-
1
-
-
4043075391
-
Genes of structure and genes of regulation in the biosynthesis of proteins
-
Jacob, F. & Monod, J. [Genes of structure and genes of regulation in the biosynthesis of proteins]. C. R. Hebd Seances Acad. Sci. 249, 1282-1284 (1959).
-
(1959)
C. R. Hebd Seances Acad. Sci.
, vol.249
, pp. 1282-1284
-
-
Jacob, F.1
Monod, J.2
-
2
-
-
54249116230
-
Genetic regulatory mechanisms in the synthesis of proteins
-
Jacob, F. & Monod, J. Genetic regulatory mechanisms in the synthesis of proteins. J. Mol. Biol. 3, 318-356 (1961).
-
(1961)
J. Mol. Biol.
, vol.3
, pp. 318-356
-
-
Jacob, F.1
Monod, J.2
-
3
-
-
0039820099
-
Eubacterial sigma-factors
-
DOI 10.1016/S0168-6445(98)00011-4, PII S0168644598000114
-
Wosten, M. M. Eubacterial sigma-factors. FEMS Microbiol. Rev. 22, 127-150 (1998). (Pubitemid 28493355)
-
(1998)
FEMS Microbiology Reviews
, vol.22
, Issue.3
, pp. 127-150
-
-
Wosten, M.M.S.M.1
-
4
-
-
0037261948
-
The sigma70 family of sigma factors
-
Paget, M. S. & Helmann, J. D. The sigma70 family of sigma factors. Genome Biol. 4, 203 (2003).
-
(2003)
Genome Biol.
, vol.4
, pp. 203
-
-
Paget, M.S.1
Helmann, J.D.2
-
5
-
-
0343963178
-
The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12
-
Perez-Rueda, E. & Collado-Vides, J. The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12. Nucleic Acids Res. 28, 1838-1847 (2000). (Pubitemid 30199318)
-
(2000)
Nucleic Acids Research
, vol.28
, Issue.8
, pp. 1838-1847
-
-
Perez-Rueda, E.1
Collado-Vides, J.2
-
6
-
-
79954597274
-
Termination and antitermination: RNA polymerase runs a stop sign Nature Rev
-
Santangelo, T. J. & Artsimovitch, I. Termination and antitermination: RNA polymerase runs a stop sign Nature Rev. Microbiol. 9, 319-329 (2011).
-
(2011)
Microbiol.
, vol.9
, pp. 319-329
-
-
Santangelo, T.J.1
Artsimovitch, I.2
-
7
-
-
0016610995
-
Determinant of cistron specificity in bacterial ribosomes
-
Shine, J. & Dalgarno, L. Determinant of cistron specificity in bacterial ribosomes. Nature 254, 34-38 (1975).
-
(1975)
Nature
, vol.254
, pp. 34-38
-
-
Shine, J.1
Dalgarno, L.2
-
8
-
-
0023721890
-
Nus A protein affects transcriptional pausing and termination in vitro by binding to different sites on the transcription complex
-
Sigmund, C. D. & Morgan, E. A. Nus A protein affects transcriptional pausing and termination in vitro by binding to different sites on the transcription complex. Biochemistry 27, 5622-5627 (1988).
-
(1988)
Biochemistry
, vol.27
, pp. 5622-5627
-
-
Sigmund, C.D.1
Morgan, E.A.2
-
9
-
-
0019852662
-
Internal promoters of the rpoBC operon of Escherichia coli
-
DOI 10.1007/BF00352538
-
Ma, J. C., Newman, A. J. & Hayward, R. S. Internal promoters of the rpoBC operon of Escherichia coli. Mol. Gen. Genet. 184, 548-550 (1981). (Pubitemid 12129882)
-
(1981)
Molecular and General Genetics
, vol.184
, Issue.3
, pp. 548-550
-
-
Ma, J.C.1
Newman, A.J.2
Hayward, R.S.3
-
10
-
-
54549105804
-
S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum
-
Andre, G. et al. S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum. Nucleic Acids Res. 36, 5955-5969 (2008).
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 5955-5969
-
-
Andre, G.1
-
11
-
-
0037206833
-
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression
-
DOI 10.1038/nature01145
-
Winkler, W., Nahvi, A. & Breaker, R. R. Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature 419, 952-956 (2002). (Pubitemid 35339632)
-
(2002)
Nature
, vol.419
, Issue.6910
, pp. 952-956
-
-
Winkler, W.1
Nahvi, A.2
Breaker, R.R.3
-
12
-
-
0035422828
-
Non-canonical mechanism for translational control in bacteria: Synthesis of ribosomal protein S1
-
DOI 10.1093/emboj/20.15.4222
-
Boni, I. V., Artamonova, V. S., Tzareva, N. V. & Dreyfus, M. Non-canonical mechanism for translational control in bacteria: synthesis of ribosomal protein S1. EMBO J. 20, 4222-4232 (2001). (Pubitemid 32751838)
-
(2001)
EMBO Journal
, vol.20
, Issue.15
, pp. 4222-4232
-
-
Boni, I.V.1
Artamonova, V.S.2
Tzareva, N.V.3
Dreyfus, M.4
-
13
-
-
14844340954
-
Initiation of protein synthesis in bacteria
-
DOI 10.1128/MMBR.69.1.101-123.2005
-
Laursen, B. S., Sorensen, H. P., Mortensen, K. K. & Sperling-Petersen, H. U. Initiation of protein synthesis in bacteria. Microbiol. Mol. Biol. Rev. 69, 101-123 (2005). (Pubitemid 40358069)
-
(2005)
Microbiology and Molecular Biology Reviews
, vol.69
, Issue.1
, pp. 101-123
-
-
Laursen, B.S.1
Sorensen, H.P.2
Mortensen, K.K.3
Sperling-Petersen, H.U.4
-
14
-
-
72849114230
-
Prokaryotic transcriptomics: A new view on regulation, physiology and pathogenicity
-
A complete compilation of advances in bacterial transcriptomics
-
Sorek, R. & Cossart, P. Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity. Nature Rev. Genet. 11, 9-16 (2010). A complete compilation of advances in bacterial transcriptomics.
-
(2010)
Nature Rev. Genet.
, vol.11
, pp. 9-16
-
-
Sorek, R.1
Cossart, P.2
-
15
-
-
34548778155
-
Ribozymes, riboswitches and beyond: Regulation of gene expression without proteins
-
DOI 10.1038/nrg2172, PII NRG2172
-
Serganov, A. & Patel, D. J. Ribozymes, riboswitches and beyond: regulation of gene expression without proteins. Nature Rev. Genet. 8, 776-790 (2007). (Pubitemid 47429208)
-
(2007)
Nature Reviews Genetics
, vol.8
, Issue.10
, pp. 776-790
-
-
Serganov, A.1
Patel, D.J.2
-
16
-
-
0347126296
-
DBTBS: Database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics
-
Makita, Y., Nakao, M., Ogasawara, N. & Nakai, K. DBTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. Nucleic Acids Res. 32, D75-D77 (2004). (Pubitemid 38081607)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.DATABASE ISS.
-
-
Makita, Y.1
Nakao, M.2
Ogasawara, N.3
Nakai, K.4
-
17
-
-
55449129670
-
Prediction of transcriptional terminators in Bacillus subtilis and related species
-
de Hoon, M. J., Makita, Y., Nakai, K. & Miyano, S. Prediction of transcriptional terminators in Bacillus subtilis and related species. PLoS Comput. Biol. 1, e25 (2005).
-
(2005)
PLoS Comput. Biol.
, vol.1
-
-
De Hoon, M.J.1
Makita, Y.2
Nakai, K.3
Miyano, S.4
-
18
-
-
0344237410
-
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria
-
DOI 10.1093/nar/gkg867
-
Vogel, J. et al. RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res. 31, 6435-6443 (2003). (Pubitemid 37508747)
-
(2003)
Nucleic Acids Research
, 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
Huttenhofer, A.6
Wagner, E.G.H.7
-
19
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with a complementary DNA microarray
-
Schena, M., Shalon, D., Davis, R. W. & Brown, P. O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270, 467-470 (1995).
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
20
-
-
0033664358
-
RNA expression analysis using a 30 base pair resolution Escherichia coli genome array
-
Selinger, D. W. et al. RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nature Biotech. 18, 1262-1268 (2000).
-
(2000)
Nature Biotech.
, vol.18
, pp. 1262-1268
-
-
Selinger, D.W.1
-
21
-
-
70849119931
-
Transcriptome complexity in a genomereduced bacterium
-
Guell, M. et al. Transcriptome complexity in a genomereduced bacterium. Science 326, 1268-1271 (2009).
-
(2009)
Science
, vol.326
, pp. 1268-1271
-
-
Guell, M.1
-
22
-
-
34249708917
-
High-throughput identification of transcription start sites, conserved promoter motifs and predicted regulons
-
DOI 10.1038/nbt1294, PII NBT1294
-
McGrath, P. T. et al. High-throughput identification of transcription start sites, conserved promoter motifs and predicted regulons. Nature Biotech. 25, 584-592 (2007). (Pubitemid 46838746)
-
(2007)
Nature Biotechnology
, vol.25
, Issue.5
, pp. 584-592
-
-
McGrath, P.T.1
Lee, H.2
Zhang, L.3
Iniesta, A.A.4
Hottes, A.K.5
Tan, M.H.6
Hillson, N.J.7
Hu, P.8
Shapiro, L.9
McAdams, H.H.10
-
23
-
-
70350159135
-
The transcriptionally active regions in the genome of Bacillus subtilis
-
Rasmussen, S., Nielsen, H. B. & Jarmer, H. The transcriptionally active regions in the genome of Bacillus subtilis. Mol. Microbiol. 73, 1043-1057 (2009).
