-
1
-
-
54549105804
-
S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum
-
Andre G, Even S, Putzer H, Burguiere P, Croux C, Danchin A, Martin-Verstraete I, Soutourina O (2008) S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum. Nucleic Acids Res 36: 5955-5969
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 5955-5969
-
-
Andre, G.1
Even, S.2
Putzer, H.3
Burguiere, P.4
Croux, C.5
Danchin, A.6
Martin-Verstraete, I.7
Soutourina, O.8
-
2
-
-
29044436786
-
Identification of cyanobacterial non-coding RNAs by comparative genome analysis
-
Axmann IM, Kensche P, Vogel J, Kohl S, Herzel H, Hess WR (2005) Identification of cyanobacterial non-coding RNAs by comparative genome analysis. Genome Biol 6: R73
-
(2005)
Genome Biol
, vol.6
-
-
Axmann, I.M.1
Kensche, P.2
Vogel, J.3
Kohl, S.4
Herzel, H.5
Hess, W.R.6
-
3
-
-
0019887182
-
The secondary structure of the protein L1 binding region of ribosomal 23S RNA. Homologies with putative secondary structures of the L11 mRNA and of a region of mitochondrial 16S rRNA
-
Branlant C, Krol A, Machatt A, Ebel JP (1981) The secondary structure of the protein L1 binding region of ribosomal 23S RNA. Homologies with putative secondary structures of the L11 mRNA and of a region of mitochondrial 16S rRNA. Nucleic Acids Res 9: 293-307
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 293-307
-
-
Branlant, C.1
Krol, A.2
MacHatt, A.3
Ebel, J.P.4
-
4
-
-
4444376317
-
Over 20% of human transcripts might form sense-antisense pairs
-
Chen JJ, Sun M, Kent WJ, Huang XQ, Xie HQ, Wang WQ, Zhou GL, Shi RZ, Rowley JD (2004) Over 20% of human transcripts might form sense-antisense pairs. Nucleic Acids Res 32: 4812-4820
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 4812-4820
-
-
Chen, J.J.1
Sun, M.2
Kent, W.J.3
Huang, X.Q.4
Xie, H.Q.5
Wang, W.Q.6
Zhou, G.L.7
Shi, R.Z.8
Rowley, J.D.9
-
5
-
-
0022515666
-
Translational regulation is responsible for growth-rate dependent and stringent control of the synthesis of ribosomal proteins L11 and L1 in Escherichia coli
-
Cole JR, Nomura M (1986) Translational regulation is responsible for growth-rate dependent and stringent control of the synthesis of ribosomal proteins L11 and L1 in Escherichia coli. Proc Natl Acad Sci USA 83: 4129-4133
-
(1986)
Proc Natl Acad Sci USA
, vol.83
, pp. 4129-4133
-
-
Cole, J.R.1
Nomura, M.2
-
6
-
-
0023555634
-
Transcriptional analysis of the cyanobacterial gvpABC operon in differentiated cells: Occurrence of an antisense RNA complementary to three overlapping transcripts
-
Csiszar K, Houmard J, Damerval T, Tandeau de Marsac N (1987) Transcriptional analysis of the cyanobacterial gvpABC operon in differentiated cells: occurrence of an antisense RNA complementary to three overlapping transcripts. Gene 60: 29-37
-
(1987)
Gene
, vol.60
, pp. 29-37
-
-
Csiszar, K.1
Houmard, J.2
Damerval, T.3
Tandeau De Marsac, N.4
-
7
-
-
34247567492
-
An antisense RNA inhibits translation by competing with standby ribosomes
