pp. 2355-2366
-
-
Udekwu, K.I.1
Darfeuille, F.2
Vogel, J.3
Reimegard, J.4
Holmqvist, E.5
Wagner, E.G.H.6
-
189
-
-
33847386673
-
Translational control and target recognition by Escherichia coli small RNAs in vivo
-
Urban JH, Vogel J. 2007. Translational control and target recognition by Escherichia coli small RNAs in vivo. Nucleic Acids Res. 35(3):1018-37
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.3
, pp. 1018-1037
-
-
Urban, J.H.1
Vogel, J.2
-
190
-
-
84881614224
-
Replenishing our defensive microbes
-
Ursell LK, Van Treuren W, Metcalf JL, Pirrung M, Gewirtz A, Knight R. 2013. Replenishing our defensive microbes. BioEssays 35(9):810-17
-
(2013)
BioEssays
, vol.35
, Issue.9
, pp. 810-817
-
-
Ursell, L.K.1
Van Treuren, W.2
Metcalf, J.L.3
Pirrung, M.4
Gewirtz, A.5
Knight, R.6
-
191
-
-
70349611730
-
Tn-seq: High-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms
-
Van Opijnen T, Bodi KL, Camilli A. 2009. Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms. Nat. Methods 6(10):767-72
-
(2009)
Nat. Methods
, vol.6
, Issue.10
, pp. 767-772
-
-
Van Opijnen, T.1
Bodi, K.L.2
Camilli, A.3
-
192
-
-
84870479250
-
A fine scale phenotype-genotype virulence map of a bacterial pathogen
-
Van OpijnenT,Camilli A. 2012.A fine scale phenotype-genotype virulence map of a bacterial pathogen. Genome Res. 22(12):2541-51
-
(2012)
Genome Res
, vol.22
, Issue.12
, pp. 2541-2551
-
-
Van Opijnen, T.1
Camilli, A.2
-
193
-
-
84879413726
-
Transposon insertion sequencing: A new tool for systems-level analysis of microorganisms
-
Van OpijnenT,Camilli A. 2013. Transposon insertion sequencing: a new tool for systems-level analysis of microorganisms. Nat. Rev. Microbiol. 11(7):435-42
-
(2013)
Nat. Rev. Microbiol
, vol.11
, Issue.7
, pp. 435-442
-
-
Van Opijnen, T.1
Camilli, A.2
-
194
-
-
0344237410
-
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria
-
Vogel J, Bartels V, Tang TH, Churakov G, Slagter-Jager JG, et al. 2003. RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res. 31(22):6435-43
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.22
, pp. 6435-6443
-
-
Vogel, J.1
Bartels, V.2
Tang, T.H.3
Churakov, G.4
Slagter-Jager, J.G.5
-
195
-
-
79960433506
-
Hfq and its constellation of RNA
-
Vogel J, Luisi BF. 2011. Hfq and its constellation of RNA. Nat. Rev. Microbiol. 9(8):578-89
-
(2011)
Nat. Rev. Microbiol
, vol.9
, Issue.8
, pp. 578-589
-
-
Vogel, J.1
Luisi, B.F.2
-
196
-
-
29044443534
-
How to find small non-coding RNAs in bacteria
-
Vogel J, Sharma CM. 2005. How to find small non-coding RNAs in bacteria. Biol. Chem. 386(12):1219-38
-
(2005)
Biol. Chem
, vol.386
, Issue.12
, pp. 1219-1238
-
-
Vogel, J.1
Sharma, C.M.2
-
197
-
-
84921664995
-
Comparative transcriptomics of two environmentally relevant cyanobacteria reveals unexpected transcriptome diversity
-
Voigt K, Sharma CM, Mitschke J, Lambrecht SJ, Voß B, et al. 2014. Comparative transcriptomics of two environmentally relevant cyanobacteria reveals unexpected transcriptome diversity. ISME J. 8(10):2056-68
-