-
(2009)
Mol. Microbiol.
, vol.73
, pp. 1043-1057
-
-
Rasmussen, S.1
Nielsen, H.B.2
Jarmer, H.3
-
24
-
-
36148972085
-
Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D
-
Perocchi, F., Xu, Z., Clauder-Munster, S. & Steinmetz, L. M. Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. Nucleic Acids Res. 35, e128 (2007).
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Perocchi, F.1
Xu, Z.2
Clauder-Munster, S.3
Steinmetz, L.M.4
-
25
-
-
12344291073
-
Dark matter in the genome: Evidence of widespread transcription detected by microarray tiling experiments
-
DOI 10.1016/j.tig.2004.12.009, PII S0168952504003373
-
Johnson, J. M., Edwards, S., Shoemaker, D. & Schadt, E. E. Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments. Trends Genet. 21, 93-102 (2005). (Pubitemid 40127353)
-
(2005)
Trends in Genetics
, vol.21
, Issue.2
, pp. 93-102
-
-
Johnson, J.M.1
Edwards, S.2
Shoemaker, D.3
Schadt, E.E.4
-
26
-
-
22144467302
-
Issues in the analysis of oligonucleotide tiling microarrays for transcript mapping
-
DOI 10.1016/j.tig.2005.06.007, PII S0168952505001678
-
Royce, T. E. et al. Issues in the analysis of oligonucleotide tiling microarrays for transcript mapping. Trends Genet. 21, 466-475 (2005). (Pubitemid 40981796)
-
(2005)
Trends in Genetics
, vol.21
, Issue.8
, pp. 466-475
-
-
Royce, T.E.1
Rozowsky, J.S.2
Bertone, P.3
Samanta, M.4
Stolc, V.5
Weissman, S.6
Snyder, M.7
Gerstein, M.8
-
27
-
-
46249096804
-
Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution
-
DOI 10.1038/nature07002, PII NATURE07002
-
Wilhelm, B. T. et al. Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature 453, 1239-1243 (2008). (Pubitemid 351913597)
-
(2008)
Nature
, vol.453
, Issue.7199
, pp. 1239-1243
-
-
Wilhelm, B.T.1
Marguerat, S.2
Watt, S.3
Schubert, F.4
Wood, V.5
Goodhead, I.6
Penkett, C.J.7
Rogers, J.8
Bahler, J.9
-
28
-
-
57749195712
-
RNA-Seq: A revolutionary tool for transcriptomics
-
A good introduction to RNA-seq
-
Wang, Z., Gerstein, M. & Snyder, M. RNA-Seq: a revolutionary tool for transcriptomics. Nature Rev. Genet. 10, 57-63 (2009). A good introduction to RNA-seq.
-
(2009)
Nature Rev. Genet.
, vol.10
, pp. 57-63
-
-
Wang, Z.1
Gerstein, M.2
Snyder, M.3
-
29
-
-
84888444450
-
Strand specific deep sequencing of the transcriptome
-
Vivancos, A. P., Guell, M., Dohm, J. C., Serrano, L. & Himmelbauer, H. Strand specific deep sequencing of the transcriptome. Genome Res. 19, 255-265 (2009).
-
(2009)
Genome Res.
, vol.19
, pp. 255-265
-
-
Vivancos, A.P.1
Guell, M.2
Dohm, J.C.3
Serrano, L.4
Himmelbauer, H.5
-
30
-
-
59949103704
-
Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE
-
Valen, E. et al. Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE. Genome Res. 19, 255-265 (2009).
-
(2009)
Genome Res.
, vol.19
, pp. 255-265
-
-
Valen, E.1
-
31
-
-
74949137952
-
A single-base resolution map of an archaeal transcriptome
-
Wurtzel, O. et al. A single-base resolution map of an archaeal transcriptome. Genome Res. 20, 133-141 (2010).
-
(2010)
Genome Res.
, vol.20
, pp. 133-141
-
-
Wurtzel, O.1
-
32
-
-
58149175920
-
Helicobacter pylori single-stranded DNA binding protein - Functional characterization and modulation of H. pylori DnaB helicase activity
-
Sharma, A. et al. Helicobacter pylori single-stranded DNA binding protein - functional characterization and modulation of H. pylori DnaB helicase activity. FEBS J. 276, 519-531 (2009).
-
(2009)
FEBS J.
, vol.276
, pp. 519-531
-
-
Sharma, A.1
-
33
-
-
41649114407
-
Microbial community gene expression in ocean surface waters
-
DOI 10.1073/pnas.0708897105
-
Frias-Lopez, J. et al. Microbial community gene expression in ocean surface waters. Proc. Natl Acad. Sci. USA 105, 3805-3810 (2008). (Pubitemid 351723480)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.10
, pp. 3805-3810
-
-
Frias-Lopez, J.1
Shi, Y.2
Tyson, G.W.3
Coleman, M.L.4
Schuster, S.C.5
Chisholm, S.W.6
DeLong, E.F.7
-
34
-
-
78149429458
-
Microbiome profiling by illumina sequencing of combinatorial sequence-tagged PCR products
-
Gloor, G. B. et al. Microbiome profiling by illumina sequencing of combinatorial sequence-tagged PCR products. PLoS ONE 5, e15406 (2010).
-
(2010)
PLoS ONE
, vol.5
-
-
Gloor, G.B.1
-
35
-
-
0026004137
-
Transcription and decay of the lac messenger: Role of an intergenic terminator
-
Murakawa, G. J., Kwan, C., Yamashita, J. & Nierlich, D. P. Transcription and decay of the lac messenger: role of an intergenic terminator. J. Bacteriol. 173, 28-36 (1991).
-
(1991)
J. Bacteriol.
, vol.173
, pp. 28-36
-
-
Murakawa, G.J.1
Kwan, C.2
Yamashita, J.3
Nierlich, D.P.4
-
36
-
-
33745616349
-
Analysis of gene expression in operons of Streptomyces coelicolor
-
Laing, E., Mersinias, V., Smith, C. P. & Hubbard, S. J. Analysis of gene expression in operons of Streptomyces coelicolor. Genome Biol. 7, R46 (2006).
-
(2006)
Genome Biol.
, vol.7
-
-
Laing, E.1
Mersinias, V.2
Smith, C.P.3
Hubbard, S.J.4
-
37
-
-
0032899774
-
Identification and transcriptional analysis of new members of the σ(B) regulon in Bacillus subtilis
-
Petersohn, A., Antelmann, H., Gerth, U. & Hecker, M. Identification and transcriptional analysis of new members of the sigmaB regulon in Bacillus subtilis. Microbiology 145, 869-880 (1999). (Pubitemid 29179203)
-
(1999)
Microbiology
, vol.145
, Issue.4
, pp. 869-880
-
-
Petersohn, A.1
Antelmann, H.2
Gerth, U.3
Hecker, M.4
-
38
-
-
0029858590
-
Identification and characterization of transcripts from the biotin biosynthetic operon of Bacillus subtilis
-
Perkins, J. B., Bower, S., Howitt, C. L., Yocum, R. R. & Pero, J. Identification and characterization of transcripts from the biotin biosynthetic operon of Bacillus subtilis. J. Bacteriol. 178, 6361-6365 (1996). (Pubitemid 26365722)
-
(1996)
Journal of Bacteriology
, vol.178
, Issue.21
, pp. 6361-6365
-
-
Perkins, J.B.1
Bower, S.2
Linda Howitt, C.3
Rogers Yocum, R.4
Pero, J.5
-
39
-
-
0037453069
-
Transcription termination control of the S box system: Direct measurement of S-adenosylmethionine by the leader RNA
-
DOI 10.1073/pnas.0630422100
-
McDaniel, B. A., Grundy, F. J., Artsimovitch, I. & Henkin, T. M. Transcription termination control of the S box system: direct measurement of S-adenosylmethionine by the leader RNA. Proc. Natl Acad. Sci. USA 100, 3083-3088 (2003). (Pubitemid 36356543)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.6
, pp. 3083-3088
-
-
Murphy McDaniel, B.A.1
Grundy, F.J.2
Artsimovitch, I.3
Henkin, T.M.4
-
40
-
-
77949425194
-
The primary transcriptome of the major human pathogen Helicobacter pylori
-
Sharma, C. M. et al. The primary transcriptome of the major human pathogen Helicobacter pylori. Nature 464, 250-255 (2010).
-
(2010)
Nature
, vol.464
, pp. 250-255
-
-
Sharma, C.M.1
-
41
-
-
41249103559
-
Establishment of an mRNA gradient depends on the promoter: An investigation of polarity in gene expression
-
Lee, H. J., Jeon, H. J., Ji, S. C., Yun, S. H. & Lim, H. M. Establishment of an mRNA gradient depends on the promoter: an investigation of polarity in gene expression. J. Mol. Biol. 378, 318-327 (2008).