-
Darfeuille F, Unoson C, Vogel J, Wagner EG (2007) An antisense RNA inhibits translation by competing with standby ribosomes. Mol Cell 26: 381-392
-
(2007)
Mol Cell
, vol.26
, pp. 381-392
-
-
Darfeuille, F.1
Unoson, C.2
Vogel, J.3
Wagner, E.G.4
-
8
-
-
33645785104
-
A high-resolution map of transcription in the yeast genome
-
David L, Huber W, Granovskaia M, Toedling J, Palm CJ, Bofkin L, Jones T, Davis RW, Steinmetz LM (2006) A high-resolution map of transcription in the yeast genome. Proc Natl Acad Sci USA 103: 5320-5325
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 5320-5325
-
-
David, L.1
Huber, W.2
Granovskaia, M.3
Toedling, J.4
Palm, C.J.5
Bofkin, L.6
Jones, T.7
Davis, R.W.8
Steinmetz, L.M.9
-
9
-
-
55549101288
-
The RNA chaperone Hfq is essential for cell motility of the cyanobacterium Synechocystis PCC 6803
-
Dienst D, Dühring U, Mollenkopf H, Vogel J, Golecki J, Hess WR, Wilde A (2008) The RNA chaperone Hfq is essential for cell motility of the cyanobacterium Synechocystis PCC 6803. Microbiology 154: 3134-3143
-
(2008)
Microbiology
, vol.154
, pp. 3134-3143
-
-
Dienst, D.1
Dühring, U.2
Mollenkopf, H.3
Vogel, J.4
Golecki, J.5
Hess, W.R.6
Wilde, A.7
-
10
-
-
33646471951
-
An internal antisense RNA regulates expression of the photosynthesis gene isiA
-
Duehring U, Axmann IM, Hess WR, Wilde A (2006) An internal antisense RNA regulates expression of the photosynthesis gene isiA. Proc Natl Acad Sci USA 103: 7054-7058
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 7054-7058
-
-
Duehring, U.1
Axmann, I.M.2
Hess, W.R.3
Wilde, A.4
-
11
-
-
63449136664
-
Extracytoplasmic function sigma factors regulate expression of the Bacillus subtilis yabE gene via a cis-acting antisense RNA
-
Eiamphungporn W, Helmann JD (2009) Extracytoplasmic function sigma factors regulate expression of the Bacillus subtilis yabE gene via a cis-acting antisense RNA. J Bacteriol 191: 1101-1105
-
(2009)
J Bacteriol
, vol.191
, pp. 1101-1105
-
-
Eiamphungporn, W.1
Helmann, J.D.2
-
12
-
-
55349129970
-
Repression of small toxic protein synthesis by the Sib and OhsC small RNAs
-
Fozo EM, Kawano M, Fontaine F, Kaya Y, Mendieta KS, Jones KL, Ocampo A, Rudd KE, Storz G (2008) Repression of small toxic protein synthesis by the Sib and OhsC small RNAs. Mol Microbiol 70: 1076-1093
-
(2008)
Mol Microbiol
, vol.70
, pp. 1076-1093
-
-
Fozo, E.M.1
Kawano, M.2
Fontaine, F.3
Kaya, Y.4
Mendieta, K.S.5
Jones, K.L.6
Ocampo, A.7
Rudd, K.E.8
Storz, G.9
-
13
-
-
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: 303-328
-
(2004)
Annu Rev Microbiol
, vol.58
, pp. 303-328
-
-
Gottesman, S.1
-
14
-
-
70349443431
-
-
Microbiology, epub ahead of print
-
Hedger J, Holmquist PC, Leigh KA, Saraff K, Pomykal C, Summers ML (2009) Illumination stimulates cAMP receptor protein-dependent transcriptional activation from regulatory regions containing class I and class II promoter elements in Synechocystis sp. PCC 6803. Microbiology, epub ahead of print
