-
1
-
-
61949133492
-
A pseudouridine synthase homologue is critical to cellular differentiation in Toxoplasma gondii
-
M.Z. Anderson, J. Brewer, U. Singh, and J.C. Boothroyd A pseudouridine synthase homologue is critical to cellular differentiation in Toxoplasma gondii Eukaryotic Cell 8 2009 398 409
-
(2009)
Eukaryotic Cell
, vol.8
, pp. 398-409
-
-
Anderson, M.Z.1
Brewer, J.2
Singh, U.3
Boothroyd, J.C.4
-
2
-
-
0033546399
-
Pseudouridine synthetase pus1 of Saccharomyces cerevisiae: Kinetic characterisation, tRNA structural requirement and real-time analysis of its complex with tRNA
-
V. Arluison, M. Buckle, and H. Grosjean Pseudouridine synthetase pus1 of Saccharomyces cerevisiae: Kinetic characterisation, tRNA structural requirement and real-time analysis of its complex with tRNA Journal of Molecular Biology 289 1999 491 502
-
(1999)
Journal of Molecular Biology
, vol.289
, pp. 491-502
-
-
Arluison, V.1
Buckle, M.2
Grosjean, H.3
-
3
-
-
0027438034
-
Four newly located pseudouridylate residues in Escherichia coli 23S ribosomal RNA are all at the peptidyltransferase center: Analysis by the application of a new sequencing technique
-
A. Bakin, and J. Ofengand Four newly located pseudouridylate residues in Escherichia coli 23S ribosomal RNA are all at the peptidyltransferase center: Analysis by the application of a new sequencing technique Biochemistry 32 1993 9754 9762
-
(1993)
Biochemistry
, vol.32
, pp. 9754-9762
-
-
Bakin, A.1
Ofengand, J.2
-
4
-
-
2442691791
-
Missense mutation in pseudouridine synthase 1 (PUS1) causes mitochondrial myopathy and sideroblastic anemia (MLASA)
-
Y. Bykhovskaya, K. Casas, E. Mengesha, A. Inbal, and N. Fischel-Ghodsian Missense mutation in pseudouridine synthase 1 (PUS1) causes mitochondrial myopathy and sideroblastic anemia (MLASA) American Journal of Human Genetics 74 2004 1303 1308
-
(2004)
American Journal of Human Genetics
, vol.74
, pp. 1303-1308
-
-
Bykhovskaya, Y.1
Casas, K.2
Mengesha, E.3
Inbal, A.4
Fischel-Ghodsian, N.5
-
5
-
-
78651335915
-
The RNA modification database, RNAMDB: 2011 update
-
W.A. Cantara, P.F. Crain, J. Rozenski, J.A. McCloskey, K.A. Harris, X. Zhang, and et al. The RNA modification database, RNAMDB: 2011 update Nucleic Acids Research 39 2011 D195 D201
-
(2011)
Nucleic Acids Research
, vol.39
, pp. D195-D201
-
-
Cantara, W.A.1
Crain, P.F.2
Rozenski, J.3
McCloskey, J.A.4
Harris, K.A.5
Zhang, X.6
-
6
-
-
84922180958
-
Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells
-
T.M. Carlile, M.F. Rojas-Duran, B. Zinshteyn, H. Shin, K.M. Bartoli, and W.V. Gilbert Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells Nature 515 2014 143 146
-
(2014)
Nature
, vol.515
, pp. 143-146
-
-
Carlile, T.M.1
Rojas-Duran, M.F.2
Zinshteyn, B.3
Shin, H.4
Bartoli, K.M.5
Gilbert, W.V.6
-
7
-
-
0033935223
-
Pseudouridine in RNA: What, where, how, and why
-
M. Charette, and M.W. Gray Pseudouridine in RNA: What, where, how, and why IUBMB Life 49 2000 341 351
-
(2000)
IUBMB Life
, vol.49
, pp. 341-351
-
-
Charette, M.1
Gray, M.W.2
-
8
-
-
0018198062