-
(2008)
J. Mol. Biol.
, vol.378
, pp. 318-327
-
-
Lee, H.J.1
Jeon, H.J.2
Ji, S.C.3
Yun, S.H.4
Lim, H.M.5
-
42
-
-
45449099933
-
Advances in bacterial promoter recognition and its control by factors that do not bind DNA
-
DOI 10.1038/nrmicro1912, PII NRMICRO1912
-
Haugen, S. P., Ross, W. & Gourse, R. L. Advances in bacterial promoter recognition and its control by factors that do not bind DNA. Nature Rev. Microbiol. 6, 507-519 (2008). (Pubitemid 351850975)
-
(2008)
Nature Reviews Microbiology
, vol.6
, Issue.7
, pp. 507-519
-
-
Haugen, S.P.1
Ross, W.2
Gourse, R.L.3
-
43
-
-
70849132924
-
Proteome organization in a genomereduced bacterium
-
Kuhner, S. et al. Proteome organization in a genomereduced bacterium. Science 326, 1235-1240 (2009).
-
(2009)
Science
, vol.326
, pp. 1235-1240
-
-
Kuhner, S.1
-
44
-
-
77951589688
-
Cooperation between translating ribosomes and RNA polymerase in transcription elongation
-
Proshkin, S., Rahmouni, A. R., Mironov, A. & Nudler, E. Cooperation between translating ribosomes and RNA polymerase in transcription elongation. Science 328, 504-508 (2010).
-
(2010)
Science
, vol.328
, pp. 504-508
-
-
Proshkin, S.1
Rahmouni, A.R.2
Mironov, A.3
Nudler, E.4
-
45
-
-
64449088698
-
Continuous base identification for single-molecule nanopore DNA sequencing
-
Clarke, J. et al. Continuous base identification for single-molecule nanopore DNA sequencing. Nature Nanotechnol. 4, 265-270 (2009).
-
(2009)
Nature Nanotechnol.
, vol.4
, pp. 265-270
-
-
Clarke, J.1
-
46
-
-
58149234737
-
Real-time DNA sequencing from single polymerase molecules
-
Eid, J. et al. Real-time DNA sequencing from single polymerase molecules. Science 323, 133-138 (2009).
-
(2009)
Science
, vol.323
, pp. 133-138
-
-
Eid, J.1
-
47
-
-
78751659330
-
Nascent transcript sequencing visualizes transcription at nucleotide resolution
-
Churchman, L. S. & Weissman, J. S. Nascent transcript sequencing visualizes transcription at nucleotide resolution. Nature 469, 368-373 (2011).
-
(2011)
Nature
, vol.469
, pp. 368-373
-
-
Churchman, L.S.1
Weissman, J.S.2
-
48
-
-
1842506160
-
Regulation at complex bacterial promoters: How bacteria use different promoter organizations to produce different regulatory outcomes
-
DOI 10.1016/j.mib.2004.02.011, PII S1369527404000244
-
Barnard, A., Wolfe, A. & Busby, S. Regulation at complex bacterial promoters: how bacteria use different promoter organizations to produce different regulatory outcomes. Curr. Opin. Microbiol. 7, 102-108 (2004). (Pubitemid 38447040)
-
(2004)
Current Opinion in Microbiology
, vol.7
, Issue.2
, pp. 102-108
-
-
Barnard, A.1
Wolfe, A.2
Busby, S.3
-
49
-
-
0034906531
-
Overlapping binding sites for the virulence gene regulators AphA, AphB and cAMP-CRP at the Vibrio cholerae TcpPH promoter
-
DOI 10.1046/j.1365-2958.2001.02518.x
-
Kovacikova, G. & Skorupski, K. Overlapping binding sites for the virulence gene regulators AphA, AphB and cAMP-CRP at the Vibrio cholera tcpPH promoter. Mol. Microbiol. 41, 393-407 (2001). (Pubitemid 32730539)
-
(2001)
Molecular Microbiology
, vol.41
, Issue.2
, pp. 393-407
-
-
Kovacikova, G.1
Skorupski, K.2
-
50
-
-
20444382737
-
Regulation of transcription: From lambda to eukaryotes
-
DOI 10.1016/j.tibs.2005.04.003, PII S0968000405000939, Celebrating 50 Years of the IUBMB
-
Ptashne, M. Regulation of transcription: from lambda to eukaryotes. Trends Biochem. Sci. 30, 275-279 (2005). (Pubitemid 40799040)
-
(2005)
Trends in Biochemical Sciences
, vol.30
, Issue.6
, pp. 275-279
-
-
Ptashne, M.1
-
51
-
-
60549108380
-
Bidirectional promoters generate pervasive transcription in yeast
-
Xu, Z. et al. Bidirectional promoters generate pervasive transcription in yeast. Nature 457, 1033-1037 (2009).
-
(2009)
Nature
, vol.457
, pp. 1033-1037
-
-
Xu, Z.1
-
52
-
-
0347135948
-
An abundance of bidirectional promoters in the human genome
-
Trinklein, N. D. et al. An abundance of bidirectional promoters in the human genome. Genome Res. 14, 62-66 (2004).
-
(2004)
Genome Res.
, vol.14
, pp. 62-66
-
-
Trinklein, N.D.1
-
53
-
-
2642654228
-
Coordinated repression in vitro of the divergent fepA-fes promoters of Escherichia coli by the iron uptake regulation (Fur) protein
-
Escolar, L., Pérez-Martin, J. & de Lorenzo, V. Coordinated repression in vitro of the divergent fepA-fes promoters of Escherichia coli by the iron uptake regulation (Fur) protein. J. Bacteriol. 180, 2579-2582 (1998). (Pubitemid 28217378)
-
(1998)
Journal of Bacteriology
, vol.180
, Issue.9
, pp. 2579-2582
-
-
Escolar, L.1
Perez-Martin, J.2
De Lorenzo, V.3
-
54
-
-
0023903765
-
Bidirectional promoter in the hut (P) region of the histidine utilization (hut) operons from Klebsiella aerogenes
-
Nieuwkoop, A. J., Baldauf, S. A., Hudspeth, M. E. & Bender, R. A. Bidirectional promoter in the hut (P) region of the histidine utilization (hut) operons from Klebsiella aerogenes. J. Bacteriol. 170, 2240-2246 (1988).
-
(1988)
J. Bacteriol.
, vol.170
, pp. 2240-2246
-
-
Nieuwkoop, A.J.1
Baldauf, S.A.2
Hudspeth, M.E.3
Bender, R.A.4
-
55
-
-
33746657720
-
Systematic analysis of head-to-head gene organization: Evolutionary conservation and potential biological relevance
-
Li, Y. Y. et al. Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance. PLoS Comput. Biol. 2, e74 (2006).
-
(2006)
PLoS Comput. Biol.
, vol.2
-
-
Li, Y.Y.1
-
56
-
-
0033923860
-
Rns, a virulence regulator within the AraC family, requires binding sites upstream and downstream of its own promoter to function as an activator
-
DOI 10.1046/j.1365-2958.2000.01957.x
-
Munson, G. P. & Scott, J. R. Rns, a virulence regulator within the AraC family, requires binding sites upstream and downstream of its own promoter to function as an activator. Mol. Microbiol. 36, 1391-1402 (2000). (Pubitemid 30449974)
-
(2000)
Molecular Microbiology
, vol.36
, Issue.6
, pp. 1391-1402
-
-
Munson, G.P.1
Scott, J.R.2
-
57
-
-
42249098422
-
Evolvability and hierarchy in rewired bacterial gene networks
-
DOI 10.1038/nature06847, PII NATURE06847
-
Isalan, M. et al. Evolvability and hierarchy in rewired bacterial gene networks. Nature 452, 840-845 (2008). (Pubitemid 351550865)
-
(2008)
Nature
, vol.452
, Issue.7189
, pp. 840-845
-
-
Isalan, M.1
Lemerle, C.2
Michalodimitrakis, K.3
Horn, C.4
Beltrao, P.5
Raineri, E.6
Garriga-Canut, M.7
Serrano, L.8
-
59
-
-
25844463677
-
70 as a cofactor for looping
-
DOI 10.1101/gad.1316305
-
Shin, M. et al. DNA looping-mediated repression by histone-like protein H-NS: specific requirement of Esigma70 as a cofactor for looping. Genes Dev. 19, 2388-2398 (2005). (Pubitemid 41396915)
-
(2005)
Genes and Development
, vol.19
, Issue.19
, pp. 2388-2398
-
-
Shin, M.1
Song, M.2
Joon, H.R.3
Hong, Y.4
Kim, Y.-J.5
Seok, Y.-J.6
Ha, K.-S.7
Jung, S.-H.8
Choy, H.E.9
-
60
-
-
67649268395
-
The Listeria transcriptional landscape from saprophytism to virulence
-
Complete article describing a major pathogen transcriptome
-
Toledo-Arana, A. et al. The Listeria transcriptional landscape from saprophytism to virulence. Nature 459, 950-956 (2009). Complete article describing a major pathogen transcriptome.
