-
1
-
-
80455143581
-
X chromosome inactivation: a silence that needs to be broken
-
Basu R, Zhang LF, (2011) X chromosome inactivation: a silence that needs to be broken. Genesis 49: 821-834.
-
(2011)
Genesis
, vol.49
, pp. 821-834
-
-
Basu, R.1
Zhang, L.F.2
-
2
-
-
79961209289
-
A "mille-feuille" of silencing: epigenetic control of transposable elements
-
Rigal M, Mathieu O, (2011) A "mille-feuille" of silencing: epigenetic control of transposable elements. Biochim Biophys Acta 1809: 452-458.
-
(2011)
Biochim Biophys Acta
, vol.1809
, pp. 452-458
-
-
Rigal, M.1
Mathieu, O.2
-
3
-
-
32644447756
-
Post-transcriptional nucleotide modification and alternative folding of RNA
-
Helm M, (2006) Post-transcriptional nucleotide modification and alternative folding of RNA. Nucleic Acids Res 34: 721-733.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 721-733
-
-
Helm, M.1
-
4
-
-
77953656943
-
tRNA stabilization by modified nucleotides
-
Motorin Y, Helm M, (2010) tRNA stabilization by modified nucleotides. Biochemistry 49: 4934-4944.
-
(2010)
Biochemistry
, vol.49
, pp. 4934-4944
-
-
Motorin, Y.1
Helm, M.2
-
5
-
-
78149448558
-
Function and detection of 5-methylcytosine in eukaryotic RNA
-
Squires JE, Preiss T, (2010) Function and detection of 5-methylcytosine in eukaryotic RNA. Epigenomics 2: 709-715.
-
(2010)
Epigenomics
, vol.2
, pp. 709-715
-
-
Squires, J.E.1
Preiss, T.2
-
6
-
-
0027442943
-
5-Methylcytidine is required for cooperative binding of Mg2+ and a conformational transition at the anticodon stem-loop of yeast phenylalanine tRNA
-
Chen Y, Sierzputowska-Gracz H, Guenther R, Everett K, Agris PF, (1993) 5-Methylcytidine is required for cooperative binding of Mg2+ and a conformational transition at the anticodon stem-loop of yeast phenylalanine tRNA. Biochemistry 32: 10249-10253.
-
(1993)
Biochemistry
, vol.32
, pp. 10249-10253
-
-
Chen, Y.1
Sierzputowska-Gracz, H.2
Guenther, R.3
Everett, K.4
Agris, P.F.5
-
7
-
-
0022751167
-
Effect of intron mutations on processing and function of Saccharomyces cerevisiae SUP53 tRNA in vitro and in vivo
-
Strobel MC, Abelson J, (1986) Effect of intron mutations on processing and function of Saccharomyces cerevisiae SUP53 tRNA in vitro and in vivo. Mol Cell Biol 6: 2663-2673.
-
(1986)
Mol Cell Biol
, vol.6
, pp. 2663-2673
-
-
Strobel, M.C.1
Abelson, J.2
-
8
-
-
78650683942
-
A quantitative systems approach reveals dynamic control of tRNA modifications during cellular stress
-
Chan CT, Dyavaiah M, DeMott MS, Taghizadeh K, Dedon PC, et al. (2010) A quantitative systems approach reveals dynamic control of tRNA modifications during cellular stress. PLoS Genet 6: e1001247.
-
(2010)
PLoS Genet
, vol.6
-
-
Chan, C.T.1
Dyavaiah, M.2
DeMott, M.S.3
Taghizadeh, K.4
Dedon, P.C.5
-
9
-
-
77955884641
-
RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage
-
Schaefer M, Pollex T, Hanna K, Tuorto F, Meusburger M, et al. (2010) RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage. Genes Dev 24: 1590-1595.