-
Modified nucleotides in T1 RNase oligonucleotides of 18S ribosomal RNA of the Novikoff hepatoma
-
Y.C. Choi, and H. Busch Modified nucleotides in T1 RNase oligonucleotides of 18S ribosomal RNA of the Novikoff hepatoma Biochemistry 17 1978 2551 2560
-
(1978)
Biochemistry
, vol.17
, pp. 2551-2560
-
-
Choi, Y.C.1
Busch, H.2
-
9
-
-
0000661146
-
Pseudouridine, a carbon-carbon linked ribonucleoside in ribonucleic acids: Isolation, structure, and chemical characteristics
-
W.E. Cohn Pseudouridine, a carbon-carbon linked ribonucleoside in ribonucleic acids: Isolation, structure, and chemical characteristics The Journal of Biological Chemistry 235 1960 1488 1498
-
(1960)
The Journal of Biological Chemistry
, vol.235
, pp. 1488-1498
-
-
Cohn, W.E.1
-
11
-
-
84893684258
-
28S rRNA is inducibly pseudouridylated by the mTOR pathway translational control in CHO cell cultures
-
F.C. Courtes, C. Gu, N.S.C. Wong, P.C. Dedon, M.G.S. Yap, and D.-Y. Lee 28S rRNA is inducibly pseudouridylated by the mTOR pathway translational control in CHO cell cultures Journal of Biotechnology 174 2014 16 21
-
(2014)
Journal of Biotechnology
, vol.174
, pp. 16-21
-
-
Courtes, F.C.1
Gu, C.2
Wong, N.S.C.3
Dedon, P.C.4
Yap, M.G.S.5
Lee, D.-Y.6
-
12
-
-
0000568977
-
Ribonucleic acids from yeast which contain a fifth nucleotide
-
F.F. Davis, and F.W. Allen Ribonucleic acids from yeast which contain a fifth nucleotide The Journal of Biological Chemistry 227 1957 907 915
-
(1957)
The Journal of Biological Chemistry
, vol.227
, pp. 907-915
-
-
Davis, F.F.1
Allen, F.W.2
-
13
-
-
84860779086
-
Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
-
D. Dominissini, S. Moshitch-Moshkovitz, S. Schwartz, M. Salmon-Divon, L. Ungar, S. Osenberg, and et al. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq Nature 485 2013 201 206
-
(2013)
Nature
, vol.485
, pp. 201-206
-
-
Dominissini, D.1
Moshitch-Moshkovitz, S.2
Schwartz, S.3
Salmon-Divon, M.4
Ungar, L.5
Osenberg, S.6
-
14
-
-
40849139057
-
Improving CMC-derivatization of pseudouridine in RNA for mass spectrometric detection
-
A. Durairaj, and P.A. Limbach Improving CMC-derivatization of pseudouridine in RNA for mass spectrometric detection Analytica Chimica Acta 612 2008 173 181
-
(2008)
Analytica Chimica Acta
, vol.612
, pp. 173-181
-
-
Durairaj, A.1
Limbach, P.A.2
-
16
-
-
84881477474
-
Unusual base pairing during the decoding of a stop codon by the ribosome
-
I.S. Fernández, C.L. Ng, A.C. Kelley, G. Wu, Y.-T. Yu, and V. Ramakrishnan Unusual base pairing during the decoding of a stop codon by the ribosome Nature 500 2013 107 110
-
(2013)
Nature
, vol.500
, pp. 107-110
-
-
Fernández, I.S.1
Ng, C.L.2
Kelley, A.C.3
Wu, G.4
Yu, Y.-T.5
Ramakrishnan, V.6
-
17
-
-
0030711050
-
Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs
-
P. Ganot, M.L. Bortolin, and T. Kiss Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs Cell 89 1997 565 573
-
(1997)
Cell
, vol.89
, pp. 565-573
-
-
Ganot, P.1
Bortolin, M.L.2
Kiss, T.3
-
18
-
-
84875514519
-
RNA pseudouridylation: New insights into an old modification