-
(2009)
Nature
, vol.459
, pp. 950-956
-
-
Toledo-Arana, A.1
-
61
-
-
0037387973
-
A survey of small RNA-encoding genes in Escherichia coli
-
DOI 10.1093/nar/gkg297
-
Hershberg, R., Altuvia, S. & Margalit, H. A survey of small RNA-encoding genes in Escherichia coli. Nucleic Acids Res. 31, 1813-1820 (2003). (Pubitemid 36432687)
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.7
, pp. 1813-1820
-
-
Hershberg, R.1
Altuvia, S.2
Margalit, H.3
-
62
-
-
34247099372
-
Regulatory mechanisms employed by cis-encoded antisense RNAs
-
DOI 10.1016/j.mib.2007.03.012, PII S136952740700029X, Cell Regulation (RNA Special Issue)
-
Brantl, S. Regulatory mechanisms employed by cisencoded antisense RNAs. Curr. Opin. Microbiol. 10, 102-109 (2007). (Pubitemid 46590052)
-
(2007)
Current Opinion in Microbiology
, vol.10
, Issue.2
, pp. 102-109
-
-
Brantl, S.1
-
63
-
-
0028934994
-
Regulation of gene expression by transencoded antisense RNAs
-
Delihas, N. Regulation of gene expression by transencoded antisense RNAs. Mol. Microbiol. 15, 411-414 (1995).
-
(1995)
Mol. Microbiol.
, vol.15
, pp. 411-414
-
-
Delihas, N.1
-
64
-
-
1842453716
-
Controlling mRNA stability and translation with small, noncoding RNAs
-
DOI 10.1016/j.mib.2004.02.015, PII S1369527404000281
-
Storz, G., Opdyke, J. A. & Zhang, A. Controlling mRNA stability and translation with small, noncoding RNAs. Curr. Opin. Microbiol. 7, 140-144 (2004). (Pubitemid 38447046)
-
(2004)
Current Opinion in Microbiology
, vol.7
, Issue.2
, pp. 140-144
-
-
Storz, G.1
Opdyke, J.A.2
Zhang, A.3
-
65
-
-
84863924309
-
Bacterial small RNA regulators: Versatile roles and rapidly evolving variations
-
27 Oct, doi: 10.1101/cshperspect.a003798
-
Gottesman, S. & Storz, G. Bacterial small RNA regulators: versatile roles and rapidly evolving variations. Cold Spring Harb. Perspect. Biol. 27 Oct. 2010 (doi: 10.1101/cshperspect.a003798).
-
(2010)
Cold Spring Harb. Perspect. Biol.
-
-
Gottesman, S.1
Storz, G.2
-
66
-
-
71549151293
-
Beyond ribosome rescue: Tmrna and co-translational processes
-
Hayes, C. S. & Keiler, K. C. Beyond ribosome rescue: tmRNA and co-translational processes. FEBS Lett. 584, 413-419 (2010).
-
(2010)
FEBS Lett.
, vol.584
, pp. 413-419
-
-
Hayes, C.S.1
Keiler, K.C.2
-
67
-
-
34247163202
-
6S RNA: A small RNA regulator of transcription
-
DOI 10.1016/j.mib.2007.03.008, PII S1369527407000252, Cell Regulation (RNA Special Issue)
-
Wassarman, K. M. 6S RNA: a small RNA regulator of transcription. Curr. Opin. Microbiol. 10, 164-168 (2007). (Pubitemid 46590048)
-
(2007)
Current Opinion in Microbiology
, vol.10
, Issue.2
, pp. 164-168
-
-
Wassarman, K.M.1
-
68
-
-
60149089144
-
Regulatory RNAs in bacteria
-
Waters, L. S. & Storz, G. Regulatory RNAs in bacteria. Cell 136, 615-628 (2009).
-
(2009)
Cell
, vol.136
, pp. 615-628
-
-
Waters, L.S.1
Storz, G.2
-
69
-
-
0026442269
-
Dynamics of DNA supercoiling by transcription in Escherichia coli
-
Cook, D. N., Ma, D., Pon, N. G. & Hearst, J. E. Dynamics of DNA supercoiling by transcription in Escherichia coli. Proc. Natl Acad. Sci. USA 89, 10603-10607 (1992).
-
(1992)
Proc. Natl Acad. Sci. USA
, vol.89
, pp. 10603-10607
-
-
Cook, D.N.1
Ma, D.2
Pon, N.G.3
Hearst, J.E.4
-
70
-
-
33745612978
-
Homeostatic regulation of supercoiling sensitivity coordinates transcription of the bacterial genome
-
DOI 10.1038/sj.embor.7400729, PII 7400729
-
Blot, N., Mavathur, R., Geertz, M., Travers, A. & Muskhelishvili, G. Homeostatic regulation of supercoiling sensitivity coordinates transcription of the bacterial genome. EMBO Rep. 7, 710-715 (2006). (Pubitemid 43986268)
-
(2006)
EMBO Reports
, vol.7
, Issue.7
, pp. 710-715
-
-
Blot, N.1
Mavathur, R.2
Geertz, M.3
Travers, A.4
Muskhelishvili, G.5
-
71
-
-
20644462362
-
Micros for microbes: Non-coding regulatory RNAs in bacteria
-
DOI 10.1016/j.tig.2005.05.008, PII S0168952505001381
-
Gottesman, S. Micros for microbes: non-coding regulatory RNAs in bacteria. Trends Genet. 21, 399-404 (2005). A good review of the roles of sRNAs in bacteria. (Pubitemid 40835726)
-
(2005)
Trends in Genetics
, vol.21
, Issue.7
, pp. 399-404
-
-
Gottesman, S.1
-
72
-
-
34247134625
-
The role of small RNAs in quorum sensing
-
DOI 10.1016/j.mib.2007.03.009, PII S1369527407000264, Cell Regulation (RNA Special Issue)
-
Bejerano-Sagie, M. & Xavier, K. B. The role of small RNAs in quorum sensing. Curr. Opin. Microbiol. 10, 189-198 (2007). (Pubitemid 46590049)
-
(2007)
Current Opinion in Microbiology
, vol.10
, Issue.2
, pp. 189-198
-
-
Bejerano-Sagie, M.1
Xavier, K.B.2
-
73
-
-
34247092927
-
Small RNAs controlling iron metabolism
-
DOI 10.1016/j.mib.2007.03.013, PII S1369527407000306, Cell Regulation (RNA Special Issue)
-
Masse, E., Salvail, H., Desnoyers, G. & Arguin, M. Small RNAs controlling iron metabolism. Curr. Opin. Microbiol. 10, 140-145 (2007). (Pubitemid 46590053)
-
(2007)
Current Opinion in Microbiology
, vol.10
, Issue.2
, pp. 140-145
-
-
Masse, E.1
Salvail, H.2
Desnoyers, G.3
Arguin, M.4
-
74
-
-
78650532236
-
Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA
-
Papenfort, K., Bouvier, M., Mika, F., Sharma, C. M. & Vogel, J. Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA. Proc. Natl Acad. Sci. USA 107, 20435-20440 (2010).
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 20435-20440
-
-
Papenfort, K.1
Bouvier, M.2
Mika, F.3
Sharma, C.M.4
Vogel, J.5
-
75
-
-
78649346987
-
Recognition of heptameric seed sequence underlies multi-target regulation by RybB small RNA in Salmonella enterica
-
Balbontin, R., Fiorini, F., Figueroa-Bossi, N., Casadesus, J. & Bossi, L. Recognition of heptameric seed sequence underlies multi-target regulation by RybB small RNA in Salmonella enterica. Mol. Microbiol. 78, 380-394 (2010).
-
(2010)
Mol. Microbiol.
, vol.78
, pp. 380-394
-
-
Balbontin, R.1
Fiorini, F.2
Figueroa-Bossi, N.3
Casadesus, J.4
Bossi, L.5
-
76
-
-
35248861103
-
Efficient degradation and expression prioritization with small RNAs
-
DOI 10.1088/1478-3975/4/3/003, PII S1478397507538136
-
Mitarai, N., Andersson, A. M., Krishna, S., Semsey, S. & Sneppen, K. Efficient degradation and expression prioritization with small RNAs. Phys. Biol. 4, 164-171 (2007). (Pubitemid 47568913)
-
(2007)
Physical Biology
, vol.4
, Issue.3
, pp. 164-171
-
-
Mitarai, N.1
Andersson, A.M.C.2
Krishna, S.3
Semsey, S.4
Sneppen, K.5
-
77
-
-
77956281182
-
Structural and operational complexity of the Geobacter sulfurreducens genome
-
Qiu, Y. et al. Structural and operational complexity of the Geobacter sulfurreducens genome. Genome Res. 20, 1304-1311 (2010).
-
(2010)
Genome Res.
, vol.20
, pp. 1304-1311
-
-
Qiu, Y.1
-
78
-
-
78449301921
-
Widespread antisense transcription in Escherichia coli
-
Dornenburg, J. E., Devita, A. M., Palumbo, M. J. & Wade, J. T. Widespread antisense transcription in Escherichia coli. MBio 1, e00024-10 (2010).
-
(2010)
MBio
, vol.1
-
-
Dornenburg, J.E.1
Devita, A.M.2
Palumbo, M.J.3
Wade, J.T.4
-
79
-
-
33749870103
-
A large quantity of novel human antisense transcripts detected by LongSAGE
-
DOI 10.1093/bioinformatics/btl429
-
Ge, X., Wu, Q., Jung, Y. C., Chen, J. & Wang, S. M. A large quantity of novel human antisense transcripts detected by LongSAGE. Bioinformatics 22, 2475-2479 (2006). (Pubitemid 44560753)
-
(2006)
Bioinformatics
, vol.22
, Issue.20
, pp. 2475-2479
-
-
Ge, X.1
Wu, Q.2
Jung, Y.-C.3
Chen, J.4
Wang, S.M.5
-
80
-
-
34447132252
-
Distinct expression patterns of natural antisense transcripts in Arabidopsis
-
DOI 10.1104/pp.107.100396
-
Henz, S. R. et al. Distinct expression patterns of natural antisense transcripts in Arabidopsis. Plant Physiol. 144, 1247-1255 (2007). (Pubitemid 47037440)
-
(2007)
Plant Physiology
, vol.144
, Issue.3
, pp. 1247-1255
-
-
Henz, S.R.1
Cumbie, J.S.2
Kasschau, K.D.3
Lohmann, J.U.4
Carrington, J.C.5
Weigel, D.6
Schmid, M.7
-
81
-
-
62649160909
-
Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing
-
Yoder-Himes, D. R. et al. Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing. Proc. Natl Acad. Sci. USA 106, 3976-3981 (2009).
