-
2
-
-
0023235875
-
Gonococcal pilin variants in experimental gonorrhea
-
Swanson, J., Robbins, K., Barrera, O., Corwin, D., Boslego, J., Ciak, J., Blake, M. and Koomey, J.M. (1987) Gonococcal pilin variants in experimental gonorrhea. J. Exp. Med., 165, 1344-1357.
-
(1987)
J. Exp. Med.
, vol.165
, pp. 1344-1357
-
-
Swanson, J.1
Robbins, K.2
Barrera, O.3
Corwin, D.4
Boslego, J.5
Ciak, J.6
Blake, M.7
Koomey, J.M.8
-
3
-
-
0037327558
-
Small' talk: Opa proteins as mediators of Neisseria-host-cell communication
-
Hauck, C.R. and Meyer, T.F. (2003) 'Small' talk: Opa proteins as mediators of Neisseria-host-cell communication. Curr. Opin. Microbiol., 6, 43-49.
-
(2003)
Curr. Opin. Microbiol.
, vol.6
, pp. 43-49
-
-
Hauck, C.R.1
Meyer, T.F.2
-
4
-
-
0242288482
-
Neisserial Opa proteins: Impact on colonization, dissemination and immunity
-
Gray-Owen, S.D. (2003) Neisserial Opa proteins: impact on colonization, dissemination and immunity. Scand. J. Infect. Dis., 35, 614-618.
-
(2003)
Scand. J. Infect. Dis.
, vol.35
, pp. 614-618
-
-
Gray-Owen, S.D.1
-
5
-
-
0000858720
-
Identification and arrangement of the DNA sequence recognized in specific transformation of Neisseria gonorrhoeae
-
Goodman, S.D. and Scocca, J.J. (1988) Identification and arrangement of the DNA sequence recognized in specific transformation of Neisseria gonorrhoeae. Proc. Natl. Acad. Sci. U.S.A., 85, 6982-6986.
-
(1988)
Proc. Natl. Acad. Sci. U.S.A.
, vol.85
, pp. 6982-6986
-
-
Goodman, S.D.1
Scocca, J.J.2
-
6
-
-
0032514693
-
Natural genetic exchange between Haemophilus and Neisseria: Intergeneric transfer of chromosomal genes between major human pathogens
-
Kroll, J.S., Wilks, K.E., Farrant, J.L. and Langford, P.R. (1998) Natural genetic exchange between Haemophilus and Neisseria: intergeneric transfer of chromosomal genes between major human pathogens. Proc. Natl. Acad. Sci. U.S.A., 95, 12381-12385.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A.
, vol.95
, pp. 12381-12385
-
-
Kroll, J.S.1
Wilks, K.E.2
Farrant, J.L.3
Langford, P.R.4
-
7
-
-
0033382706
-
DNA uptake signal sequences in naturally transformable bacteria
-
Smith, H.O., Gwinn, M.L. and Salzberg, S.L. (1999) DNA uptake signal sequences in naturally transformable bacteria. Res. Microbiol., 150, 603-616.
-
(1999)
Res. Microbiol.
, vol.150
, pp. 603-616
-
-
Smith, H.O.1
Gwinn, M.L.2
Salzberg, S.L.3
-
8
-
-
77955560230
-
Virulence determinants involved in differential host niche adaptation of Neisseria meningitidis and Neisseria gonorrhoeae
-
Schielke, S., Frosch, M. and Kurzai, O. (2010) Virulence determinants involved in differential host niche adaptation of Neisseria meningitidis and Neisseria gonorrhoeae. Med. Microbiol. Immunol., 199, 185-196.
-
(2010)
Med. Microbiol. Immunol.
, vol.199
, pp. 185-196
-
-
Schielke, S.1
Frosch, M.2
Kurzai, O.3
-
9
-
-
73849136751
-
Transcriptional and functional analysis of the Neisseria gonorrhoeae fur regulon
-
Jackson, L.A., Ducey, T.F., Day, M.W., Zaitshik, J.B., Orvis, J. and Dyer, D.W. (2010) Transcriptional and functional analysis of the Neisseria gonorrhoeae Fur regulon. J. Bacteriol., 192, 77-85.
-
(2010)
J. Bacteriol.
, vol.192
, pp. 77-85
-
-
Jackson, L.A.1
Ducey, T.F.2
Day, M.W.3
Zaitshik, J.B.4
Orvis, J.5
Dyer, D.W.6
-
10
-
-
0032900379
-
Cis-and trans-acting elements involved in regulation of aniA, the gene encoding the major anaerobically induced outer membrane protein in Neisseria gonorrhoeae
-
Householder, T.C., Belli, W.A., Lissenden, S., Cole, J.A. and Clark, V.L. (1999) cis-and trans-acting elements involved in regulation of aniA, the gene encoding the major anaerobically induced outer membrane protein in Neisseria gonorrhoeae. J. Bacteriol., 181, 541-551.