-
(2009)
Illumination Stimulates CAMP Receptor Protein-dependent Transcriptional Activation from Regulatory Regions Containing Class i and Class Ii Promoter Elements in Synechocystis Sp. PCC 6803
-
-
Hedger, J.1
Holmquist, P.C.2
Leigh, K.A.3
Saraff, K.4
Pomykal, C.5
Summers, M.L.6
-
15
-
-
28944440488
-
Identification of a furA cis antisense RNA in the cyanobacterium Anabaena sp. PCC 7120
-
Hernandez JA, Muro-Pastor AM, Flores E, Bes MT, Peleato ML, Fillat MF (2005) Identification of a furA cis antisense RNA in the cyanobacterium Anabaena sp. PCC 7120. J Mol Biol 355: 325-334
-
(2005)
J Mol Biol
, vol.355
, pp. 325-334
-
-
Hernandez, J.A.1
Muro-Pastor, A.M.2
Flores, E.3
Bes, M.T.4
Peleato, M.L.5
Fillat, M.F.6
-
16
-
-
2942582577
-
Genome analysis of marine photosynthetic microbes and their global role
-
Hess WR (2004) Genome analysis of marine photosynthetic microbes and their global role. Curr Opin Biotechnol 15: 191-198
-
(2004)
Curr Opin Biotechnol
, vol.15
, pp. 191-198
-
-
Hess, W.R.1
-
17
-
-
0035037364
-
DNA microarray analysis of cyanobacterial gene expression during acclimation to high light
-
Hihara Y, Kamei A, Kanehisa M, Kaplan A, Ikeuchi M (2001) DNA microarray analysis of cyanobacterial gene expression during acclimation to high light. Plant Cell 13: 793-806
-
(2001)
Plant Cell
, vol.13
, pp. 793-806
-
-
Hihara, Y.1
Kamei, A.2
Kanehisa, M.3
Kaplan, A.4
Ikeuchi, M.5
-
18
-
-
33747856481
-
Transcript mapping with high-density oligonucleotide tiling arrays
-
Huber W, Toedling J, Steinmetz LM (2006) Transcript mapping with high-density oligonucleotide tiling arrays. Bioinformatics 22: 1963-1970
-
(2006)
Bioinformatics
, vol.22
, pp. 1963-1970
-
-
Huber, W.1
Toedling, J.2
Steinmetz, L.M.3
-
19
-
-
24644488895
-
Natural antisense transcripts with coding capacity in Arabidopsis may have a regulatory role that is not linked to double-stranded RNA degradation
-
Jen CH, Michalopoulos I, Westhead DR, Meyer P (2005) Natural antisense transcripts with coding capacity in Arabidopsis may have a regulatory role that is not linked to double-stranded RNA degradation. Genome Biol 6: R51
-
(2005)
Genome Biol
, vol.6
-
-
Jen, C.H.1
Michalopoulos, I.2
Westhead, D.R.3
Meyer, P.4
-
20
-
-
24644472515
-
Antisense transcription in the mammalian transcriptome
-
Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, Suzuki H, Carninci P, Hayashizaki Y, Wells C, Frith M, Ravasi T, Pang KC, Hallinan J, Mattick J, Hume DA et al (2005) Antisense transcription in the mammalian transcriptome. Science 309: 1564-1566
-
(2005)
Science
, vol.309
, pp. 1564-1566
-
-
Katayama, S.1
Tomaru, Y.2
Kasukawa, T.3
Waki, K.4
Nakanishi, M.5
Nakamura, M.6
Nishida, H.7
Yap, C.C.8
Suzuki, M.9
Kawai, J.10
Suzuki, H.11
Carninci, P.12
Hayashizaki, Y.13
Wells, C.14
Frith, M.15
Ravasi, T.16
Pang, K.C.17
Hallinan, J.18
Mattick, J.19
Al Et20
H.Da21
more..