-
(2010)
Genes Dev
, vol.24
, pp. 1590-1595
-
-
Schaefer, M.1
Pollex, T.2
Hanna, K.3
Tuorto, F.4
Meusburger, M.5
-
10
-
-
35648960799
-
Expanding the nucleotide repertoire of the ribosome with post-transcriptional modifications
-
Chow CS, Lamichhane TN, Mahto SK, (2007) Expanding the nucleotide repertoire of the ribosome with post-transcriptional modifications. ACS Chem Biol 2: 610-619.
-
(2007)
ACS Chem Biol
, vol.2
, pp. 610-619
-
-
Chow, C.S.1
Lamichhane, T.N.2
Mahto, S.K.3
-
11
-
-
34548722786
-
Identifying modifications in RNA by MALDI mass spectrometry
-
Douthwaite S, Kirpekar F, (2007) Identifying modifications in RNA by MALDI mass spectrometry. Methods Enzymol 425: 1-20.
-
(2007)
Methods Enzymol
, vol.425
, pp. 1-20
-
-
Douthwaite, S.1
Kirpekar, F.2
-
12
-
-
34250796195
-
Post-transcriptional modification mapping in the Clostridium acetobutylicum 16S rRNA by mass spectrometry and reverse transcriptase assays
-
Emmerechts G, Barbe S, Herdewijn P, Anne J, Rozenski J, (2007) Post-transcriptional modification mapping in the Clostridium acetobutylicum 16S rRNA by mass spectrometry and reverse transcriptase assays. Nucleic Acids Res 35: 3494-3503.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 3494-3503
-
-
Emmerechts, G.1
Barbe, S.2
Herdewijn, P.3
Anne, J.4
Rozenski, J.5
-
13
-
-
0016285746
-
Identification of methylated nucleosides in messenger RNA from Novikoff hepatoma cells
-
Desrosiers R, Friderici K, Rottman F, (1974) Identification of methylated nucleosides in messenger RNA from Novikoff hepatoma cells. Proc Natl Acad Sci U S A 71: 3971-3975.
-
(1974)
Proc Natl Acad Sci U S A
, vol.71
, pp. 3971-3975
-
-
Desrosiers, R.1
Friderici, K.2
Rottman, F.3
-
14
-
-
0016751899
-
Characterization of Novikoff hepatoma mRNA methylation and heterogeneity in the methylated 5′ terminus
-
Desrosiers RC, Friderici KH, Rottman FM, (1975) Characterization of Novikoff hepatoma mRNA methylation and heterogeneity in the methylated 5′ terminus. Biochemistry 14: 4367-4374.
-
(1975)
Biochemistry
, vol.14
, pp. 4367-4374
-
-
Desrosiers, R.C.1
Friderici, K.H.2
Rottman, F.M.3
-
15
-
-
0017296194
-
5′-Terminal and internal methylated nucleotide sequences in HeLa cell mRNA
-
Wei CM, Gershowitz A, Moss B, (1976) 5′-Terminal and internal methylated nucleotide sequences in HeLa cell mRNA. Biochemistry 15: 397-401.
-
(1976)
Biochemistry
, vol.15
, pp. 397-401
-
-
Wei, C.M.1
Gershowitz, A.2
Moss, B.3
-
16
-
-
0016809932
-
The methylated constituents of L cell messenger RNA: evidence for an unusual cluster at the 5′ terminus
-
Perry RP, Kelley DE, Friderici K, Rottman F, (1975) The methylated constituents of L cell messenger RNA: evidence for an unusual cluster at the 5′ terminus. Cell 4: 387-394.
-
(1975)
Cell
, vol.4
, pp. 387-394
-
-
Perry, R.P.1
Kelley, D.E.2
Friderici, K.3
Rottman, F.4
-
17
-
-
0016797245
-
Methylation of Sindbis virus "26S" messenger RNA
-
Dubin DT, Stollar V, (1975) Methylation of Sindbis virus "26S" messenger RNA. Biochem Biophys Res Commun 66: 1373-1379.