-
(1999)
J. Bacteriol.
, vol.181
, pp. 541-551
-
-
Householder, T.C.1
Belli, W.A.2
Lissenden, S.3
Cole, J.A.4
Clark, V.L.5
-
11
-
-
33845924731
-
Coordinated regulation of the Neisseria gonorrhoeae-truncated denitrification pathway by the nitric oxide-sensitive repressor, NsrR, and nitrite-insensitive NarQ-NarP
-
Overton, T.W., Whitehead, R., Li, Y., Snyder, L.A., Saunders, N.J., Smith, H. and Cole, J.A. (2006) Coordinated regulation of the Neisseria gonorrhoeae-truncated denitrification pathway by the nitric oxide-sensitive repressor, NsrR, and nitrite-insensitive NarQ-NarP. J. Biol. Chem., 281, 33115-33126.
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 33115-33126
-
-
Overton, T.W.1
Whitehead, R.2
Li, Y.3
Snyder, L.A.4
Saunders, N.J.5
Smith, H.6
Cole, J.A.7
-
12
-
-
0030924935
-
Regf, an sspa homologue, regulates the expression of the neisseria gonorrhoeae pile gene
-
De Reuse, H. and Taha, M.K. (1997) RegF, an SspA homologue, regulates the expression of the Neisseria gonorrhoeae pilE gene. Res. Microbiol., 148, 289-303.
-
(1997)
Res. Microbiol.
, vol.148
, pp. 289-303
-
-
De Reuse, H.1
Taha, M.K.2
-
13
-
-
25144450560
-
Nmlr of neisseria gonorrhoeae: A novel redox responsive transcription factor from the merr family
-
Kidd, S.P., Potter, A.J., Apicella, M.A., Jennings, M.P. and McEwan, A.G. (2005) NmlR of Neisseria gonorrhoeae: a novel redox responsive transcription factor from the MerR family. Mol. Microbiol., 57, 1676-1689.
-
(2005)
Mol. Microbiol.
, vol.57
, pp. 1676-1689
-
-
Kidd, S.P.1
Potter, A.J.2
Apicella, M.A.3
Jennings, M.P.4
McEwan, A.G.5
-
14
-
-
33845706489
-
Characterization of the oxyr regulon of neisseria gonorrhoeae
-
Seib, K.L., Wu, H.J., Srikhanta, Y.N., Edwards, J.L., Falsetta, M.L., Hamilton, A.J., Maguire, T.L., Grimmond, S.M., Apicella, M.A., McEwan, A.G. et al. (2007) Characterization of the OxyR regulon of Neisseria gonorrhoeae. Mol. Microbiol., 63, 54-68.
-
(2007)
Mol. Microbiol.
, vol.63
, pp. 54-68
-
-
Seib, K.L.1
Wu, H.J.2
Srikhanta, Y.N.3
Edwards, J.L.4
Falsetta, M.L.5
Hamilton, A.J.6
Maguire, T.L.7
Grimmond, S.M.8
Apicella, M.A.9
McEwan, A.G.10
-
15
-
-
0037223059
-
OxyR acts as a repressor of catalase expression in Neisseria gonorrhoeae
-
Tseng, H.J., McEwan, A.G., Apicella, M.A. and Jennings, M.P. (2003) OxyR acts as a repressor of catalase expression in Neisseria gonorrhoeae. Infection Immunity, 71, 550-556.
-
(2003)
Infection Immunity
, vol.71
, pp. 550-556
-
-
Tseng, H.J.1
McEwan, A.G.2
Apicella, M.A.3
Jennings, M.P.4
-
16
-
-
0036047508
-
Regulation of inducible peroxide stress responses
-
Mongkolsuk, S. and Helmann, J.D. (2002) Regulation of inducible peroxide stress responses. Mol. Microbiol., 45, 9-15.
-
(2002)
Mol. Microbiol.
, vol.45
, pp. 9-15
-
-
Mongkolsuk, S.1
Helmann, J.D.2
-
17
-
-
33645301312
-
PerR controls Mn-dependent resistance to oxidative stress in Neisseria gonorrhoeae
-
Wu, H.J., Seib, K.L., Srikhanta, Y.N., Kidd, S.P., Edwards, J.L., Maguire, T.L., Grimmond, S.M., Apicella, M.A., McEwan, A.G. and Jennings, M.P. (2006) PerR controls Mn-dependent resistance to oxidative stress in Neisseria gonorrhoeae. Mol. Microbiol., 60, 401-416.
-
(2006)
Mol. Microbiol.
, vol.60
, pp. 401-416
-
-
Wu, H.J.1
Seib, K.L.2
Srikhanta, Y.N.3
Kidd, S.P.4
Edwards, J.L.5
Maguire, T.L.6
Grimmond, S.M.7
Apicella, M.A.8
McEwan, A.G.9
Jennings, M.P.10
-
18
-
-
0029078189
-
Transcriptional control of the mtr efflux system of Neisseria gonorrhoeae
-
Hagman, K.E. and Shafer, W.M. (1995) Transcriptional control of the mtr efflux system of Neisseria gonorrhoeae. J. Bacteriol., 177, 4162-4165.