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 3976-3981
-
-
Yoder-Himes, D.R.1
-
82
-
-
68249102779
-
A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella Typhi
-
Perkins, T. T. et al. A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella Typhi. PLoS Genet. 5, e1000569 (2009).
-
(2009)
PLoS Genet.
, vol.5
-
-
Perkins, T.T.1
-
83
-
-
50849105413
-
Deep sequencing analysis of small noncoding RNA and mRNA targets of the global posttranscriptional regulator, Hfq
-
Sittka, A. et al. Deep sequencing analysis of small noncoding RNA and mRNA targets of the global posttranscriptional regulator, Hfq. PLoS Genet. 4, e1000163 (2008).
-
(2008)
PLoS Genet.
, vol.4
-
-
Sittka, A.1
-
84
-
-
65549099632
-
Structure and complexity of a bacterial transcriptome
-
Passalacqua, K. D. et al. Structure and complexity of a bacterial transcriptome. J. Bacteriol. 191, 3203-3211 (2009).
-
(2009)
J. Bacteriol.
, vol.191
, pp. 3203-3211
-
-
Passalacqua, K.D.1
-
85
-
-
34250369629
-
Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions
-
DOI 10.1101/gr.5660607
-
Denoeud, F. et al. Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions. Genome Res. 17, 746-759 (2007). (Pubitemid 46919711)
-
(2007)
Genome Research
, vol.17
, Issue.6
, pp. 746-759
-
-
Denoeud, F.1
Kapranov, P.2
Ucla, C.3
Frankish, A.4
Castelo, R.5
Drenkow, J.6
Lagarde, J.7
Alioto, T.8
Manzano, C.9
Chrast, J.10
Dike, S.11
Wyss, C.12
Henrichsen, C.N.13
Holroyd, N.14
Dickson, M.C.15
Taylor, R.16
Hance, Z.17
Foissac, S.18
Myers, R.M.19
Rogers, J.20
Hubbard, T.21
Harrow, J.22
Guigo, R.23
Gingeras, T.R.24
Antonarakis, S.E.25
Reymond, A.26
more..
-
86
-
-
77950914774
-
A genome-wide survey of sRNAs in the symbiotic nitrogen fixing alpha-proteobacterium Sinorhizobium meliloti
-
Schluter, J. P. et al. A genome-wide survey of sRNAs in the symbiotic nitrogen fixing alpha-proteobacterium Sinorhizobium meliloti. BMC Genomics 11, 245 (2010).
-
(2010)
BMC Genomics
, vol.11
, pp. 245
-
-
Schluter, J.P.1
-
87
-
-
33845450357
-
Synthesis-mediated release of a small RNA inhibitor of RNA polymerase
-
DOI 10.1126/science.1134830
-
Wassarman, K. M. & Saecker, R. M. Synthesismediated release of a small RNA inhibitor of RNA polymerase. Science 314, 1601-1603 (2006). (Pubitemid 44907154)
-
(2006)
Science
, vol.314
, Issue.5805
, pp. 1601-1603
-
-
Wassarman, K.M.1
Saecker, R.M.2
-
88
-
-
58549096736
-
Quorum sensing in staphylococci
-
Novick, R. P. & Geisinger, E. Quorum sensing in staphylococci. Annu. Rev. Genet. 42, 541-564 (2008).
-
(2008)
Annu. Rev. Genet.
, vol.42
, pp. 541-564
-
-
Novick, R.P.1
Geisinger, E.2
-
89
-
-
8544271637
-
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system
-
DOI 10.1111/j.1365-2958.2004.04348.x
-
Vanderpool, C. K. & Gottesman, S. Involvement of a novel transcriptional activator and small RNA in posttranscriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system. Mol. Microbiol. 54, 1076-1089 (2004). (Pubitemid 39491039)
-
(2004)
Molecular Microbiology
, vol.54
, Issue.4
, pp. 1076-1089
-
-
Vanderpool, C.K.1
Gottesman, S.2
-
90
-
-
38049115217
-
A dual function for a bacterial small RNA: SgrS performs base pairingdependent regulation and encodes a functional polypeptide
-
Wadler, C. S. & Vanderpool, C. K. A dual function for a bacterial small RNA: SgrS performs base pairingdependent regulation and encodes a functional polypeptide. Proc. Natl Acad. Sci. USA 104, 20454-20459 (2007).
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 20454-20459
-
-
Wadler, C.S.1
Vanderpool, C.K.2
-
91
-
-
77951519861
-
A minimal base-pairing region of a bacterial small RNA SgrS required for translational repression of ptsG mRNA
-
Maki, K., Morita, T., Otaka, H. & Aiba, H. A minimal base-pairing region of a bacterial small RNA SgrS required for translational repression of ptsG mRNA. Mol. Microbiol. 76, 782-792 (2010).
-
(2010)
Mol. Microbiol.
, vol.76
, pp. 782-792
-
-
Maki, K.1
Morita, T.2
Otaka, H.3
Aiba, H.4
-
92
-
-
76649123930
-
Mesoporous silica chips for selective enrichment and stabilization of low molecular weight proteome
-
Bouamrani, A. et al. Mesoporous silica chips for selective enrichment and stabilization of low molecular weight proteome. Proteomics 10, 496-505 (2010).
-
(2010)
Proteomics
, vol.10
, pp. 496-505
-
-
Bouamrani, A.1
-
93
-
-
0036931204
-
Characterization of the specific cleavage of ceiE7-mRNA of the bactericidal ColE7 operon
-
DOI 10.1016/S0006-291X(02)02704-3, PII S0006291X02027043
-
Chang, S. J., Hsieh, S. Y., Yuan, H. S. & Chak, K. F. Characterization of the specific cleavage of ceiE7-mRNA of the bactericidal ColE7 operon. Biochem. Biophys. Res. Commun. 299, 613-620 (2002). (Pubitemid 36034590)
-
(2002)
Biochemical and Biophysical Research Communications
, vol.299
, Issue.4
, pp. 613-620
-
-
Chang, S.-J.1
Hsieh, S.-Y.2
Yuan, H.S.3
Chak, K.-F.4
-
94
-
-
77954952126
-
Messenger RNA turnover processes in Escherichia coli, Bacillus subtilis, and emerging studies in Staphylococcus aureus
-
Anderson, K. L. & Dunman, P. M. Messenger RNA turnover processes in Escherichia coli, Bacillus subtilis, and emerging studies in Staphylococcus aureus. Int. J. Microbiol. 2009, 525491 (2009).
-
(2009)
Int. J. Microbiol.
, vol.2009
, pp. 525491
-
-
Anderson, K.L.1
Dunman, P.M.2
-
95
-
-
38349117689
-
The bacterial enzyme RppH triggers messenger RNA degradation by 5' pyrophosphate removal
-
Deana, A., Celesnik, H. & Belasco, J. G. The bacterial enzyme RppH triggers messenger RNA degradation by 5' pyrophosphate removal. Nature 451, 355-358 (2008).
-
(2008)
Nature
, vol.451
, pp. 355-358
-
-
Deana, A.1
Celesnik, H.2
Belasco, J.G.3
-
96
-
-
50849083181
-
Quality control of bacterial mRNA decoding and decay
-
Richards, J., Sundermeier, T., Svetlanov, A. & Karzai, A. W. Quality control of bacterial mRNA decoding and decay. Biochim. Biophys. Acta 1779, 574-582 (2008).
-
(2008)
Biochim. Biophys. Acta
, vol.1779
, pp. 574-582
-
-
Richards, J.1
Sundermeier, T.2
Svetlanov, A.3
Karzai, A.W.4
-
97
-
-
77951539769
-
Rapid cleavage of RNA by RNase E in the absence of 5' monophosphate stimulation
-
Kime, L., Jourdan, S. S., Stead, J. A., Hidalgo-Sastre, A. & McDowall, K. J. Rapid cleavage of RNA by RNase E in the absence of 5' monophosphate stimulation. Mol. Microbiol. 76, 590-604 (2010).
-
(2010)
Mol. Microbiol.
, vol.76
, pp. 590-604
-
-
Kime, L.1
Jourdan, S.S.2
Stead, J.A.3
Hidalgo-Sastre, A.4
McDowall, K.J.5
-
98
-
-
84857706002
-
Bacterial/archaeal/organellar polyadenylation
-
Mohanty, B. K. & Kushner, S. R. Bacterial/archaeal/organellar polyadenylation. WIREs RNA 2, 256-276 (2010).
