-
1
-
-
33847698971
-
The relationship between non-protein-coding DNA and eukaryotic complexity
-
R.J. Taft, M. Pheasant, and J.S. Mattick The relationship between non-protein-coding DNA and eukaryotic complexity BioEssays 29 2007 288 299
-
(2007)
BioEssays
, vol.29
, pp. 288-299
-
-
Taft, R.J.1
Pheasant, M.2
Mattick, J.S.3
-
2
-
-
0035656688
-
Non-coding RNA genes and the modern RNA world
-
S.R. Eddy Non-coding RNA genes and the modern RNA world Nat Rev Genet 2 2001 919 929
-
(2001)
Nat Rev Genet
, vol.2
, pp. 919-929
-
-
Eddy, S.R.1
-
3
-
-
84867603353
-
Computational analysis of noncoding RNAs
-
S. Washietl, S. Will, D.A. Hendrix, L.A. Goff, J.L. Rinn, and B. Berger et al. Computational analysis of noncoding RNAs Wiley Interdiscip Rev RNA 3 2012 759 778
-
(2012)
Wiley Interdiscip Rev RNA
, vol.3
, pp. 759-778
-
-
Washietl, S.1
Will, S.2
Hendrix, D.A.3
Goff, L.A.4
Rinn, J.L.5
Berger, B.6
-
4
-
-
33846283385
-
The evolution of gene regulation by transcription factors and microRNAs
-
K. Chen, and N. Rajewsky The evolution of gene regulation by transcription factors and microRNAs Nat Rev Genet 8 2007 93 103
-
(2007)
Nat Rev Genet
, vol.8
, pp. 93-103
-
-
Chen, K.1
Rajewsky, N.2
-
5
-
-
84883214592
-
Sizing up long non-coding RNAs: Do lncRNAs have secondary and tertiary structure?
-
I.V. Novikova, S.P. Hennelly, and K.Y. Sanbonmatsu Sizing up long non-coding RNAs: do lncRNAs have secondary and tertiary structure? Bioarchitecture 2 2012 189 199
-
(2012)
Bioarchitecture
, vol.2
, pp. 189-199
-
-
Novikova, I.V.1
Hennelly, S.P.2
Sanbonmatsu, K.Y.3
-
6
-
-
80052973462
-
Prospects for riboswitch discovery and analysis
-
R.R. Breaker Prospects for riboswitch discovery and analysis Mol Cell 43 2011 867 879
-
(2011)
Mol Cell
, vol.43
, pp. 867-879
-
-
Breaker, R.R.1
-
7
-
-
71449114713
-
Exceptional structured noncoding RNAs revealed by bacterial metagenome analysis
-
Z. Weinberg, J. Perreault, M.M. Meyer, and R.R. Breaker Exceptional structured noncoding RNAs revealed by bacterial metagenome analysis Nature 462 2009 656 659
-
(2009)
Nature
, vol.462
, pp. 656-659
-
-
Weinberg, Z.1
Perreault, J.2
Meyer, M.M.3
Breaker, R.R.4
-
8
-
-
24644443227
-
The functional genomics of noncoding RNA
-
J.S. Mattick The functional genomics of noncoding RNA Science 309 2005 1527 1528
-
(2005)
Science
, vol.309
, pp. 1527-1528
-
-
Mattick, J.S.1
-
9
-
-
77952581350
-
Long non-coding RNAs in nervous system function and disease
-
I.A. Qureshi, J.S. Mattick, and M.F. Mehler Long non-coding RNAs in nervous system function and disease Brain Res 1338 2010 20 35
-
(2010)
Brain Res
, vol.1338
, pp. 20-35
-
-
Qureshi, I.A.1
Mattick, J.S.2
Mehler, M.F.3
-
10
-
-
60149099385
-
Evolution and functions of long noncoding RNAs
-
C.P. Ponting, P.L. Oliver, and W. Reik Evolution and functions of long noncoding RNAs Cell 136 2009 629 641
-
(2009)
Cell
, vol.136
, pp. 629-641
-
-
Ponting, C.P.1
Oliver, P.L.2
Reik, W.3
-
11
-
-
80051989609
-
Understanding the transcriptome through RNA structure