-
(1995)
J. Bacteriol.
, vol.177
, pp. 4162-4165
-
-
Hagman, K.E.1
Shafer, W.M.2
-
19
-
-
34347372857
-
Differential regulation of ponA and pilMNOPQ expression by the MtrR transcriptional regulatory protein in Neisseria gonorrhoeae
-
Folster, J.P., Dhulipala, V., Nicholas, R.A. and Shafer, W.M. (2007) Differential regulation of ponA and pilMNOPQ expression by the MtrR transcriptional regulatory protein in Neisseria gonorrhoeae. J. Bacteriol., 189, 4569-4577.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 4569-4577
-
-
Folster, J.P.1
Dhulipala, V.2
Nicholas, R.A.3
Shafer, W.M.4
-
20
-
-
0032782869
-
The farAB-encoded efflux pump mediates resistance of gonococci to long-chained antibacterial fatty acids
-
Lee, E.H. and Shafer, W.M. (1999) The farAB-encoded efflux pump mediates resistance of gonococci to long-chained antibacterial fatty acids. Mol. Microbiol., 33, 839-845.
-
(1999)
Mol. Microbiol.
, vol.33
, pp. 839-845
-
-
Lee, E.H.1
Shafer, W.M.2
-
21
-
-
23344445688
-
Global gene expression and the role of sigma factors in Neisseria gonorrhoeae in interactions with epithelial cells
-
Du, Y., Lenz, J. and Arvidson, C.G. (2005) Global gene expression and the role of sigma factors in Neisseria gonorrhoeae in interactions with epithelial cells. Infection Immunity, 73, 4834-4845.
-
(2005)
Infection Immunity
, vol.73
, pp. 4834-4845
-
-
Du, Y.1
Lenz, J.2
Arvidson, C.G.3
-
22
-
-
0027816961
-
Transcriptional control of gonococcal pilE expression: Involvement of an alternate sigma factor
-
Boyle-Vavra, S., So, M. and Seifert, H.S. (1993) Transcriptional control of gonococcal pilE expression: involvement of an alternate sigma factor. Gene, 137, 233-236.
-
(1993)
Gene
, vol.137
, pp. 233-236
-
-
Boyle-Vavra, S.1
So, M.2
Seifert, H.S.3
-
23
-
-
0027395411
-
Control of gonococcal pilin-encoding gene expression in Escherichia coli
-
Fyfe, J.A., Strugnell, R.A. and Davies, J.K. (1993) Control of gonococcal pilin-encoding gene expression in Escherichia coli. Gene, 123, 45-50.
-
(1993)
Gene
, vol.123
, pp. 45-50
-
-
Fyfe, J.A.1
Strugnell, R.A.2
Davies, J.K.3
-
24
-
-
0030613727
-
The normally silent sigma54 promoters upstream of the pilE genes of both Neisseria gonorrhoeae and Neisseria meningitidis are functional when transferred to Pseudomonas aeruginosa
-
Carrick, C.S., Fyfe, J.A. and Davies, J.K. (1997) The normally silent sigma54 promoters upstream of the pilE genes of both Neisseria gonorrhoeae and Neisseria meningitidis are functional when transferred to Pseudomonas aeruginosa. Gene, 198, 89-97.
-
(1997)
Gene
, vol.198
, pp. 89-97
-
-
Carrick, C.S.1
Fyfe, J.A.2
Davies, J.K.3
-
25
-
-
0029029993
-
Core RNA polymerase and promoter DNA interactions of purified domains of sigma N: Bipartite functions
-
Cannon, W., Missailidis, S., Smith, C., Cottier, A., Austin, S., Moore, M. and Buck, M. (1995) Core RNA polymerase and promoter DNA interactions of purified domains of sigma N: bipartite functions. J. Mol. Biol., 248, 781-803.
-
(1995)
J. Mol. Biol.
, vol.248
, pp. 781-803
-
-
Cannon, W.1
Missailidis, S.2
Smith, C.3
Cottier, A.4
Austin, S.5
Moore, M.6
Buck, M.7
-
26
-
-
0032536405
-
The pathogenic neisseriae contain an inactive rpoN gene and do not utilize the pilE sigma54 promoter
-
Laskos, L., Dillard, J.P., Seifert, H.S., Fyfe, J.A. and Davies, J.K. (1998) The pathogenic neisseriae contain an inactive rpoN gene and do not utilize the pilE sigma54 promoter. Gene, 208, 95-102.
-
(1998)
Gene
, vol.208
, pp. 95-102
-
-
Laskos, L.1
Dillard, J.P.2
Seifert, H.S.3
Fyfe, J.A.4
Davies, J.K.5
-
27
-
-
29244469944
-
The C-terminal RpoN domain of sigma54 forms an unpredicted helix-turn-helix motif similar to domains of sigma70
-
Doucleff, M., Malak, L.T., Pelton, J.G. and Wemmer, D.E. (2005) The C-terminal RpoN domain of sigma54 forms an unpredicted helix-turn-helix motif similar to domains of sigma70. J. Biol. Chem., 280, 41530-41536.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 41530-41536
-
-
Doucleff, M.1
Malak, L.T.2
Pelton, J.G.3
Wemmer, D.E.4
-
28
-
-
33646593149
-
Ecf, an alternative sigma factor from neisseria gonorrhoeae, controls expression of msrab, which encodes methionine sulfoxide reductase
-
Gunesekere, I.C., Kahler, C.M., Ryan, C.S., Snyder, L.A., Saunders, N.J., Rood, J.I. and Davies, J.K. (2006) Ecf, an alternative sigma factor from Neisseria gonorrhoeae, controls expression of msrAB, which encodes methionine sulfoxide reductase. J. Bacteriol., 188, 3463-3469.