-
J. Ge, and Y.-T. Yu RNA pseudouridylation: New insights into an old modification Trends in Biochemical Sciences 38 2013 210 218
-
(2013)
Trends in Biochemical Sciences
, vol.38
, pp. 210-218
-
-
Ge, J.1
Yu, Y.-T.2
-
19
-
-
0018787015
-
Rapid print-readout technique for sequencing of RNA's containing modified nucleotides
-
R.C. Gupta, and K. Randerath Rapid print-readout technique for sequencing of RNA's containing modified nucleotides Nucleic Acids Research 6 1979 3443 3458
-
(1979)
Nucleic Acids Research
, vol.6
, pp. 3443-3458
-
-
Gupta, R.C.1
Randerath, K.2
-
20
-
-
0031799895
-
X-linked dyskeratosis congenita is caused by mutations in a highly conserved gene with putative nucleolar functions
-
N.S. Heiss, S.W. Knight, T.J. Vulliamy, S.M. Klauck, S. Wiemann, P.J. Mason, and et al. X-linked dyskeratosis congenita is caused by mutations in a highly conserved gene with putative nucleolar functions Nature Genetics 19 1998 32 38
-
(1998)
Nature Genetics
, vol.19
, pp. 32-38
-
-
Heiss, N.S.1
Knight, S.W.2
Vulliamy, T.J.3
Klauck, S.M.4
Wiemann, S.5
Mason, P.J.6
-
22
-
-
84886027613
-
Thermodynamic contribution and nearest-neighbor parameters of pseudouridine-adenosine base pairs in oligoribonucleotides
-
G.A. Hudson, R.J. Bloomingdale, and B.M. Znosko Thermodynamic contribution and nearest-neighbor parameters of pseudouridine-adenosine base pairs in oligoribonucleotides RNA 19 2013 1474 1482
-
(2013)
RNA
, vol.19
, pp. 1474-1482
-
-
Hudson, G.A.1
Bloomingdale, R.J.2
Znosko, B.M.3
-
23
-
-
34247329067
-
Cis-acting determinants of asymmetric, cytoplasmic RNA transport
-
A. Jambhekar, and J.L. DeRisi Cis-acting determinants of asymmetric, cytoplasmic RNA transport RNA 13 2007 625 642
-
(2007)
RNA
, vol.13
, pp. 625-642
-
-
Jambhekar, A.1
Derisi, J.L.2
-
24
-
-
79959284255
-
Converting nonsense codons into sense codons by targeted pseudouridylation
-
J. Karijolich, and Y.-T. Yu Converting nonsense codons into sense codons by targeted pseudouridylation Nature 474 2011 395 398
-
(2011)
Nature
, vol.474
, pp. 395-398
-
-
Karijolich, J.1
Yu, Y.-T.2
-
25
-
-
84876996918
-
TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
-
D. Kim, G. Pertea, C. Trapnell, H. Pimentel, R. Kelley, and S.L. Salzberg TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions Genome Biology 14 2013 R36
-
(2013)
Genome Biology
, vol.14
, pp. R36
-
-
Kim, D.1
Pertea, G.2
Trapnell, C.3
Pimentel, H.4
Kelley, R.5
Salzberg, S.L.6
-
26
-
-
64849114915
-
Coding-sequence determinants of gene expression in Escherichia coli
-
G. Kudla, A.W. Murray, D. Tollervey, and J.B. Plotkin Coding-sequence determinants of gene expression in Escherichia coli Science 324 2009 255 258
-
(2009)
Science
, vol.324
, pp. 255-258
-
-
Kudla, G.1
Murray, A.W.2
Tollervey, D.3
Plotkin, J.B.4
-
27
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
B. Langmead, C. Trapnell, M. Pop, and S.L. Salzberg Ultrafast and memory-efficient alignment of short DNA sequences to the human genome Genome Biology 10 2009 R25
-
(2009)
Genome Biology