-
Y. Wan, M. Kertesz, R.C. Spitale, E. Segal, and H.Y. Chang Understanding the transcriptome through RNA structure Nat Rev Genet 12 2011 641 655
-
(2011)
Nat Rev Genet
, vol.12
, pp. 641-655
-
-
Wan, Y.1
Kertesz, M.2
Spitale, R.C.3
Segal, E.4
Chang, H.Y.5
-
12
-
-
84861405805
-
Metabolite recognition principles and molecular mechanisms underlying riboswitch function
-
A. Serganov, and D.J. Patel Metabolite recognition principles and molecular mechanisms underlying riboswitch function Annu Rev Biophys 41 2012 343 370
-
(2012)
Annu Rev Biophys
, vol.41
, pp. 343-370
-
-
Serganov, A.1
Patel, D.J.2
-
13
-
-
38349100453
-
Synthetic antibodies for specific recognition and crystallization of structured RNA
-
J.D. Ye, V. Tereshko, J.K. Frederiksen, A. Koide, F.A. Fellouse, and S.S. Sidhu et al. Synthetic antibodies for specific recognition and crystallization of structured RNA Proc Natl Acad Sci U S A 105 2008 82 87
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 82-87
-
-
Ye, J.D.1
Tereshko, V.2
Frederiksen, J.K.3
Koide, A.4
Fellouse, F.A.5
Sidhu, S.S.6
-
14
-
-
80455145019
-
Improvement of the crystallizability and expression of an RNA crystallization chaperone
-
P.P. Ravindran, A. Heroux, and J.D. Ye Improvement of the crystallizability and expression of an RNA crystallization chaperone J Biochem 150 2011 535 543
-
(2011)
J Biochem
, vol.150
, pp. 535-543
-
-
Ravindran, P.P.1
Heroux, A.2
Ye, J.D.3
-
15
-
-
78650986853
-
A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination
-
Y. Koldobskaya, E.M. Duguid, D.M. Shechner, N.B. Suslov, J. Ye, and S.S. Sidhu et al. A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination Nat Struct Mol Biol 18 2011 100 106
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 100-106
-
-
Koldobskaya, Y.1
Duguid, E.M.2
Shechner, D.M.3
Suslov, N.B.4
Ye, J.5
Sidhu, S.S.6
-
16
-
-
4344596976
-
Crystallization of RNA and RNA-protein complexes
-
A. Ke, and J.A. Doudna Crystallization of RNA and RNA-protein complexes Methods 34 2004 408 414
-
(2004)
Methods
, vol.34
, pp. 408-414
-
-
Ke, A.1
Doudna, J.A.2
-
18
-
-
78651390167
-
Long intergenic noncoding RNAs: New links in cancer progression
-
M.C. Tsai, R.C. Spitale, and H.Y. Chang Long intergenic noncoding RNAs: new links in cancer progression Cancer Res 71 2011 3 7
-
(2011)
Cancer Res
, vol.71
, pp. 3-7
-
-
Tsai, M.C.1
Spitale, R.C.2
Chang, H.Y.3
-
19
-
-
81355142141
-
Non-coding RNAs in human disease
-
M. Esteller Non-coding RNAs in human disease Nat Rev Genet 12 2011 861 874
-
(2011)
Nat Rev Genet
, vol.12
, pp. 861-874
-
-
Esteller, M.1
-
20
-
-
79551674253
-
Expression and functional role of a transcribed noncoding RNA with an ultraconserved element in hepatocellular carcinoma
-
C. Braconi, N. Valeri, T. Kogure, P. Gasparini, N. Huang, and G.J. Nuovo et al. Expression and functional role of a transcribed noncoding RNA with an ultraconserved element in hepatocellular carcinoma Proc Natl Acad Sci U S A 108 2011 786 791