-
(2006)
J. Bacteriol.
, vol.188
, pp. 3463-3469
-
-
Gunesekere, I.C.1
Kahler, C.M.2
Ryan, C.S.3
Snyder, L.A.4
Saunders, N.J.5
Rood, J.I.6
Davies, J.K.7
-
29
-
-
34248359838
-
A novel fur-and iron-regulated small RNA, NrrF, is required for indirect fur-mediated regulation of the sdhA and sdhC genes in Neisseria meningitidis
-
Mellin, J.R., Goswami, S., Grogan, S., Tjaden, B. and Genco, C.A. (2007) A novel fur-and iron-regulated small RNA, NrrF, is required for indirect fur-mediated regulation of the sdhA and sdhC genes in Neisseria meningitidis. J. Bacteriol., 189, 3686-3694.
-
(2007)
J. Bacteriol.
, vol.189
, pp. 3686-3694
-
-
Mellin, J.R.1
Goswami, S.2
Grogan, S.3
Tjaden, B.4
Genco, C.A.5
-
30
-
-
60649096656
-
Transcript analysis of nrrF, a fur repressed sRNA of Neisseria gonorrhoeae
-
Ducey, T.F., Jackson, L., Orvis, J. and Dyer, D.W. (2009) Transcript analysis of nrrF, a Fur repressed sRNA of Neisseria gonorrhoeae. Microbial Pathogen., 46, 166-170.
-
(2009)
Microbial Pathogen.
, vol.46
, pp. 166-170
-
-
Ducey, T.F.1
Jackson, L.2
Orvis, J.3
Dyer, D.W.4
-
31
-
-
60849096649
-
The Hfq-dependent small noncoding RNA NrrF directly mediates Fur-dependent positive regulation of succinate dehydrogenase in Neisseria meningitidis
-
Metruccio, M.M., Fantappie, L., Serruto, D., Muzzi, A., Roncarati, D., Donati, C., Scarlato, V. and Delany, I. (2009) The Hfq-dependent small noncoding RNA NrrF directly mediates Fur-dependent positive regulation of succinate dehydrogenase in Neisseria meningitidis. J. Bacteriol., 191, 1330-1342.
-
(2009)
J. Bacteriol.
, vol.191
, pp. 1330-1342
-
-
Metruccio, M.M.1
Fantappie, L.2
Serruto, D.3
Muzzi, A.4
Roncarati, D.5
Donati, C.6
Scarlato, V.7
Delany, I.8
-
32
-
-
83455168918
-
Deep sequencing whole transcriptome exploration of the sigmae regulon in neisseria meningitidis
-
Huis in 'tVeld, R, Willemsen, A.M., van Kampen, A.H., Bradley, E.J., Baas, F., Pannekoek, Y. and van der Ende, A. (2011) Deep sequencing whole transcriptome exploration of the sigmaE regulon in Neisseria meningitidis. PloS ONE, 6, e29002.
-
(2011)
PloS ONE
, vol.6
, pp. e29002
-
-
Huisin 'tveld, R.1
Willemsen, A.M.2
Van Kampen, A.H.3
Bradley, E.J.4
Baas, F.5
Pannekoek, Y.6
Van Der Ende, A.7
-
33
-
-
79953904528
-
A novel Hfq-dependent sRNA that is under FNR control and is synthesized in oxygen limitation in Neisseria meningitidis
-
Fantappie, L., Oriente, F., Muzzi, A., Serruto, D., Scarlato, V. and Delany, I. (2011) A novel Hfq-dependent sRNA that is under FNR control and is synthesized in oxygen limitation in Neisseria meningitidis. Mol. Microbiol., 80, 507-523.
-
(2011)
Mol. Microbiol.
, vol.80
, pp. 507-523
-
-
Fantappie, L.1
Oriente, F.2
Muzzi, A.3
Serruto, D.4
Scarlato, V.5
Delany, I.6
-
34
-
-
78651538760
-
Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae
-
Isabella, V.M. and Clark, V.L. (2011) Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae. BMC Genom., 12, 51.
-
(2011)
BMC Genom.
, vol.12
, pp. 51
-
-
Isabella, V.M.1
Clark, V.L.2
-
35
-
-
84874028128
-
Transcription of a cis-acting, noncoding, small RNA is required for pilin antigenic variation in Neisseria gonorrhoeae
-
Cahoon, L.A. and Seifert, H.S. (2013) Transcription of a cis-acting, noncoding, small RNA is required for pilin antigenic variation in Neisseria gonorrhoeae. PLoS Pathog., 9, e1003074.