, vol.10
, pp. R25
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
28
-
-
66349122954
-
Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing
-
J.B. Li, E.Y. Levanon, J.-K. Yoon, J. Aach, B. Xie, E. Leproust, and et al. Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing Science 324 2009 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
Leproust, E.6
-
29
-
-
84908626586
-
Transcriptome-wide mapping of pseudouridines: Pseudouridine synthases modify specific mRNAs in S. Cerevisiae
-
A.F. Lovejoy, D.P. Riordan, and P.O. Brown Transcriptome-wide mapping of pseudouridines: Pseudouridine synthases modify specific mRNAs in S. Cerevisiae PLoS One 9 2014 e110799
-
(2014)
PLoS One
, vol.9
, pp. e110799
-
-
Lovejoy, A.F.1
Riordan, D.P.2
Brown, P.O.3
-
30
-
-
80255127234
-
Cutadapt removes adapter sequences from high-throughput sequencing reads
-
M. Martin Cutadapt removes adapter sequences from high-throughput sequencing reads EMBnet Journal 17 2011 10 12
-
(2011)
EMBnet Journal
, vol.17
, pp. 10-12
-
-
Martin, M.1
-
31
-
-
84861697187
-
Small nucleolar RNA 42 acts as an oncogene in lung tumorigenesis
-
Y.-P. Mei, J.-P. Liao, J. Shen, L. Yu, B.-L. Liu, L. Liu, and et al. Small nucleolar RNA 42 acts as an oncogene in lung tumorigenesis Oncogene 31 2011 2794 2804
-
(2011)
Oncogene
, vol.31
, pp. 2794-2804
-
-
Mei, Y.-P.1
Liao, J.-P.2
Shen, J.3
Yu, L.4
Liu, B.-L.5
Liu, L.6
-
32
-
-
84862649489
-
Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons
-
K.D. Meyer, Y. Saletore, P. Zumbo, O. Elemento, C.E. Mason, and S.R. Jaffrey Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons Cell 149 2012 1635 1646
-
(2012)
Cell
, vol.149
, pp. 1635-1646
-
-
Meyer, K.D.1
Saletore, Y.2
Zumbo, P.3
Elemento, O.4
Mason, C.E.5
Jaffrey, S.R.6
-
34
-
-
84893736852
-
Quantitative analysis of rRNA modifications using stable isotope labeling and mass spectrometry
-
A.M. Popova, and J.R. Williamson Quantitative analysis of rRNA modifications using stable isotope labeling and mass spectrometry Journal of the American Chemical Society 136 2014 2058 2069
-
(2014)
Journal of the American Chemical Society
, vol.136
, pp. 2058-2069
-
-
Popova, A.M.1
Williamson, J.R.2
-
36
-
-
84907527348
-
Transcriptome-wide mapping reveals widespread dynamic-regulated pseudouridylation of ncRNA and mRNA
-
S. Schwartz, D.A. Bernstein, M.R. Mumbach, M. Jovanovic, R.H. Herbst, B.X. León-Ricardo, and et al. Transcriptome-wide mapping reveals widespread dynamic-regulated pseudouridylation of ncRNA and mRNA Cell 159 2014 148 162
-
(2014)
Cell
, vol.159
, pp. 148-162
-
-
Schwartz, S.1
Bernstein, D.A.2
Mumbach, M.R.3
Jovanovic, M.4
Herbst, R.H.5
León-Ricardo, B.X.6
-
37
-
-
84879345901
-
Rate-limiting steps in yeast protein translation
-
P. Shah, Y. Ding, M. Niemczyk, G. Kudla, and J.B. Plotkin Rate-limiting steps in yeast protein translation Cell 153 2013 1589 1601
-
(2013)
Cell
, vol.153
, pp. 1589-1601
-
-
Shah, P.1
Ding, Y.2
Niemczyk, M.3
Kudla, G.4
Plotkin, J.B.5
-
39
-
-
84860751168
-
Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA