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 786-791
-
-
Braconi, C.1
Valeri, N.2
Kogure, T.3
Gasparini, P.4
Huang, N.5
Nuovo, G.J.6
-
21
-
-
34548230885
-
Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas
-
G.A. Calin, C.G. Liu, M. Ferracin, T. Hyslop, R. Spizzo, and C. Sevignani et al. Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas Cancer Cell 12 2007 215 229
-
(2007)
Cancer Cell
, vol.12
, pp. 215-229
-
-
Calin, G.A.1
Liu, C.G.2
Ferracin, M.3
Hyslop, T.4
Spizzo, R.5
Sevignani, C.6
-
22
-
-
78649881517
-
CpG island hypermethylation-associated silencing of non-coding RNAs transcribed from ultraconserved regions in human cancer
-
A. Lujambio, A. Portela, J. Liz, S.A. Melo, S. Rossi, and R. Spizzo et al. CpG island hypermethylation-associated silencing of non-coding RNAs transcribed from ultraconserved regions in human cancer Oncogene 29 2010 6390 6401
-
(2010)
Oncogene
, vol.29
, pp. 6390-6401
-
-
Lujambio, A.1
Portela, A.2
Liz, J.3
Melo, S.A.4
Rossi, S.5
Spizzo, R.6
-
23
-
-
46749083733
-
Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of beta-secretase
-
M.A. Faghihi, F. Modarresi, A.M. Khalil, D.E. Wood, B.G. Sahagan, and T.E. Morgan et al. Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of beta-secretase Nat Med 14 2008 723 730
-
(2008)
Nat Med
, vol.14
, pp. 723-730
-
-
Faghihi, M.A.1
Modarresi, F.2
Khalil, A.M.3
Wood, D.E.4
Sahagan, B.G.5
Morgan, T.E.6
-
24
-
-
78549267206
-
Enrichment of ultraconserved elements among genomic imbalances causing mental delay and congenital anomalies
-
F. Martinez, S. Monfort, M. Rosello, S. Oltra, D. Blesa, and R. Quiroga et al. Enrichment of ultraconserved elements among genomic imbalances causing mental delay and congenital anomalies BMC Med Genomics 3 2010 54
-
(2010)
BMC Med Genomics
, vol.3
, pp. 54
-
-
Martinez, F.1
Monfort, S.2
Rosello, M.3
Oltra, S.4
Blesa, D.5
Quiroga, R.6
-
25
-
-
49449111926
-
Mechanisms of imprinting of the Prader-Willi/Angelman region
-
B. Horsthemke, and J. Wagstaff Mechanisms of imprinting of the Prader-Willi/Angelman region Am J Med Genet A 146A 2008 2041 2052
-
(2008)
Am J Med Genet A
, vol.146 A
, pp. 2041-2052
-
-
Horsthemke, B.1
Wagstaff, J.2
-
26
-
-
33645798851
-
The fluorescent toolbox for assessing protein location and function
-
B.N. Giepmans, S.R. Adams, M.H. Ellisman, and R.Y. Tsien The fluorescent toolbox for assessing protein location and function Science 312 2006 217 224
-
(2006)
Science
, vol.312
, pp. 217-224
-
-
Giepmans, B.N.1
Adams, S.R.2
Ellisman, M.H.3
Tsien, R.Y.4
-
27
-
-
34848848421
-
High-throughput generation of synthetic antibodies from highly functional minimalist phage-displayed libraries
-
F.A. Fellouse, K. Esaki, S. Birtalan, D. Raptis, V.J. Cancasci, and A. Koide et al. High-throughput generation of synthetic antibodies from highly functional minimalist phage-displayed libraries J Mol Biol 373 2007 924 940
-
(2007)
J Mol Biol
, vol.373
, pp. 924-940
-
-
Fellouse, F.A.1
Esaki, K.2