-
(2013)
PLoS Pathog.
, vol.9
, pp. e1003074
-
-
Cahoon, L.A.1
Seifert, H.S.2
-
36
-
-
84878509885
-
Pilus phase variation switches gonococcal adherence to invasion by caveolin-1-dependent host cell signaling
-
Faulstich, M., Bottcher, J.P., Meyer, T.F., Fraunholz, M. and Rudel, T. (2013) Pilus phase variation switches gonococcal adherence to invasion by caveolin-1-dependent host cell signaling. PLoS Pathog., 9, e1003373.
-
(2013)
PLoS Pathog.
, vol.9
, pp. e1003373
-
-
Faulstich, M.1
Bottcher, J.P.2
Meyer, T.F.3
Fraunholz, M.4
Rudel, T.5
-
37
-
-
0014335662
-
Neisseria gonorrhoeae. II. Colonial variation and pathogenicity during 35 months in vitro
-
Kellogg, D.S. Jr, Cohen, I.R., Norins, L.C., Schroeter, A.L. and Reising, G. (1968) Neisseria gonorrhoeae. II. Colonial variation and pathogenicity during 35 months in vitro. J. Bacteriol., 96, 596-605.
-
(1968)
J. Bacteriol.
, vol.96
, pp. 596-605
-
-
Kellogg, D.S.1
Cohen, I.R.2
Norins, L.C.3
Schroeter, A.L.4
Reising, G.5
-
38
-
-
33751548288
-
Diversity of microRNAs in human and chimpanzee brain
-
Berezikov, E., Thuemmler, F., van Laake, L.W., Kondova, I., Bontrop, R., Cuppen, E. and Plasterk, R.H. (2006) Diversity of microRNAs in human and chimpanzee brain. Nat. Genet., 38, 1375-1377.
-
(2006)
Nat. Genet.
, vol.38
, pp. 1375-1377
-
-
Berezikov, E.1
Thuemmler, F.2
Van Laake, L.W.3
Kondova, I.4
Bontrop, R.5
Cuppen, E.6
Plasterk, R.H.7
-
39
-
-
77949425194
-
The primary transcriptome of the major human pathogen Helicobacter pylori
-
Sharma, C.M., Hoffmann, S., Darfeuille, F., Reignier, J., Findeiss, S., Sittka, A., Chabas, S., Reiche, K., Hackermuller, J., Reinhardt, R. et al. (2010) The primary transcriptome of the major human pathogen Helicobacter pylori. Nature, 464, 250-255.
-
(2010)
Nature
, vol.464
, pp. 250-255
-
-
Sharma, C.M.1
Hoffmann, S.2
Darfeuille, F.3
Reignier, J.4
Findeiss, S.5
Sittka, A.6
Chabas, S.7
Reiche, K.8
Hackermuller, J.9
Reinhardt, R.10
-
40
-
-
80255127234
-
Cutadapt removes adapter sequences from high-throughput sequencing reads
-
Martin, M. (2011) Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet. J., 17, 10-12.
-
(2011)
EMBnet. J.
, vol.17
, pp. 10-12
-
-
Martin, M.1
-
41
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
Langmead, B. and Salzberg, S.L. (2012) Fast gapped-read alignment with Bowtie 2. Nat. Methods, 9, 357-359.
-
(2012)
Nat. Methods
, vol.9
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
42
-
-
70349739736
-
The Integrated Genome Browser: Free software for distribution and exploration of genome-scale datasets
-
Nicol, J.W., Helt, G.A., Blanchard, S.G. Jr, Raja, A. and Loraine, A.E. (2009) The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. Bioinformatics, 25, 2730-2731.
-
(2009)
Bioinformatics
, vol.25
, pp. 2730-2731
-
-
Nicol, J.W.1
Helt, G.A.2
Blanchard, S.G.3
Raja, A.4
Loraine, A.E.5
-
43
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by RNA-Seq
-
Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L. and Wold, B. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat. Methods, 5, 621-628.
-
(2008)
Nat. Methods
, vol.5
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
44
-
-
84874266637
-
Rfam 11.0: 10 years of RNA families
-
Burge, S.W., Daub, J., Eberhardt, R., Tate, J., Barquist, L., Nawrocki, E.P., Eddy, S.R., Gardner, P.P. and 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
-
45
-
-
84890037468
-
Infernal 1.1: 100-fold faster RNA homology searches
-
Nawrocki, E.P. and Eddy, S.R. (2013) Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics, 29, 2933-2935.
-
(2013)
Bioinformatics
, vol.29
, pp. 2933-2935
-
-
Nawrocki, E.P.1
Eddy, S.R.2
-
46
-
-
0028685490
-
Fitting a mixture model by expectation maximization to discover motifs in biopolymers
-
Bailey, T.L. and Elkan, C. (1994) Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proc. Int. Conf. Intell. Syst. Mol. Biol., 2, 28-36.
-
(1994)
Proc. Int. Conf. Intell. Syst. Mol. Biol.