-
(1975)
Biochem Biophys Res Commun
, vol.66
, pp. 1373-1379
-
-
Dubin, D.T.1
Stollar, V.2
-
18
-
-
0016712078
-
The methylation state of poly A-containing messenger RNA from cultured hamster cells
-
Dubin DT, Taylor RH, (1975) The methylation state of poly A-containing messenger RNA from cultured hamster cells. Nucleic Acids Res 2: 1653-1668.
-
(1975)
Nucleic Acids Res
, vol.2
, pp. 1653-1668
-
-
Dubin, D.T.1
Taylor, R.H.2
-
19
-
-
0017647722
-
Sindbis virus messenger RNA: the 5′-termini and methylated residues of 26 and 42 S RNA
-
Dubin DT, Stollar V, Hsuchen CC, Timko K, Guild GM, (1977) Sindbis virus messenger RNA: the 5′-termini and methylated residues of 26 and 42 S RNA. Virology 77: 457-470.
-
(1977)
Virology
, vol.77
, pp. 457-470
-
-
Dubin, D.T.1
Stollar, V.2
Hsuchen, C.C.3
Timko, K.4
Guild, G.M.5
-
20
-
-
84860751168
-
Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA
-
Squires JE, Patel HR, Nousch M, Sibbritt T, Humphreys DT, et al. (2012) Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA. Nucleic Acids Res 40: 5023-5033.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 5023-5033
-
-
Squires, J.E.1
Patel, H.R.2
Nousch, M.3
Sibbritt, T.4
Humphreys, D.T.5
-
22
-
-
61449515589
-
DNA methylation analysis by bisulfite conversion, cloning, and sequencing of individual clones
-
Zhang Y, Rohde C, Tierling S, Stamerjohanns H, Reinhardt R, et al. (2009) DNA methylation analysis by bisulfite conversion, cloning, and sequencing of individual clones. Methods Mol Biol 507: 177-187.
-
(2009)
Methods Mol Biol
, vol.507
, pp. 177-187
-
-
Zhang, Y.1
Rohde, C.2
Tierling, S.3
Stamerjohanns, H.4
Reinhardt, R.5
-
23
-
-
84856498057
-
DNA methylome analysis using short bisulfite sequencing data
-
Krueger F, Kreck B, Franke A, Andrews SR, (2012) DNA methylome analysis using short bisulfite sequencing data. Nat Methods 9: 145-151.
-
(2012)
Nat Methods
, vol.9
, pp. 145-151
-
-
Krueger, F.1
Kreck, B.2
Franke, A.3
Andrews, S.R.4
-
24
-
-
0036311202
-
Identification and resolution of artifacts in bisulfite sequencing
-
Warnecke PM, Stirzaker C, Song J, Grunau C, Melki JR, et al. (2002) Identification and resolution of artifacts in bisulfite sequencing. Methods 27: 101-107.
-
(2002)
Methods
, vol.27
, pp. 101-107
-
-
Warnecke, P.M.1
Stirzaker, C.2
Song, J.3
Grunau, C.4
Melki, J.R.5
-
25
-
-
33646806139
-
YebU is a m5C methyltransferase specific for 16 S rRNA nucleotide 1407
-
Andersen NM, Douthwaite S, (2006) YebU is a m5C methyltransferase specific for 16 S rRNA nucleotide 1407. J Mol Biol 359: 777-786.
-
(2006)
J Mol Biol
, vol.359
, pp. 777-786
-
-
Andersen, N.M.1
Douthwaite, S.2
-
26
-
-
0026455198
-
Methylation sites in Escherichia coli ribosomal RNA: localization and identification of four new sites of methylation in 23S rRNA
-
Smith JE, Cooperman BS, Mitchell P, (1992) Methylation sites in Escherichia coli ribosomal RNA: localization and identification of four new sites of methylation in 23S rRNA. Biochemistry 31: 10825-10834.