-
(2010)
WIREs RNA
, vol.2
, pp. 256-276
-
-
Mohanty, B.K.1
Kushner, S.R.2
-
99
-
-
0033866222
-
Emerging features of mRNA decay in bacteria
-
DOI 10.1017/S1355838200001023
-
Steege, D. A. Emerging features of mRNA decay in bacteria. RNA 6, 1079-1090 (2000). (Pubitemid 30620392)
-
(2000)
RNA
, vol.6
, Issue.8
, pp. 1079-1090
-
-
Steege, D.A.1
-
100
-
-
0019887393
-
Detection of high levels of polyadenylate-containing RNA in bacteria by the use of a single-step RNA isolation procedure
-
Gopalakrishna, Y., Langley, D. & Sarkar, N. Detection of high levels of polyadenylate-containing RNA in bacteria by the use of a single-step RNA isolation procedure. Nucleic Acids Res. 9, 3545-3554 (1981).
-
(1981)
Nucleic Acids Res.
, vol.9
, pp. 3545-3554
-
-
Gopalakrishna, Y.1
Langley, D.2
Sarkar, N.3
-
101
-
-
33750984542
-
The majority of Escherichia coli mRNAs undergo post-transcriptional modification in exponentially growing cells
-
DOI 10.1093/nar/gkl684
-
Mohanty, B. K. & Kushner, S. R. The majority of Escherichia coli mRNAs undergo post-transcriptional modification in exponentially growing cells. Nucleic Acids Res. 34, 5695-5704 (2006). (Pubitemid 44742456)
-
(2006)
Nucleic Acids Research
, vol.34
, Issue.19
, pp. 5695-5704
-
-
Mohanty, B.K.1
Kushner, S.R.2
-
102
-
-
0037296764
-
Growth-rate dependent RNA polyadenylation in Escherichia coli
-
DOI 10.1038/sj.embor.embor733
-
Jasiecki, J. & Wegrzyn, G. Growth-rate dependent RNA polyadenylation in Escherichia coli. EMBO Rep. 4, 172-177 (2003). (Pubitemid 36322159)
-
(2003)
EMBO Reports
, vol.4
, Issue.2
, pp. 172-177
-
-
Jasiecki, J.1
Wegrzyn, G.2
-
103
-
-
0037162469
-
Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays
-
DOI 10.1073/pnas.112318199
-
Bernstein, J. A., Khodursky, A. B., Lin, P. H., Lin-Chao, S. & Cohen, S. N. Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays. Proc. Natl Acad. Sci. USA 99, 9697-9702 (2002). The first global analysis of RNA decay in bacteria. (Pubitemid 34831110)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.15
, pp. 9697-9702
-
-
Bernstein, J.A.1
Khodursky, A.B.2
Lin, P.-H.3
Lin-Chao, S.4
Cohen, S.N.5
-
104
-
-
0036500552
-
RNA quality control: Degradation of defective transfer RNA
-
DOI 10.1093/emboj/21.5.1132
-
Li, Z., Reimers, S., Pandit, S. & Deutscher, M. P. RNA quality control: degradation of defective transfer RNA. EMBO J. 21, 1132-1138 (2002). (Pubitemid 34206186)
-
(2002)
EMBO Journal
, vol.21
, Issue.5
, pp. 1132-1138
-
-
Li, Z.1
Reimers, S.2
Pandit, S.3
Deutscher, M.P.4
-
105
-
-
33750967640
-
A pentatricopeptide repeat protein facilitates the trans-splicing of the maize chloroplast rps12 pre-mRNA
-
DOI 10.1105/tpc.106.046110
-
Schmitz-Linneweber, C. et al. A pentatricopeptide repeat protein facilitates the trans-splicing of the maize chloroplast rps12 pre-mRNA. Plant Cell 18, 2650-2663 (2006). (Pubitemid 44749895)
-
(2006)
Plant Cell
, vol.18
, Issue.10
, pp. 2650-2663
-
-
Schmitz-Linneweber, C.1
Williams-Carrier, R.E.2
Williams-Voelker, P.M.3
Kroeger, T.S.4
Vichas, A.5
Barkan, A.6
-
106
-
-
0027942565
-
RNA editing: Transfer of genetic information from gRNA to precursor mRNA in vitro
-
Seiwert, S. D. & Stuart, K. RNA editing: transfer of genetic information from gRNA to precursor mRNA in vitro. Science 266, 114-117 (1994). (Pubitemid 24345330)
-
(1994)
Science
, vol.266
, Issue.5182
, pp. 114-117
-
-
Seiwert, S.D.1
Stuart, K.2
-
107
-
-
0026069611
-
Self-splicing introns in prokaryotes: Migrant fossils?
-
Belfort, M. Self-splicing introns in prokaryotes: migrant fossils? Cell 64, 9-11 (1991). (Pubitemid 121001134)
-
(1991)
Cell
, vol.64
, Issue.1
, pp. 9-11
-
-
Belfort, M.1
-
108
-
-
0001423441
-
Intervening sequence in the thymidylate synthase gene of bacteriophage T4
-
Chu, F. K., Maley, G. F., Maley, F. & Belfort, M. Intervening sequence in the thymidylate synthase gene of bacteriophage T4. Proc. Natl Acad. Sci. USA 81, 3049-3053 (1984). (Pubitemid 14109522)
-
(1984)
Proceedings of the National Academy of Sciences of the United States of America
, vol.81
, Issue.10
, pp. 3049-3053
-
-
Chu, F.K.1
Maley, G.F.2
Maley, F.3
Belfort, M.4
-
109
-
-
0037343641
-
Bacteria and Archaea Group II introns: Additional mobile genetic elements in the environment
-
DOI 10.1046/j.1462-2920.2003.00398.x
-
Toro, N. Bacteria and Archaea Group II introns: additional mobile genetic elements in the environment. Environ. Microbiol. 5, 143-151 (2003). (Pubitemid 36352434)
-
(2003)
Environmental Microbiology
, vol.5
, Issue.3
, pp. 143-151
-
-
Toro, N.1
-
110
-
-
78649637278
-
Proximity of the start codon to a leaderless mRNA's 5' terminus is a strong positive determinant of ribosome binding and expression in Escherichia coli
-
Krishnan, K. M., Van Etten, W. J. & Janssen, G. R. Proximity of the start codon to a leaderless mRNA's 5' terminus is a strong positive determinant of ribosome binding and expression in Escherichia coli. J. Bacteriol. 192, 6482-6485.
-
J. Bacteriol.
, vol.192
, pp. 6482-6485
-
-
Krishnan, K.M.1
Van Etten, W.J.2
Janssen, G.R.3
-
111
-
-
52949137901
-
Ribosomes bind leaderless mRNA in Escherichia coli through recognition of their 5'-terminal AUG
-
Brock, J. E., Pourshahian, S., Giliberti, J., Limbach, P. A. & Janssen, G. R. Ribosomes bind leaderless mRNA in Escherichia coli through recognition of their 5'-terminal AUG. RNA 14, 2159-2169 (2008).
-
(2008)
RNA
, vol.14
, pp. 2159-2169
-
-
Brock, J.E.1
Pourshahian, S.2
Giliberti, J.3
Limbach, P.A.4
Janssen, G.R.5
-
112
-
-
0036889040
-
Leaderless mRNAs bind 70S ribosomes more strongly than 30S ribosomal subunits in Escherichia coli
-
DOI 10.1128/JB.184.23.6730-6733.2002
-
O'Donnell, S. M. & Janssen, G. R. Leaderless mRNAs bind 70S ribosomes more strongly than 30S ribosomal subunits in Escherichia coli. J. Bacteriol. 184, 6730-6733 (2002). (Pubitemid 35332579)
-
(2002)
Journal of Bacteriology
, vol.184
, Issue.23
, pp. 6730-6733
-
-
O'Donnell, S.M.1
Janssen, G.R.2
-
113
-
-
3042690803
-
Translation initiation with 70S ribosomes: An alternative pathway for leaderless mRNAs
-
DOI 10.1093/nar/gkh663
-
Moll, I., Hirokawa, G., Kiel, M. C., Kaji, A. & Blasi, U. Translation initiation with 70S ribosomes: an alternative pathway for leaderless mRNAs. Nucleic Acids Res. 32, 3354-3363 (2004). (Pubitemid 39117451)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.11
, pp. 3354-3363
-
-
Moll, I.1
Hirokawa, G.2
Kiel, M.C.3
Kaji, A.4
Blasi, U.5
-
114
-
-
0034254538
-
Selective stimulation of translation of leaderless mRNA by initiation factor 2: Evolutionary implications for translation
-
Grill, S., Gualerzi, C. O., Londei, P. & Blasi, U. Selective stimulation of translation of leaderless mRNA by initiation factor 2: evolutionary implications for translation. EMBO J. 19, 4101-4110 (2000). (Pubitemid 30608548)
-
(2000)
EMBO Journal
, vol.19
, Issue.15
, pp. 4101-4110
-
-
Grill, S.1
Gualerzi, C.O.2
Londei, P.3
Blasi, U.4
-
115
-
-
0019426060
-
Attenuation in the control of expression of bacterial operons
-
DOI 10.1038/289751a0
-
Yanofsky, C. Attenuation in the control of expression of bacterial operons. Nature 289, 751-758 (1981). (Pubitemid 11150411)
-
(1981)
Nature
, vol.289
, Issue.5800
, pp. 751-758
-
-
Yanofsky, C.1
-
116
-
-
33644792751
-
MK box is a new SAM-binding RNA for translational regulation of SAM synthetase
-
DOI 10.1038/nsmb1059, PII N1059
-
MK box is a new SAM-binding RNA for translational regulation of SAM synthetase. Nature Struct. Mol. Biol. 13, 226-233 (2006). (Pubitemid 43348508)
-
(2006)
Nature Structural and Molecular Biology
, vol.13
, Issue.3
, pp. 226-233
-
-
Fuchs, R.T.1
Grundy, F.J.2
Henkin, T.M.3
-
117
-
-
34247625030
-
MK box translational riboswitch RNA
-
DOI 10.1073/pnas.0609956104
-
Fuchs, R. T., Grundy, F. J. & Henkin, T. M. S-adenosylmethionine directly inhibits binding of 30S ribosomal subunits to the SMK box translational riboswitch RNA. Proc. Natl Acad. Sci. USA 104, 4876-4880 (2007). (Pubitemid 47186144)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.12
, pp. 4876-4880
-
-
Fuchs, R.T.1
Grundy, F.J.2
Henkin, T.M.3
-
119
-
-
77956306662
-
Genome-wide measurement of RNA secondary structure in yeast
-
Kertesz, M. et al. Genome-wide measurement of RNA secondary structure in yeast. Nature 467, 103-107 (2010).