, vol.2
, pp. 28-36
-
-
Bailey, T.L.1
Elkan, C.2
-
48
-
-
0019797407
-
Evolutionary trees from DNA sequences: A maximum likelihood approach
-
Felsenstein, J. (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol., 17, 368-376.
-
(1981)
J. Mol. Evol.
, vol.17
, pp. 368-376
-
-
Felsenstein, J.1
-
49
-
-
36448991500
-
Clustal w and clustal x version 2.0
-
Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R. et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics, 23, 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
-
50
-
-
0043123208
-
ESPript/ENDscript: Extracting and rendering sequence and 3D information from atomic structures of proteins
-
Gouet, P., Robert, X. and Courcelle, E. (2003) ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins. Nucleic Acids Res., 31, 3320-3323.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3320-3323
-
-
Gouet, P.1
Robert, X.2
Courcelle, E.3
-
51
-
-
2142738304
-
WebLogo: A sequence logo generator
-
Crooks, G.E., Hon, G., Chandonia, J.M. and Brenner, S.E. (2004) WebLogo: a sequence logo generator. Genome Res., 14, 1188-1190.
-
(2004)
Genome Res.
, vol.14
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.M.3
Brenner, S.E.4
-
52
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D.J. (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
-
53
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini, Y. and Hochberg, Y. (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc., 57, 289-300.
-
(1995)
J. R. Stat. Soc.
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
54
-
-
80052606131
-
WebMGA: A customizable web server for fast metagenomic sequence analysis
-
Wu, S., Zhu, Z., Fu, L., Niu, B. and Li, W. (2011) WebMGA: a customizable web server for fast metagenomic sequence analysis. BMC Genom., 12, 444.
-
(2011)
BMC Genom.
, vol.12
, pp. 444
-
-
Wu, S.1
Zhu, Z.2
Fu, L.3
Niu, B.4
Li, W.5
-
55
-
-
0002386913
-
On the interpretation of χ2 from contingency tables, and the calculation of P
-
Fisher, R.A. (1922) On the interpretation of χ2 from contingency tables, and the calculation of P. J. R. Stat. Soc., 85, 87-94.
-
(1922)
J. R. Stat. Soc.
, vol.85
, pp. 87-94
-
-
Fisher, R.A.1
-
56
-
-
70349510646
-
Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung
-
Gawronski, J.D., Wong, S.M., Giannoukos, G., Ward, D.V. and Akerley, B.J. (2009) Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung. Proc. Natl. Acad. Sci. U.S.A., 106, 16422-16427.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 16422-16427
-
-
Gawronski, J.D.1
Wong, S.M.2
Giannoukos, G.3
Ward, D.V.4
Akerley, B.J.5
-
57
-
-
68849123336
-
Comprehensive identification of essential staphylococcus aureus genes using transposon-mediated differential hybridisation (TMDH)
-
Chaudhuri, R.R., Allen, A.G., Owen, P.J., Shalom, G., Stone, K., Harrison, M., Burgis, T.A., Lockyer, M., Garcia-Lara, J., Foster, S.J. et al. (2009) Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH). BMC Genom., 10, 291.
-
(2009)
BMC Genom.
, vol.10
, pp. 291
-
-
Chaudhuri, R.R.1
Allen, A.G.2
Owen, P.J.3
Shalom, G.4
Stone, K.5
Harrison, M.6
Burgis, T.A.7
Lockyer, M.8
Garcia-Lara, J.9
Foster, S.J.10
-
58
-
-
0034730128
-
Genetic footprinting with mariner-based transposition in Pseudomonas aeruginosa
-
Wong, S.M. and Mekalanos, J.J. (2000) Genetic footprinting with mariner-based transposition in Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. U.S.A., 97, 10191-10196.
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, pp. 10191-10196
-
-
Wong, S.M.1
Mekalanos, J.J.2
-
59
-
-
0032555218
-
Systematic identification of essential genes by in vitro mariner mutagenesis
-
Akerley, B.J., Rubin, E.J., Camilli, A., Lampe, D.J., Robertson, H.M. and Mekalanos, J.J. (1998) Systematic identification of essential genes by in vitro mariner mutagenesis. Proc. Natl. Acad. Sci. U.S.A., 95, 8927-8932.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A.
, vol.95
, pp. 8927-8932
-
-
Akerley, B.J.1
Rubin, E.J.2
Camilli, A.3
Lampe, D.J.4
Robertson, H.M.5
Mekalanos, J.J.6
-
60
-
-
0029865459
-
Construction of Hermes shuttle vectors: A versatile system useful for genetic complementation of transformable and non-transformable Neisseria mutants
-
Kupsch, E.M., Aubel, D., Gibbs, C.P., Kahrs, A.F., Rudel, T. and Meyer, T.F. (1996) Construction of Hermes shuttle vectors: a versatile system useful for genetic complementation of transformable and non-transformable Neisseria mutants. Mol. General Genet., 250, 558-569.
-
(1996)
Mol. General Genet.