(2014)
ISME J
, vol.8
, Issue.10
, pp. 2056-2068
-
-
Voigt, K.1
Sharma, C.M.2
Mitschke, J.3
Lambrecht, S.J.4
Voß, B.5
-
198
-
-
84906316682
-
Pervasive transcription: Illuminating the dark matter of bacterial transcriptomes
-
Wade JT, Grainger DC. 2014. Pervasive transcription: illuminating the dark matter of bacterial transcriptomes. Nat. Rev. Microbiol. 12(9):647-53
-
(2014)
Nat. Rev. Microbiol
, vol.12
, Issue.9
, pp. 647-653
-
-
Wade, J.T.1
Grainger, D.C.2
-
199
-
-
56549101959
-
Alternative isoform regulation in human tissue transcriptomes
-
Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, et al. 2008. Alternative isoform regulation in human tissue transcriptomes. Nature 456(7221):470-76
-
(2008)
Nature
, vol.456
, Issue.7221
, pp. 470-476
-
-
Wang, E.T.1
Sandberg, R.2
Luo, S.3
Khrebtukova, I.4
Zhang, L.5
-
200
-
-
0035395606
-
Identification of novel small RNAs using comparative genomics and microarrays
-
Wassarman KM, Repoila F, Rosenow C, Storz G, Gottesman S. 2001. Identification of novel small RNAs using comparative genomics and microarrays. Genes Dev. 15(13):1637-51
-
(2001)
Genes Dev
, vol.15
, Issue.13
, pp. 1637-1651
-
-
Wassarman, K.M.1
Repoila, F.2
Rosenow, C.3
Storz, G.4
Gottesman, S.5
-
201
-
-
0034625237
-
6S RNA regulates e coli RNA polymerase activity
-
Wassarman KM, Storz G. 2000. 6S RNA regulates E. coli RNA polymerase activity. Cell 101(6):613-23
-
(2000)
Cell
, vol.101
, Issue.6
, pp. 613-623
-
-
Wassarman, K.M.1
Storz, G.2
-
203
-
-
84883772639
-
Comparative genomics boosts target prediction for bacterial small RNAs
-
Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, et al. 2013. Comparative genomics boosts target prediction for bacterial small RNAs. PNAS 110(37):E3487-96
-
(2013)
PNAS
, vol.110
, Issue.37
, pp. E3487-E3496
-
-
Wright, P.R.1
Richter, A.S.2
Papenfort, K.3
Mann, M.4
Vogel, J.5
-
204
-
-
74949137952
-
A single-base resolution map of an archaeal transcriptome
-
Wurtzel O, Sapra R, Chen F, Zhu Y, Simmons BA, Sorek R. 2010. A single-base resolution map of an archaeal transcriptome. Genome Res. 20(1):133-41
-
(2010)
Genome Res
, vol.20
, Issue.1
, pp. 133-141
-
-
Wurtzel, O.1
Sapra, R.2
Chen, F.3
Zhu, Y.4
Simmons, B.A.5
Sorek, R.6
-
205
-
-
0032531904
-
The OxyS regulatory RNA represses RpoS translation and binds the Hfq (hf-i) protein
-
Zhang A, Altuvia S, Tiwari A, Argaman L, Hengge-Aronis R, Storz G. 1998. The OxyS regulatory RNA represses RpoS translation and binds the Hfq (hf-i) protein. EMBO J. 17(20):6061-68
-
(1998)
EMBO J
, vol.17
, Issue.20
, pp. 6061-6068
-
-
Zhang, A.1
Altuvia, S.2
Tiwari, A.3
Argaman, L.4
Hengge-Aronis, R.5
Storz, G.6
-
206
-
-
0141644746
-
Global analysis of small RNA and mRNA targets of Hfq
-
Zhang A, Wassarman KM, Rosenow C, Tjaden BC, Storz G, Gottesman S. 2003. Global analysis of small RNA and mRNA targets of Hfq. Mol. Microbiol. 50(4):1111-24
-
(2003)
Mol. Microbiol
, vol.50
, Issue.4
, pp. 1111-1124
-
-
Zhang, A.1
Wassarman, K.M.2
Rosenow, C.3
Tjaden, B.C.4
Storz, G.5
Gottesman, S.6
|