-
(1992)
Biochemistry
, vol.31
, pp. 10825-10834
-
-
Smith, J.E.1
Cooperman, B.S.2
Mitchell, P.3
-
27
-
-
0033050006
-
Purification, cloning, and characterization of the 16S RNA m5C967 methyltransferase from Escherichia coli
-
Tscherne JS, Nurse K, Popienick P, Michel H, Sochacki M, et al. (1999) Purification, cloning, and characterization of the 16S RNA m5C967 methyltransferase from Escherichia coli. Biochemistry 38: 1884-1892.
-
(1999)
Biochemistry
, vol.38
, pp. 1884-1892
-
-
Tscherne, J.S.1
Nurse, K.2
Popienick, P.3
Michel, H.4
Sochacki, M.5
-
28
-
-
58149191269
-
MODOMICS: a database of RNA modification pathways. 2008 update
-
Czerwoniec A, Dunin-Horkawicz S, Purta E, Kaminska KH, Kasprzak JM, et al. (2009) MODOMICS: a database of RNA modification pathways. 2008 update. Nucleic Acids Res 37: D118-121.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Czerwoniec, A.1
Dunin-Horkawicz, S.2
Purta, E.3
Kaminska, K.H.4
Kasprzak, J.M.5
-
29
-
-
0032455220
-
Posttranscriptional modifications in 16S and 23S rRNAs of the archaeal hyperthermophile Sulfolobus solfataricus
-
Noon KR, Bruenger E, McCloskey JA, (1998) Posttranscriptional modifications in 16S and 23S rRNAs of the archaeal hyperthermophile Sulfolobus solfataricus. J Bacteriol 180: 2883-2888.
-
(1998)
J Bacteriol
, vol.180
, pp. 2883-2888
-
-
Noon, K.R.1
Bruenger, E.2
McCloskey, J.A.3
-
30
-
-
0019856178
-
The primary and secondary structure of yeast 26S rRNA
-
Veldman GM, Klootwijk J, de Regt VC, Planta RJ, Branlant C, et al. (1981) The primary and secondary structure of yeast 26S rRNA. Nucleic Acids Res 9: 6935-6952.
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 6935-6952
-
-
Veldman, G.M.1
Klootwijk, J.2
de Regt, V.C.3
Planta, R.J.4
Branlant, C.5
-
31
-
-
77950476036
-
5-methylcytosine in RNA: detection, enzymatic formation and biological functions
-
Motorin Y, Lyko F, Helm M, (2010) 5-methylcytosine in RNA: detection, enzymatic formation and biological functions. Nucleic Acids Res 38: 1415-1430.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 1415-1430
-
-
Motorin, Y.1
Lyko, F.2
Helm, M.3
-
32
-
-
0032821744
-
Multisite-specific tRNA:m5C-methyltransferase (Trm4) in yeast Saccharomyces cerevisiae: identification of the gene and substrate specificity of the enzyme
-
Motorin Y, Grosjean H, (1999) Multisite-specific tRNA:m5C-methyltransferase (Trm4) in yeast Saccharomyces cerevisiae: identification of the gene and substrate specificity of the enzyme. Rna 5: 1105-1118.
-
(1999)
Rna
, vol.5
, pp. 1105-1118
-
-
Motorin, Y.1
Grosjean, H.2
-
33
-
-
77956340995
-
Comprehensive comparative analysis of strand-specific RNA sequencing methods
-
Levin JZ, Yassour M, Adiconis X, Nusbaum C, Thompson DA, et al. (2010) Comprehensive comparative analysis of strand-specific RNA sequencing methods. Nat Methods 7: 709-715.
-
(2010)
Nat Methods
, vol.7
, pp. 709-715
-
-
Levin, J.Z.1
Yassour, M.2
Adiconis, X.3
Nusbaum, C.4
Thompson, D.A.5
-
34
-
-
70350710509
-
Development of a novel output value for quantitative assessment in methylated DNA immunoprecipitation-CpG island microarray analysis
-
Yamashita S, Hosoya K, Gyobu K, Takeshima H, Ushijima T, (2009) Development of a novel output value for quantitative assessment in methylated DNA immunoprecipitation-CpG island microarray analysis. DNA Res 16: 275-286.