, vol.250
, pp. 558-569
-
-
Kupsch, E.M.1
Aubel, D.2
Gibbs, C.P.3
Kahrs, A.F.4
Rudel, T.5
Meyer, T.F.6
-
61
-
-
0025773014
-
Species-specific uptake of DNA by gonococci is mediated by a 10-base-pair sequence
-
Elkins, C., Thomas, C.E., Seifert, H.S. and Sparling, P.F. (1991) Species-specific uptake of DNA by gonococci is mediated by a 10-base-pair sequence. J. Bacteriol., 173, 3911-3913.
-
(1991)
J. Bacteriol.
, vol.173
, pp. 3911-3913
-
-
Elkins, C.1
Thomas, C.E.2
Seifert, H.S.3
Sparling, P.F.4
-
62
-
-
34250725542
-
Identification of bacterial small non-coding RNAs: Experimental approaches
-
Altuvia, S. (2007) Identification of bacterial small non-coding RNAs: experimental approaches. Curr. Opin. Microbiol., 10, 257-261.
-
(2007)
Curr. Opin. Microbiol.
, vol.10
, pp. 257-261
-
-
Altuvia, S.1
-
63
-
-
0037112006
-
Stealth regulation: Biological circuits with small RNA switches
-
Gottesman, S. (2002) Stealth regulation: biological circuits with small RNA switches. Genes Dev., 16, 2829-2842.
-
(2002)
Genes Dev.
, vol.16
, pp. 2829-2842
-
-
Gottesman, S.1
-
64
-
-
29044443534
-
How to find small non-coding RNAs in bacteria
-
Vogel, J. and Sharma, C.M. (2005) How to find small non-coding RNAs in bacteria. Biol. Chem., 386, 1219-1238.
-
(2005)
Biol. Chem.
, vol.386
, pp. 1219-1238
-
-
Vogel, J.1
Sharma, C.M.2
-
65
-
-
34547121453
-
Characterization of the dsDNA prophage sequences in the genome of Neisseria gonorrhoeae and visualization of productive bacteriophage
-
Piekarowicz, A., Klyz, A., Majchrzak, M., Adamczyk-Poplawska, M., Maugel, T.K. and Stein, D.C. (2007) Characterization of the dsDNA prophage sequences in the genome of Neisseria gonorrhoeae and visualization of productive bacteriophage. BMC Microbiol., 7, 66.
-
(2007)
BMC Microbiol.
, vol.7
, pp. 66
-
-
Piekarowicz, A.1
Klyz, A.2
Majchrzak, M.3
Adamczyk-Poplawska, M.4
Maugel, T.K.5
Stein, D.C.6
-
66
-
-
0037206833
-
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression
-
Winkler, W., Nahvi, A. and Breaker, R.R. (2002) Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature, 419, 952-956.
-
(2002)
Nature
, vol.419
, pp. 952-956
-
-
Winkler, W.1
Nahvi, A.2
Breaker, R.R.3
-
67
-
-
5044234799
-
A glycine-dependent riboswitch that uses cooperative binding to control gene expression
-
Mandal, M., Lee, M., Barrick, J.E., Weinberg, Z., Emilsson, G.M., Ruzzo, W.L. and Breaker, R.R. (2004) A glycine-dependent riboswitch that uses cooperative binding to control gene expression. Science, 306, 275-279.
-
(2004)
Science
, vol.306
, pp. 275-279
-
-
Mandal, M.1
Lee, M.2
Barrick, J.E.3
Weinberg, Z.4
Emilsson, G.M.5
Ruzzo, W.L.6
Breaker, R.R.7
-
68
-
-
34247181095
-
A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain
-
Roth, A., Winkler, W.C., Regulski, E.E., Lee, B.W., Lim, J., Jona, I., Barrick, J.E., Ritwik, A., Kim, J.N., Welz, R. et al. (2007) A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain. Nat. Struct. Mol. Biol., 14, 308-317.
-
(2007)
Nat. Struct. Mol. Biol.
, vol.14
, pp. 308-317
-
-
Roth, A.1
Winkler, W.C.2
Regulski, E.E.3
Lee, B.W.4
Lim, J.5
Jona, I.6
Barrick, J.E.7
Ritwik, A.8
Kim, J.N.9
Welz, R.10
-
70
-
-
10044259785
-
The RpoH-mediated stress response in Neisseria gonorrhoeae is regulated at the level of activity
-
Laskos, L., Ryan, C.S., Fyfe, J.A. and Davies, J.K. (2004) The RpoH-mediated stress response in Neisseria gonorrhoeae is regulated at the level of activity. J. Bacteriol., 186, 8443-8452.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 8443-8452
-
-
Laskos, L.1
Ryan, C.S.2
Fyfe, J.A.3
Davies, J.K.4
-
71
-
-
80052415909
-
The essential genome of a bacterium
-
Christen, B., Abeliuk, E., Collier, J.M., Kalogeraki, V.S., Passarelli, B., Coller, J.A., Fero, M.J., McAdams, H.H. and Shapiro, L. (2011) The essential genome of a bacterium. Mol. Syst. Biol., 7, 528.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 528
-
-
Christen, B.1
Abeliuk, E.2
Collier, J.M.3
Kalogeraki, V.S.4
Passarelli, B.5
Coller, J.A.6
Fero, M.J.7
McAdams, H.H.8
Shapiro, L.9
-
72
-
-
0344942599
-
The Omp85 protein of Neisseria meningitidis is required for lipid export to the outer membrane
-
Genevrois, S., Steeghs, L., Roholl, P., Letesson, J.J. and van der Ley, P. (2003) The Omp85 protein of Neisseria meningitidis is required for lipid export to the outer membrane. EMBO J., 22, 1780-1789.