-
21
-
-
34247489752
-
An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxin
-
Kawano M, Aravind L, Storz G (2007) An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxin. Mol Microbiol 64: 738-754
-
(2007)
Mol Microbiol
, vol.64
, pp. 738-754
-
-
Kawano, M.1
Aravind, L.2
Storz, G.3
-
22
-
-
14244257879
-
Detection of 50- and 30-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli
-
Kawano M, Reynolds AA, Miranda-Rios J, Storz G (2005) Detection of 50- and 30-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli. Nucleic Acids Res 33: 1040-1050
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 1040-1050
-
-
Kawano, M.1
Reynolds, A.A.2
Miranda-Rios, J.3
Storz, G.4
-
23
-
-
0037673656
-
Antisense transcripts with FANTOM2 clone set and their implications for gene regulation
-
Kiyosawa H, Yamanaka I, Osato N, Kondo S, Hayashizaki Y (2003) Antisense transcripts with FANTOM2 clone set and their implications for gene regulation. Genome Res 13: 1324-1334
-
(2003)
Genome Res
, vol.13
, pp. 1324-1334
-
-
Kiyosawa, H.1
Yamanaka, I.2
Osato, N.3
Kondo, S.4
Hayashizaki, Y.5
-
24
-
-
41749103319
-
Small non-coding RNAs in Caulobacter crescentus
-
Landt SG, Abeliuk E, McGrath PT, Lesley JA, McAdams HH, Shapiro L (2008) Small non-coding RNAs in Caulobacter crescentus. Mol Microbiol 68: 600-614
-
(2008)
Mol Microbiol
, vol.68
, pp. 600-614
-
-
Landt, S.G.1
Abeliuk, E.2
McGrath, P.T.3
Lesley, J.A.4
McAdams, H.H.5
Shapiro, L.6
-
25
-
-
0035444240
-
Prediction of rho-independent transcriptional terminators in Escherichia coli
-
Lesnik EA, Sampath R, Levene HB, Henderson TJ, McNeil JA, Ecker DJ (2001) Prediction of rho-independent transcriptional terminators in Escherichia coli. Nucleic Acids Res 29: 3583-3594
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 3583-3594
-
-
Lesnik, E.A.1
Sampath, R.2
Levene, H.B.3
Henderson, T.J.4
McNeil, J.A.5
Ecker, D.J.6
-
26
-
-
34548668642
-
Quantitative characteristics of gene regulation by small RNA
-
Levine E, Zhang Z, Kuhlman T, Hwa T (2007) Quantitative characteristics of gene regulation by small RNA. PLOS Biol 5: e229
-
(2007)
PLOS Biol
, vol.5
-
-
Levine, E.1
Zhang, Z.2
Kuhlman, T.3
Hwa, T.4
-
27
-
-
0023035207
-
Ribosomal genes in Escherichia coli
-
Lindahl L, Zengel JM (1986) Ribosomal genes in Escherichia coli. Annu Rev Genet 20: 297-326
-
(1986)
Annu Rev Genet
, vol.20
, pp. 297-326
-
-
Lindahl, L.1
Zengel, J.M.2
-
28
-
-
0025069965
-
Autogenous control is not sufficient to ensure steady-state growth rate-dependent regulation of the S10 ribosomal protein operon of Escherichia coli.
-
Lindahl L, Zengel JM (1990) Autogenous control is not sufficient to ensure steady-state growth rate-dependent regulation of the S10 ribosomal protein operon of Escherichia coli. J Bacteriol 172: 305-309
-
(1990)
J Bacteriol
, vol.172
, pp. 305-309
-
-
Lindahl, L.1
Zengel, J.M.2
-
29
-
-
64549149245
-
Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing
-
Liu JM, Livny J, Lawrence MS, Kimball MD, Waldor MK, Camilli A (2009) Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing. Nucleic Acids Res 37: e46
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Liu, J.M.1
Livny, J.2
Lawrence, M.S.3
Kimball, M.D.4
Waldor, M.K.5
Camilli, A.6
-
30
-
-
0032531768
-
Ribonuclease e is a 50-end-dependent endonuclease
-
Mackie GA (1998) Ribonuclease E is a 50-end-dependent endonuclease. Nature 395: 720-723
-
(1998)
Nature
, vol.395
, pp. 720-723
-
-
MacKie, G.A.1
-
31
-
-
0028847889
-
Characterization of the murF gene of the cyanobacterium Synechocystis sp PCC 6803
-
Malakhov MP, Los DA, Wada H, Semenenko VE, Murata N (1995) Characterization of the murF gene of the cyanobacterium Synechocystis sp. PCC 6803. Microbiology 141: 163-169
-
(1995)
Microbiology
, vol.141
, pp. 163-169
-
-
Malakhov, M.P.1
Los, D.A.2
Wada, H.3
Semenenko, V.E.4
Murata, N.5
-
32
-
-
2442626706
-
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure
-
Mathews DH, Disney MD, Childs JL, Schroeder SJ, Zuker M, Turner DH (2004) Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure. Proc Natl Acad Sci USA 101: 7287-7292