-
(2009)
DNA Res
, vol.16
, pp. 275-286
-
-
Yamashita, S.1
Hosoya, K.2
Gyobu, K.3
Takeshima, H.4
Ushijima, T.5
-
35
-
-
84860779086
-
Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
-
Dominissini D, Moshitch-Moshkovitz S, Schwartz S, Salmon-Divon M, Ungar L, et al. (2012) Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485: 201-206.
-
(2012)
Nature
, vol.485
, pp. 201-206
-
-
Dominissini, D.1
Moshitch-Moshkovitz, S.2
Schwartz, S.3
Salmon-Divon, M.4
Ungar, L.5
-
36
-
-
80054106097
-
RNA editing adds flavor to complexity
-
Sie CP, Kuchka M, (2011) RNA editing adds flavor to complexity. Biochemistry (Mosc) 76: 869-881.
-
(2011)
Biochemistry (Mosc)
, vol.76
, pp. 869-881
-
-
Sie, C.P.1
Kuchka, M.2
-
37
-
-
0032475871
-
Substrate recognition of tRNA (Guanosine-2′-)-methyltransferase from Thermus thermophilus HB27
-
Hori H, Yamazaki N, Matsumoto T, Watanabe Y, Ueda T, et al. (1998) Substrate recognition of tRNA (Guanosine-2′-)-methyltransferase from Thermus thermophilus HB27. J Biol Chem 273: 25721-25727.
-
(1998)
J Biol Chem
, vol.273
, pp. 25721-25727
-
-
Hori, H.1
Yamazaki, N.2
Matsumoto, T.3
Watanabe, Y.4
Ueda, T.5
-
38
-
-
0031985443
-
Structural requirements for enzymatic formation of threonylcarbamoyladenosine (t6A) in tRNA: an in vivo study with Xenopus laevis oocytes
-
Morin A, Auxilien S, Senger B, Tewari R, Grosjean H, (1998) Structural requirements for enzymatic formation of threonylcarbamoyladenosine (t6A) in tRNA: an in vivo study with Xenopus laevis oocytes. Rna 4: 24-37.
-
(1998)
Rna
, vol.4
, pp. 24-37
-
-
Morin, A.1
Auxilien, S.2
Senger, B.3
Tewari, R.4
Grosjean, H.5
-
39
-
-
33845599493
-
Identification of human tRNA:m5C methyltransferase catalysing intron-dependent m5C formation in the first position of the anticodon of the pre-tRNA Leu (CAA)
-
Brzezicha B, Schmidt M, Makalowska I, Jarmolowski A, Pienkowska J, et al. (2006) Identification of human tRNA:m5C methyltransferase catalysing intron-dependent m5C formation in the first position of the anticodon of the pre-tRNA Leu (CAA). Nucleic Acids Res 34: 6034-6043.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 6034-6043
-
-
Brzezicha, B.1
Schmidt, M.2
Makalowska, I.3
Jarmolowski, A.4
Pienkowska, J.5
-
40
-
-
66349122954
-
Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing
-
Li JB, Levanon EY, Yoon JK, Aach J, Xie B, et al. (2009) Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing. Science 324: 1210-1213.
-
(2009)
Science
, vol.324
, pp. 1210-1213
-
-
Li, J.B.1
Levanon, E.Y.2
Yoon, J.K.3
Aach, J.4
Xie, B.5
-
41
-
-
58149191272
-
tRNAdb 2009: compilation of tRNA sequences and tRNA genes
-
Juhling F, Morl M, Hartmann RK, Sprinzl M, Stadler PF, et al. (2009) tRNAdb 2009: compilation of tRNA sequences and tRNA genes. Nucleic Acids Res 37: D159-162.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Juhling, F.1
Morl, M.2
Hartmann, R.K.3
Sprinzl, M.4
Stadler, P.F.5
-
42
-
-
2142738304
-
WebLogo: a sequence logo generator
-
Crooks GE, Hon G, Chandonia JM, Brenner SE, (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
|