-
(2010)
Nature
, vol.467
, pp. 103-107
-
-
Kertesz, M.1
-
120
-
-
78649690492
-
FragSeq: Transcriptome-wide RNA structure probing using high-throughput sequencing
-
References 119 and 120 describe promising methods for determining RNA structure in bacteria
-
Underwood, J. G. et al. FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing. Nature Methods 7, 995-1001 (2010). References 119 and 120 describe promising methods for determining RNA structure in bacteria.
-
(2010)
Nature Methods
, vol.7
, pp. 995-1001
-
-
Underwood, J.G.1
-
121
-
-
3142774839
-
Topological domain structure of the Escherichia coli chromosome
-
DOI 10.1101/gad.1207504
-
Postow, L., Hardy, C. D., Arsuaga, J. & Cozzarelli, N. R. Topological domain structure of the Escherichia coli chromosome. Genes Dev. 18, 1766-1779 (2004). (Pubitemid 38938191)
-
(2004)
Genes and Development
, vol.18
, Issue.14
, pp. 1766-1779
-
-
Postow, L.1
Hardy, C.D.2
Arsuaga, J.3
Cozzarelli, N.R.4
-
122
-
-
18044363711
-
The choreographed dynamics of bacterial chromosomes
-
DOI 10.1016/j.tim.2005.03.006
-
Gitai, Z., Thanbichler, M. & Shapiro, L. The choreographed dynamics of bacterial chromosomes. Trends Microbiol. 13, 221-228 (2005). (Pubitemid 40603905)
-
(2005)
Trends in Microbiology
, vol.13
, Issue.5
, pp. 221-228
-
-
Gitai, Z.1
Thanbichler, M.2
Shapiro, L.3
-
123
-
-
76949089832
-
Bacterial nucleoid-associated proteins, nucleoid structure and gene expression
-
Dillon, S. C. & Dorman, C. J. Bacterial nucleoid-associated proteins, nucleoid structure and gene expression. Nature Rev. Microbiol. 8, 185-195 (2010).
-
(2010)
Nature Rev. Microbiol.
, vol.8
, pp. 185-195
-
-
Dillon, S.C.1
Dorman, C.J.2
-
124
-
-
11344266685
-
Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli
-
Peter, B. J. et al. Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli. Genome Biol. 5, R87 (2004).
-
(2004)
Genome Biol.
, vol.5
-
-
Peter, B.J.1
-
125
-
-
67651102745
-
Protein occupancy landscape of a bacterial genome
-
Vora, T., Hottes, A. K. & Tavazoie, S. Protein occupancy landscape of a bacterial genome. Mol. Cell 35, 247-253 (2009).
-
(2009)
Mol. Cell
, vol.35
, pp. 247-253
-
-
Vora, T.1
Hottes, A.K.2
Tavazoie, S.3
-
126
-
-
0024323320
-
Transcription mapping of the escherichia coli chromosome by electron microscopy
-
French, S. L. & Miller, O. L. Jr. Transcription mapping of the Escherichia coli chromosome by electron microscopy. J. Bacteriol. 171, 4207-4216 (1989). (Pubitemid 19190316)
-
(1989)
Journal of Bacteriology
, vol.171
, Issue.8
, pp. 4207-4216
-
-
French, S.L.1
Miller Jr., O.L.2
-
127
-
-
0033030028
-
Transcription- and translation-dependent changes in membrane dynamics in bacteria: Testing the transertion model for domain formation
-
DOI 10.1046/j.1365-2958.1999.01426.x
-
Binenbaum, Z., Parola, A. H., Zaritsky, A. & Fishov, I. Transcription-and translation-dependent changes in membrane dynamics in bacteria: testing the transertion model for domain formation. Mol. Microbiol. 32, 1173-1182 (1999). (Pubitemid 29286658)
-
(1999)
Molecular Microbiology
, vol.32
, Issue.6
, pp. 1173-1182
-
-
Binenbaum, Z.1
Parola, A.H.2
Zaritsky, A.3
Fishov, I.4
-
128
-
-
25144495578
-
Organization of supercoil domains and their reorganization by transcription
-
DOI 10.1111/j.1365-2958.2005.04796.x
-
Deng, S., Stein, R. A. & Higgins, N. P. Organization of supercoil domains and their reorganization by transcription. Mol. Microbiol. 57, 1511-1521 (2005). (Pubitemid 41337382)
-
(2005)
Molecular Microbiology
, vol.57
, Issue.6
, pp. 1511-1521
-
-
Deng, S.1
Stein, R.A.2
Higgins, N.P.3
-
129
-
-
0037083376
-
Capturing chromosome conformation
-
DOI 10.1126/science.1067799
-
Dekker, J., Rippe, K., Dekker, M. & Kleckner, N. Capturing chromosome conformation. Science 295, 1306-1311 (2002). (Pubitemid 34157624)
-
(2002)
Science
, vol.295
, Issue.5558
, pp. 1306-1311
-
-
Dekker, J.1
Rippe, K.2
Dekker, M.3
Kleckner, N.4
-
130
-
-
33749400168
-
Chromosome Conformation Capture Carbon Copy (5C): A massively parallel solution for mapping interactions between genomic elements
-
DOI 10.1101/gr.5571506
-
Dostie, J. et al. Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res. 16, 1299-1309 (2006). (Pubitemid 44506963)
-
(2006)
Genome Research
, vol.16
, Issue.10
, pp. 1299-1309
-
-
Dostie, J.1
Richmond, T.A.2
Arnaout, R.A.3
Selzer, R.R.4
Lee, W.L.5
Honan, T.A.6
Rubio, E.D.7
Krumm, A.8
Lamb, J.9
Nusbaum, C.10
Green, R.D.11
Dekker, J.12
-
131
-
-
80055118988
-
Hi-C: A method to study the three-dimensional architecture of genomes
-
doi: 10.3791/1869
-
van Berkum, N. L. et al. Hi-C: a method to study the three-dimensional architecture of genomes. http://www.jove.com/details.php?id=1869 doi: 10.3791/1869. J. Vis. Exp. 39 (2010).
-
(2010)
J. Vis. Exp.
, vol.39
-
-
Van Berkum, N.L.1
-
132
-
-
73949133990
-
Chromosome conformation capture (from 3C to 5C) and its ChIP-based modification
-
Vassetzky, Y. et al. Chromosome conformation capture (from 3C to 5C) and its ChIP-based modification. Methods Mol. Biol. 567, 171-188 (2009).
-
(2009)
Methods Mol. Biol.
, vol.567
, pp. 171-188
-
-
Vassetzky, Y.1
-
133
-
-
0036923833
-
Looping and interaction between hypersensitive sites in the active β-globin locus
-
DOI 10.1016/S1097-2765(02)00781-5
-
Tolhuis, B., Palstra, R. J., Splinter, E., Grosveld, F. & de Laat, W. Looping and interaction between hypersensitive sites in the active β-globin locus. Mol. Cell 10, 1453-1465 (2002). (Pubitemid 36050885)
-
(2002)
Molecular Cell
, vol.10
, Issue.6
, pp. 1453-1465
-
-
Tolhuis, B.1
Palstra, R.-J.2
Splinter, E.3
Grosveld, F.4
De Laat, W.5
-
134
-
-
78651330538
-
Chromosome conformation capture of transcriptional interactions between cytochrome c oxidase genes and genes of glutamatergic synaptic transmission in neurons
-
Dhar, S. S. & Wong-Riley, M. T. Chromosome conformation capture of transcriptional interactions between cytochrome c oxidase genes and genes of glutamatergic synaptic transmission in neurons. J. Neurochem. 115, 676-683 (2010).
-
(2010)
J. Neurochem.
, vol.115
, pp. 676-683
-
-
Dhar, S.S.1
Wong-Riley, M.T.2
-
135
-
-
77952744854
-
A three-dimensional model of the yeast genome
-
Duan, Z. et al. A three-dimensional model of the yeast genome. Nature 465, 363-367 (2010).