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 7287-7292
-
-
Mathews, D.H.1
Disney, M.D.2
Childs, J.L.3
Schroeder, S.J.4
Zuker, M.5
Turner, D.H.6
-
33
-
-
54049118804
-
A quantitative comparison of sRNA-based and protein-based gene regulation
-
Mehta P, Goyal S, Wingreen NS (2008) A quantitative comparison of sRNA-based and protein-based gene regulation. Mol Sys Biol 4: 221
-
(2008)
Mol Sys Biol
, vol.4
, pp. 221
-
-
Mehta, P.1
Goyal, S.2
Wingreen, N.S.3
-
34
-
-
34548758619
-
A cyanobacterial non-coding RNA, Yfr1, is required for growth under multiple stress conditions
-
Nakamura T, Naito K, Yokota N, Sugita C, Sugita M (2007) A cyanobacterial non-coding RNA, Yfr1, is required for growth under multiple stress conditions. Plant Cell Physiol 48: 1309-1318
-
(2007)
Plant Cell Physiol
, vol.48
, pp. 1309-1318
-
-
Nakamura, T.1
Naito, K.2
Yokota, N.3
Sugita, C.4
Sugita, M.5
-
35
-
-
0142104045
-
Analysis of the mouse transcriptome based on functional annotation of 60,770 full length cDNAs
-
Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, Kondo S, Nikaido I, Osato N, Saito R, Suzuki H et al. (2002) Analysis of the mouse transcriptome based on functional annotation of 60,770 full length cDNAs. Nature 420: 563-573
-
(2002)
Nature
, vol.420
, pp. 563-573
-
-
Okazaki, Y.1
Furuno, M.2
Kasukawa, T.3
Adachi, J.4
Bono, H.5
Kondo, S.6
Nikaido, I.7
Osato, N.8
Saito, R.9
-
36
-
-
14244266086
-
Toxin-antitoxin loci are highly abundant in free-living but lost from host-associated prokaryotes
-
Pandey DP, Gerdes K (2005) Toxin-antitoxin loci are highly abundant in free-living but lost from host-associated prokaryotes. Nucleic Acids Res 33: 966-976
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 966-976
-
-
Pandey, D.P.1
Gerdes, K.2
-
37
-
-
36148972085
-
Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D
-
Perocchi F, Xu Z, Clauder-Muenster S, Steinmetz LM (2007) Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. Nucleic Acids Res 35: e128
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Perocchi, F.1
Xu, Z.2
Clauder-Muenster, S.3
Steinmetz, L.M.4
-
38
-
-
0037173089
-
Transcriptional collision between convergent genes in budding yeast
-
Prescott EM, Proudfoot NJ (2002) Transcriptional collision between convergent genes in budding yeast. Proc Natl Acad Sci USA 99: 8796-8801
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 8796-8801
-
-
Prescott, E.M.1
Proudfoot, N.J.2
-
39
-
-
33750799914
-
The highly conserved LepA is a ribosomal elongation factor that back-translocates the ribosome
-
Qin Y, Polacek N, Vesper O, Staub E, Einfeldt E, Wilson DN, Nierhaus KH (2006) The highly conserved LepA is a ribosomal elongation factor that back-translocates the ribosome. Cell 127: 721-733
-
(2006)
Cell
, vol.127
, pp. 721-733
-
-
Qin, Y.1
Polacek, N.2
Vesper, O.3
Staub, E.4
Einfeldt, E.5
Wilson, D.N.6
Nierhaus, K.H.7
-
40
-
-
0018409915
-
Generic assignments, strain histories and properties of pure cultures of cyanobacteria
-
Rippka R, Deruelles J, Waterbury JB, Herdmann M, Stanier RY (1979) Generic assignments, strain histories and properties of pure cultures of cyanobacteria. J Gen Microbiol 111: 1-61
-
(1979)
J Gen Microbiol
, vol.111
, pp. 1-61
-
-
Rippka, R.1
Deruelles, J.2
Waterbury, J.B.3
Herdmann, M.4
Stanier, R.Y.5
-
41
-
-
0042878464
-
Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation
-
Rocap G, Larimer FW, Lamerdin J, Malfatti S, Chain P, Ahlgren NA, Arellano A, Coleman M, Hauser L, Hess WR, Johnson ZI, Land M, Lindell D, Post AF, Regala W, Shah M, Shaw SL, Steglich C, Sullivan MB, Ting CS et al (2003) Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424: 1042-1047
-
(2003)
Nature
, vol.424
, pp. 1042-1047
-
-
Rocap, G.1
Larimer, F.W.2
Lamerdin, J.3
Malfatti, S.4
Chain, P.5
Ahlgren, N.A.6
Arellano, A.7
Coleman, M.8
Hauser, L.9
Hess, W.R.10
Johnson, Z.I.11
Land, M.12
Lindell, D.13
Post, A.F.14
Regala, W.15
Shah, M.16
Shaw, S.L.17
Steglich, C.18
Sullivan, M.B.19
Ting, C.S.20
more..