-
(2003)
EMBO J
, vol.22
, pp. 1780-1789
-
-
Genevrois, S.1
Steeghs, L.2
Roholl, P.3
Letesson, J.J.4
Van Der Ley, P.5
-
73
-
-
0343313105
-
Genetics of protein i of Neisseria gonorrhoeae: Construction of hybrid porins
-
Carbonetti, N.H., Simnad, V.I., Seifert, H.S., So, M. and Sparling, P.F. (1988) Genetics of protein I of Neisseria gonorrhoeae: construction of hybrid porins. Proc. Natl. Acad. Sci. U.S.A., 85, 6841-6845.
-
(1988)
Proc. Natl. Acad. Sci. U.S.A.
, vol.85
, pp. 6841-6845
-
-
Carbonetti, N.H.1
Simnad, V.I.2
Seifert, H.S.3
So, M.4
Sparling, P.F.5
-
74
-
-
34250709662
-
Target identification of small noncoding RNAs in bacteria
-
Vogel, J. and Wagner, E.G. (2007) Target identification of small noncoding RNAs in bacteria. Curr. Opin. Microbiol., 10, 262-270.
-
(2007)
Curr. Opin. Microbiol.
, vol.10
, pp. 262-270
-
-
Vogel, J.1
Wagner, E.G.2
-
75
-
-
1642565815
-
The bacterial Sm-like protein Hfq: A key player in RNA transactions
-
Valentin-Hansen, P., Eriksen, M. and Udesen, C. (2004) The bacterial Sm-like protein Hfq: a key player in RNA transactions. Mol. Microbiol., 51, 1525-1533.
-
(2004)
Mol. Microbiol.
, vol.51
, pp. 1525-1533
-
-
Valentin-Hansen, P.1
Eriksen, M.2
Udesen, C.3
-
76
-
-
70349241915
-
The effect of hfq on global gene expression and virulence in Neisseria gonorrhoeae
-
Dietrich, M., Munke, R., Gottschald, M., Ziska, E., Boettcher, J.P., Mollenkopf, H. and Friedrich, A. (2009) The effect of hfq on global gene expression and virulence in Neisseria gonorrhoeae. FEBS J., 276, 5507-5520.
-
(2009)
FEBS J
, vol.276
, pp. 5507-5520
-
-
Dietrich, M.1
Munke, R.2
Gottschald, M.3
Ziska, E.4
Boettcher, J.P.5
Mollenkopf, H.6
Friedrich, A.7
-
77
-
-
0022974221
-
Opacity genes in Neisseria gonorrhoeae: Control of phase and antigenic variation
-
Stern, A., Brown, M., Nickel, P. and Meyer, T.F. (1986) Opacity genes in Neisseria gonorrhoeae: control of phase and antigenic variation. Cell, 47, 61-71.
-
(1986)
Cell
, vol.47
, pp. 61-71
-
-
Stern, A.1
Brown, M.2
Nickel, P.3
Meyer, T.F.4
-
78
-
-
0030614607
-
Promoter strength influences phase variation of neisserial opa genes
-
Belland, R.J., Morrison, S.G., Carlson, J.H. and Hogan, D.M. (1997) Promoter strength influences phase variation of neisserial opa genes. Mol. Microbiol., 23, 123-135.
-
(1997)
Mol. Microbiol.
, vol.23
, pp. 123-135
-
-
Belland, R.J.1
Morrison, S.G.2
Carlson, J.H.3
Hogan, D.M.4
-
79
-
-
39149110856
-
RASTA-Bacteria: A web-based tool for identifying toxin-antitoxin loci in prokaryotes
-
Sevin, E.W. and Barloy-Hubler, F. (2007) RASTA-Bacteria: a web-based tool for identifying toxin-antitoxin loci in prokaryotes. Genome Biol., 8, R155.
-
(2007)
Genome Biol.
, vol.8
, pp. R155
-
-
Sevin, E.W.1
Barloy-Hubler, F.2
-
80
-
-
0032930533
-
Mutagenesis of the Neisseria gonorrhoeae porin reduces invasion in epithelial cells and enhances phagocyte responsiveness
-
Bauer, F.J., Rudel, T., Stein, M. and Meyer, T.F. (1999) Mutagenesis of the Neisseria gonorrhoeae porin reduces invasion in epithelial cells and enhances phagocyte responsiveness. Mol. Microbiol., 31, 903-913.
-
(1999)
Mol. Microbiol.
, vol.31
, pp. 903-913
-
-
Bauer, F.J.1
Rudel, T.2
Stein, M.3
Meyer, T.F.4
|