-
(2010)
Nature
, vol.465
, pp. 363-367
-
-
Duan, Z.1
-
136
-
-
33749246561
-
Epigenetic gene regulation in the bacterial world
-
DOI 10.1128/MMBR.00016-06
-
Casadesus, J. & Low, D. Epigenetic gene regulation in the bacterial world. Microbiol. Mol. Biol. Rev. 70, 830-856 (2006). (Pubitemid 44484694)
-
(2006)
Microbiology and Molecular Biology Reviews
, vol.70
, Issue.3
, pp. 830-856
-
-
Casadesus, J.1
Low, D.2
-
137
-
-
9244264945
-
Integrated regulatory responses of fimB to N-acetylneuraminic (sialic) acid and GlcNAc in Escherichia coli K-12
-
DOI 10.1073/pnas.0405821101
-
Sohanpal, B. K., El-Labany, S., Lahooti, M., Plumbridge, J. A. & Blomfield, I. C. Integrated regulatory responses of fimB to N-acetylneuraminic (sialic) acid and GlcNAc in Escherichia coli K-12. Proc. Natl Acad. Sci. USA 101, 16322-16327 (2004). (Pubitemid 39552843)
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.46
, pp. 16322-16327
-
-
Sohanpal, B.K.1
El-Labany, S.2
Lahooti, M.3
Plumbridge, J.A.4
Blomfield, I.C.5
-
138
-
-
0024993922
-
Regulation of pap pilin phase variation by a mechanism involving differential dam methylation states
-
Blyn, L. B., Braaten, B. A. & Low, D. A. Regulation of pap pilin phase variation by a mechanism involving differential dam methylation states. EMBO J. 9, 4045-4054 (1990).
-
(1990)
EMBO J.
, vol.9
, pp. 4045-4054
-
-
Blyn, L.B.1
Braaten, B.A.2
Low, D.A.3
-
139
-
-
74249117477
-
Epigenetic control of virulence gene expression in Pseudomonas aeruginosa by a LysR-type transcription regulator
-
Turner, K. H., Vallet-Gely, I. & Dove, S. L. Epigenetic control of virulence gene expression in Pseudomonas aeruginosa by a LysR-type transcription regulator. PLoS Genet. 5, e1000779 (2009).
-
(2009)
PLoS Genet.
, vol.5
-
-
Turner, K.H.1
Vallet-Gely, I.2
Dove, S.L.3
-
140
-
-
77952967431
-
Direct detection of DNA methylation during single-molecule, real-time sequencing
-
Flusberg, B. A. et al. Direct detection of DNA methylation during single-molecule, real-time sequencing. Nature Methods 7, 461-465 (2010).
-
(2010)
Nature Methods
, vol.7
, pp. 461-465
-
-
Flusberg, B.A.1
-
141
-
-
0030955552
-
Protein localization and cell fate in bacteria
-
DOI 10.1126/science.276.5313.712
-
Shapiro, L. & Losick, R. Protein localization and cell fate in bacteria. Science 276, 712-718 (1997). (Pubitemid 27199839)
-
(1997)
Science
, vol.276
, Issue.5313
, pp. 712-718
-
-
Shapiro, L.1
Losick, R.2
-
143
-
-
77954242830
-
Spatial organization of the flow of genetic information in bacteria
-
Llopis, P. M. et al. Spatial organization of the flow of genetic information in bacteria. Nature 466, 77-81 (2010).
-
(2010)
Nature
, vol.466
, pp. 77-81
-
-
Llopis, P.M.1
-
144
-
-
73349090560
-
Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells
-
Schoenfelder, S. et al. Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nature Genet. 42, 53-61 (2010).
-
(2010)
Nature Genet.
, vol.42
, pp. 53-61
-
-
Schoenfelder, S.1
-
145
-
-
79952066011
-
Translation-independent localization of mRNA in E
-
Nevo-Dinur, K., Nussbaum-Shochat, A., Ben-Yehuda, S. & Amster-Choder, O. Translation-independent localization of mRNA in E. coli. Science 331, 1081-1084 (2011).
-
(2011)
Coli. Science
, vol.331
, pp. 1081-1084
-
-
Nevo-Dinur, K.1
Nussbaum-Shochat, A.2
Ben-Yehuda, S.3
Amster-Choder, O.4
-
146
-
-
85011942139
-
Subcellular localization of RNA degrading proteins and protein complexes in prokaryotes
-
Evguenieva-Hackenberg, E., Roppelt, V., Lassek, C. & Klug, G. Subcellular localization of RNA degrading proteins and protein complexes in prokaryotes. RNA Biol. 8, 49-54 (2011).
-
(2011)
RNA Biol.
, vol.8
, pp. 49-54
-
-
Evguenieva-Hackenberg, E.1
Roppelt, V.2
Lassek, C.3
Klug, G.4
-
147
-
-
0032562720
-
Visualization of single RNA transcripts in situ
-
DOI 10.1126/science.280.5363.585
-
Femino, A. M., Fay, F. S., Fogarty, K. & Singer, R. H. Visualization of single RNA transcripts in situ. Science 280, 585-590 (1998). (Pubitemid 28227761)
-
(1998)
Science
, vol.280
, Issue.5363
, pp. 585-590
-
-
Femino, A.M.1
Fay, F.S.2
Fogarty, K.3
Singer, R.H.4
-
148
-
-
67349101852
-
Single molecule-sensitive probes for imaging RNA in live cells
-
Santangelo, P. J. et al. Single molecule-sensitive probes for imaging RNA in live cells. Nature Methods 6, 347-349 (2009).
-
(2009)
Nature Methods
, vol.6
, pp. 347-349
-
-
Santangelo, P.J.1
-
149
-
-
77955102352
-
Quantifying E. coli proteome and transcriptome with single molecule sensitivity in single cells
-
Taniguchi, Y. et al. Quantifying E. coli proteome and transcriptome with single molecule sensitivity in single cells. Science 329, 533-538 (2010).
-
(2010)
Science
, vol.329
, pp. 533-538
-
-
Taniguchi, Y.1
-
150
-
-
34249932435
-
Probing transcription factor dynamics at the single-molecule level in a living cell
-
DOI 10.1126/science.1141967
-
Elf, J., Li, G. W. & Xie, X. S. Probing transcription factor dynamics at the single molecule level in a living cell. Science 316, 1191-1194 (2007). (Pubitemid 46877481)
-
(2007)
Science
, vol.316
, Issue.5828
, pp. 1191-1194
-
-
Elf, J.1
Li, G.-W.2
Xie, X.S.3
-
151
-
-
33645293152
-
An excitable gene regulatory circuit induces transient cellular differentiation
-
Suel, G. M., Garcia-Ojalvo, J., Liberman, L. M. & Elowitz, M. B. An excitable gene regulatory circuit induces transient cellular differentiation. Nature 440, 545-550 (2006).
-
(2006)
Nature
, vol.440
, pp. 545-550
-
-
Suel, G.M.1
Garcia-Ojalvo, J.2
Liberman, L.M.3
Elowitz, M.B.4
-
152
-
-
67349146589
-
MRNA-Seq whole-transcriptome analysis of a single cell
-
Tang, F. et al. mRNA-Seq whole-transcriptome analysis of a single cell. Nature Methods 6, 377-382 (2009).
-
(2009)
Nature Methods
, vol.6
, pp. 377-382
-
-
Tang, F.1
-
153
-
-
25144476232
-
A genetic selection for supercoiling mutants of Escherichia coli reveals proteins implicated in chromosome structure
-
DOI 10.1111/j.1365-2958.2005.04799.x
-
Hardy, C. D. & Cozzarelli, N. R. A genetic selection for supercoiling mutants of Escherichia coli reveals proteins implicated in chromosome structure. Mol. Microbiol. 57, 1636-1652 (2005). (Pubitemid 41337392)
-
(2005)
Molecular Microbiology
, vol.57
, Issue.6
, pp. 1636-1652
-
-
Hardy, C.D.1
Cozzarelli, N.R.2
-
154
-
-
70449701942
-
Sense from sequence reads: Methods for alignment and assembly
-
Flicek, P. & Birney, E. Sense from sequence reads: methods for alignment and assembly. Nature Methods 6, S6-S12 (2009).
-
(2009)
Nature Methods
, vol.6
-
-
Flicek, P.1
Birney, E.2
-
155
-
-
40049104732
-
SOAP: Short oligonucleotide alignment program
-
DOI 10.1093/bioinformatics/btn025
-
Li, R., Li, Y., Kristiansen, K. & Wang, J. SOAP: short oligonucleotide alignment program. Bioinformatics 24, 713-714 (2008). (Pubitemid 351321217)
-
(2008)
Bioinformatics
, vol.24
, Issue.5
, pp. 713-714
-
-
Li, R.1
Li, Y.2
Kristiansen, K.3
Wang, J.4
-
156
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores
-
Li, H., Ruan, J. & Durbin, R. Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res. 18, 1851-1858 (2008).
-
(2008)
Genome Res.
, vol.18
, pp. 1851-1858
-
-
Li, H.1
Ruan, J.2
Durbin, R.3
-
157
-
-
62349130698
-
Ultrafast and memory efficient alignment of short DNA sequences to the human genome
-
Langmead, B., Trapnell, C., Pop, M. & Salzberg, S. L. Ultrafast and memory efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009).
-
(2009)
Genome Biol.
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
158
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
159
-
-
67650711615
-
SOAP2: An improved ultrafast tool for short read alignment
-
Li, R. et al. SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25, 1966-1967 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1966-1967
-
-
Li, R.1
-
160
-
-
79957938596
-
Transcript amplification from single bacterium for transcriptome analysis
-
Kang, Y. et al. Transcript amplification from single bacterium for transcriptome analysis, Genome Res. 32, 925-935 (2011).
-
(2011)
Genome Res.
, vol.32
, pp. 925-935
-
-
Kang, Y.1
|