-
J.E. Squires, H.R. Patel, M. Nousch, T. Sibbritt, D.T. Humphreys, B.J. Parker, and et al. Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA Nucleic Acids Research 40 2012 5023 5033
-
(2012)
Nucleic Acids Research
, vol.40
, pp. 5023-5033
-
-
Squires, J.E.1
Patel, H.R.2
Nousch, M.3
Sibbritt, T.4
Humphreys, D.T.5
Parker, B.J.6
-
40
-
-
84897571308
-
Poly(A)-tail profiling reveals an embryonic switch in translational control
-
A.O. Subtelny, S.W. Eichhorn, G.R. Chen, H. Sive, and D.P. Bartel Poly(A)-tail profiling reveals an embryonic switch in translational control Nature 508 2014 66 71
-
(2014)
Nature
, vol.508
, pp. 66-71
-
-
Subtelny, A.O.1
Eichhorn, S.W.2
Chen, G.R.3
Sive, H.4
Bartel, D.P.5
-
41
-
-
84863012654
-
Tiling genomes of pathogenic viruses identifies potent antiviral shRNAs and reveals a role for secondary structure in shRNA efficacy
-
X. Tan, Z.J. Lu, G. Gao, Q. Xu, L. Hu, C. Fellmann, and et al. Tiling genomes of pathogenic viruses identifies potent antiviral shRNAs and reveals a role for secondary structure in shRNA efficacy Proceedings of the National Academy of Sciences of the United States of America 109 2012 869 874
-
(2012)
Proceedings of the National Academy of Sciences of the United States of America
, vol.109
, pp. 869-874
-
-
Tan, X.1
Lu, Z.J.2
Gao, G.3
Xu, Q.4
Hu, L.5
Fellmann, C.6
-
42
-
-
0019332378
-
An improved direct RNA sequence method; Its application to Vida faba 5.8S ribosomal RNA
-
Y. Tanaka, T.A. Dyer, and G.G. Brownlee An improved direct RNA sequence method; its application to Vida faba 5.8S ribosomal RNA Nucleic Acids Research 8 1980 1259 1272
-
(1980)
Nucleic Acids Research
, vol.8
, pp. 1259-1272
-
-
Tanaka, Y.1
Dyer, T.A.2
Brownlee, G.G.3
-
43
-
-
0032541654
-
RNA-catalysed nucleotide synthesis
-
P.J. Unrau, and D.P. Bartel RNA-catalysed nucleotide synthesis Nature 395 1998 260 263
-
(1998)
Nature
, vol.395
, pp. 260-263
-
-
Unrau, P.J.1
Bartel, D.P.2
-
44
-
-
65549084855
-
RNA sequence and two-dimensional structure features required for efficient substrate modification by the Saccharomyces cerevisiae RNA:Ψ-synthase Pus7p
-
A. Urban, I. Behm-Ansmant, C. Branlant, and Y. Motorin RNA sequence and two-dimensional structure features required for efficient substrate modification by the Saccharomyces cerevisiae RNA:Ψ-synthase Pus7p Journal of Biological Chemistry 284 2009 5845 5858
-
(2009)
Journal of Biological Chemistry
, vol.284
, pp. 5845-5858
-
-
Urban, A.1
Behm-Ansmant, I.2
Branlant, C.3
Motorin, Y.4
-
45
-
-
78650905534
-
U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP
-
G. Wu, M. Xiao, C. Yang, and Y.-T. Yu U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP The EMBO Journal 30 2011 79 89
-
(2011)
The EMBO Journal
, vol.30
, pp. 79-89
-
-
Wu, G.1
Xiao, M.2
Yang, C.3
Yu, Y.-T.4
-
46
-
-
2442643944
-
Detection and quantitation of RNA base modifications
-
X.L. Zhao, and Y.T. Yu Detection and quantitation of RNA base modifications RNA 10 2004 996 1002
-
(2004)
RNA
, vol.10
, pp. 996-1002
-
-
Zhao, X.L.1
Yu, Y.T.2
|