-
42
-
-
0033664358
-
RNA expression analysis using a 30 base pair resolution Escherichia coli genome array
-
Selinger DW, Cheung KJ, Mei R, Johansson EM, Richmond CS, Blattner FR, Lockhart DJ, Church GM (2000) RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nat Biotechnol 18: 1262-1268
-
(2000)
Nat Biotechnol
, vol.18
, pp. 1262-1268
-
-
Selinger, D.W.1
Cheung, K.J.2
Mei, R.3
Johansson, E.M.4
Richmond, C.S.5
Blattner, F.R.6
Lockhart, D.J.7
Church, G.M.8
-
43
-
-
66149130975
-
Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column
-
Shi Y, Tyson GW, DeLong EF (2009) Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column. Nature 459: 266-269
-
(2009)
Nature
, vol.459
, pp. 266-269
-
-
Shi, Y.1
Tyson, G.W.2
Delong, E.F.3
-
44
-
-
34748871477
-
Regulation of gene expression by small non-coding RNAs: A quantitative view
-
Shimoni Y, Friedlander G, Hetzroni G, Niv G, Altuvia S, Biham O, Margalit H (2007) Regulation of gene expression by small non-coding RNAs: a quantitative view. Mol Sys Biol 3: 138
-
(2007)
Mol Sys Biol
, vol.3
, pp. 138
-
-
Shimoni, Y.1
Friedlander, G.2
Hetzroni, G.3
Niv, G.4
Altuvia, S.5
Biham, O.6
Margalit, H.7
-
45
-
-
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, Binnewies TT, Hinton JC, Vogel J (2008) Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq. PLoS Genet 4: e1000163
-
(2008)
PLoS Genet
, vol.4
-
-
Sittka, A.1
Lucchini, S.2
Papenfort, K.3
Sharma, C.M.4
Rolle, K.5
Binnewies, T.T.6
Hinton, J.C.7
Vogel, J.8
-
46
-
-
12544251077
-
A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli
-
Sneppen K, Dodd IB, Shearwin KE, Palmer AC, Schubert RA, Callen BP, Egan JB (2005) A mathematical model for transcriptional interference by RNA polymerase traffic in Escherichia coli. J Mol Biol 346: 399-409
-
(2005)
J Mol Biol
, vol.346
, pp. 399-409
-
-
Sneppen, K.1
Dodd, I.B.2
Shearwin, K.E.3
Palmer, A.C.4
Schubert, R.A.5
Callen, B.P.6
Egan, J.B.7
-
47
-
-
32544440797
-
RNAshapes: An integrated RNA analysis package based on abstract shapes
-
Steffen P, Voss B, Rehmsmeier M, Reeder J, Giegerich R (2006) RNAshapes: an integrated RNA analysis package based on abstract shapes. Bioinformatics (Oxford, England) 22: 500-503
-
(2006)
Bioinformatics (Oxford, England)
, vol.22
, pp. 500-503
-
-
Steffen, P.1
Voss, B.2
Rehmsmeier, M.3
Reeder, J.4
Giegerich, R.5
-
48
-
-
50849096398
-
The challenge of regulation in a minimal phototroph: Non-coding RNAs in Prochlorococcus
-
Steglich C, Futschik ME, Lindell D, Voss B, Chisholm SW, Hess WR (2008) The challenge of regulation in a minimal phototroph: Non-coding RNAs in Prochlorococcus. PLoS Genet 4: e1000173
-
(2008)
PLoS Genet
, vol.4
-
-
Steglich, C.1
Futschik, M.E.2
Lindell, D.3
Voss, B.4
Chisholm, S.W.5
Hess, W.R.6
-
49
-
-
34247560793
-
Transcription termination within the iron transport-biosynthesis operon of Vibrio anguillarum requires an antisense RNA
-
Stork M, Di Lorenzo M, Welch TJ, Crosa JH (2007) Transcription termination within the iron transport-biosynthesis operon of Vibrio anguillarum requires an antisense RNA. J Bacteriol 189: 3479-3488
-
(2007)
J Bacteriol
, vol.189
, pp. 3479-3488
-
-
Stork, M.1
Di Lorenzo, M.2
Welch, T.J.3
Crosa, J.H.4
-
50
-
-
0032726707
-
A small and compact genome in the marine cyanobacterium Prochlorococcus marinus CCMP 1375: Lack of an intron in the gene for tRNA(Leu)(UAA) and a single copy of the rRNA operon
-
Strehl B, Holtzendorff J, Partensky F, Hess WR (1999) A small and compact genome in the marine cyanobacterium Prochlorococcus marinus CCMP 1375: lack of an intron in the gene for tRNA(Leu)(UAA) and a single copy of the rRNA operon. FEMS Microbiol Lett 181: 261-266
-
(1999)
FEMS Microbiol Lett
, vol.181
, pp. 261-266
-
-
Strehl, B.1
Holtzendorff, J.2
Partensky, F.3
Hess, W.R.4
-
51
-
-
58749087362
-
Small non-coding RNAs in Streptomyces coelicolor
-
Swiercz JP, Hindra, Bobek J, Bobek J, Haiser HJ, Di Berardo C, Tjaden B, Elliot MA (2008) Small non-coding RNAs in Streptomyces coelicolor. Nucleic Acids Res 36: 7240-7251
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 7240-7251
-
-
Swiercz, J.P.1
Hindra Bobek, J.2
Bobek, J.3
Haiser, H.J.4
Di Berardo, C.5
Tjaden, B.6
Elliot, M.A.7
-
52
-
-
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: 1018-1037
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 1018-1037
-
-
Urban, J.H.1
Vogel, J.2
-
53
-
-
0037592860
-
Experimental and computational analysis of transcriptional start sites in the cyanobacterium Prochlorococcus MED4
-
Vogel J, Axmann IM, Herzel H, Hess WR (2003a) Experimental and computational analysis of transcriptional start sites in the cyanobacterium Prochlorococcus MED4. Nucleic Acids Res 31: 2890-2899
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 2890-2899
-
-
Vogel, J.1
Axmann, I.M.2
Herzel, H.3
Hess, W.R.4
-
54
-
-
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, Huttenhofer A, Wagner EG (2003b) RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res 31: 6435-6443
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 6435-6443
-
-
Vogel, J.1
Bartels, V.2
Tang, T.H.3
Churakov, G.4
Slagter-Jager, J.G.5
Huttenhofer, A.6
Wagner, E.G.7
-
55
-
-
33751202938
-
Small non-coding RNAs and the bacterial outer membrane
-
Vogel J, Papenfort K (2006) Small non-coding RNAs and the bacterial outer membrane. Curr Opin Microbiol 9: 605-611
-
(2006)
Curr Opin Microbiol
, vol.9
, pp. 605-611
-
-
Vogel, J.1
Papenfort, K.2
-
56
-
-
63749124071
-
Biocomputational prediction of non-coding RNAs in model cyanobacteria
-
Voss B, Georg J, Schön V, Ude S, Hess WR (2009) Biocomputational prediction of non-coding RNAs in model cyanobacteria. BMC Genomics 10: 123
-
(2009)
BMC Genomics
, vol.10
, pp. 123
-
-
Voss, B.1
Georg, J.2
Schön, V.3
Ude, S.4
Hess, W.R.5
-
57
-
-
38049182828
-
A motif-based search identifies the ortholog of the small RNAYfr1 in all major lineages of cyanobacteria
-
Voss B, Gierga G, Axmann IM, Hess WR (2007) A motif-based search identifies the ortholog of the small RNAYfr1 in all major lineages of cyanobacteria. BMC Genomics 8: 375
-
(2007)
BMC Genomics
, vol.8
, pp. 375
-
-
Voss, B.1
Gierga, G.2
Axmann, I.M.3
Hess, W.R.4
-
58
-
-
85041131924
-
Antisense RNA control in bacteria, phages, and plasmids
-
Wagner EG, Simons RW (1994) Antisense RNA control in bacteria, phages, and plasmids. Ann Rev Microbiol 48: 713-742
-
(1994)
Ann Rev Microbiol
, vol.48
, pp. 713-742
-
-
Wagner, E.G.1
Simons, R.W.2
-
59
-
-
32944456612
-
Intrinsic terminator prediction and its application in Synechococcus sp. WH 8102
-
Wan X-F, Xu D (2005) Intrinsic terminator prediction and its application in Synechococcus sp. WH 8102. Internat J Comp Sci Technol 20: 465-482
-
(2005)
Internat J Comp Sci Technol
, vol.20
, pp. 465-482
-
-
Wan, X.-F.1
Xu, D.2
-
60
-
-
24644448635
-
Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thaliana
-
Wang XJ, Gaasterland T, Chua NH (2005) Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thaliana. Genome Biol 6: R30
-
(2005)
Genome Biol
, vol.6
-
-
Wang, X.J.1
Gaasterland, T.2
Chua, N.H.3
-
61
-
-
33646029404
-
Prediction of non-coding and antisense RNA genes in Escherichia coli with Gapped Markov Model
-
Yachie N, Numata K, Saito R, Kanai A, Tomita M (2006) Prediction of non-coding and antisense RNA genes in Escherichia coli with Gapped Markov Model. Gene 372: 171-181
-
(2006)
Gene
, vol.372
, pp. 171-181
-
-
Yachie, N.1
Numata, K.2
Saito, R.3
Kanai, A.4
Tomita, M.5
-
62
-
-
0018897011
-
In vitro expression of Escherichia coli ribosomal protein genes: Autogenous inhibition of translation
-
Yates JL, Arfsten AE, Nomura M (1980) In vitro expression of Escherichia coli ribosomal protein genes: autogenous inhibition of translation. Proc Natl Acad Sci USA 77: 1837-1841
-
(1980)
Proc Natl Acad Sci USA
, vol.77
, pp. 1837-1841
-
-
Yates, J.L.1
Arfsten, A.E.2
Nomura, M.3
-
63
-
-
12244275645
-
Widespread occurrence of antisense transcription in the human genome
-
Yelin R, Dahary D, Sorek R, Levanon EY, Goldstein O, Shoshan A, Diber A, Biton S, Tamir Y, Khosravi RR, Nemzer S, Pinner E, Walach S, Bernstein J, Savitsky K, Rotman G (2003) Widespread occurrence of antisense transcription in the human genome. Nature Biotechnol 21: 379-386
-
(2003)
Nature Biotechnol
, vol.21
, pp. 379-386
-
-
Yelin, R.1
Dahary, D.2
Sorek, R.3
Levanon, E.Y.4
Goldstein, O.5
Shoshan, A.6
Diber, A.7
Biton, S.8
Tamir, Y.9
Khosravi, R.R.10
Nemzer, S.11
Pinner, E.12
Walach, S.13
Bernstein, J.14
Savitsky, K.15
Rotman, G.16
-
64
-
-
33746785696
-
Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species
-
Zhang Y, Liu XS, Liu QR, Wei L (2006) Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species. Nucleic Acids Res 34: 3465-3475
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 3465-3475
-
-
Zhang, Y.1
Liu, X.S.2
Liu, Q.R.3
Wei, L.4
|