Birtalan, S.3
Raptis, D.4
Cancasci, V.J.5
Koide, A.6
-
28
-
-
84865181878
-
T cell receptor-like recognition of tumor in vivo by synthetic antibody fragment
-
K.R. Miller, A. Koide, B. Leung, J. Fitzsimmons, B. Yoder, and H. Yuan et al. T cell receptor-like recognition of tumor in vivo by synthetic antibody fragment PLoS One 7 2012 e43746
-
(2012)
PLoS One
, vol.7
, pp. 43746
-
-
Miller, K.R.1
Koide, A.2
Leung, B.3
Fitzsimmons, J.4
Yoder, B.5
Yuan, H.6
-
29
-
-
84866430881
-
Synthetic antibodies: Concepts, potential and practical considerations
-
S. Miersch, and S.S. Sidhu Synthetic antibodies: concepts, potential and practical considerations Methods 57 2012 486 498
-
(2012)
Methods
, vol.57
, pp. 486-498
-
-
Miersch, S.1
Sidhu, S.S.2
-
30
-
-
4344714933
-
Synthetic antibodies from a four-amino-acid code: A dominant role for tyrosine in antigen recognition
-
F.A. Fellouse, C. Wiesmann, and S.S. Sidhu Synthetic antibodies from a four-amino-acid code: a dominant role for tyrosine in antigen recognition Proc Natl Acad Sci U S A 101 2004 12467 12472
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 12467-12472
-
-
Fellouse, F.A.1
Wiesmann, C.2
Sidhu, S.S.3
-
31
-
-
18044377989
-
Molecular recognition by a binary code
-
F.A. Fellouse, B. Li, D.M. Compaan, A.A. Peden, S.G. Hymowitz, and S.S. Sidhu Molecular recognition by a binary code J Mol Biol 348 2005 1153 1162
-
(2005)
J Mol Biol
, vol.348
, pp. 1153-1162
-
-
Fellouse, F.A.1
Li, B.2
Compaan, D.M.3
Peden, A.A.4
Hymowitz, S.G.5
Sidhu, S.S.6
-
32
-
-
34250721751
-
Exploring and designing protein function with restricted diversity
-
S.S. Sidhu, and A.A. Kossiakoff Exploring and designing protein function with restricted diversity Curr Opin Chem Biol 11 2007 347 354
-
(2007)
Curr Opin Chem Biol
, vol.11
, pp. 347-354
-
-
Sidhu, S.S.1
Kossiakoff, A.A.2
-
33
-
-
0015247402
-
Attempts to locate complementarity-determining residues in the variable positions of light and heavy chains
-
E.A. Kabat, and T.T. Wu Attempts to locate complementarity-determining residues in the variable positions of light and heavy chains Ann N Y Acad Sci 190 1971 382 393
-
(1971)
Ann N y Acad Sci
, vol.190
, pp. 382-393
-
-
Kabat, E.A.1
Wu, T.T.2
-
34
-
-
1842609526
-
Phage-displayed antibody libraries of synthetic heavy chain complementarity determining regions
-
S.S. Sidhu, B. Li, Y. Chen, F.A. Fellouse, C. Eigenbrot, and G. Fuh Phage-displayed antibody libraries of synthetic heavy chain complementarity determining regions J Mol Biol 338 2004 299 310
-
(2004)
J Mol Biol
, vol.338
, pp. 299-310
-
-
Sidhu, S.S.1
Li, B.2
Chen, Y.3
Fellouse, F.A.4
Eigenbrot, C.5
Fuh, G.6
-
35
-
-
0032800593
-
Experimental models of protein-RNA interaction: Isolation and analyses of tRNA(Phe) and U1 snRNA-binding peptides from bacteriophage display libraries
-
P.F. Agris, M.T. Marchbank, W. Newman, R. Guenther, P. Ingram, and J. Swallow et al. Experimental models of protein-RNA interaction: isolation and analyses of tRNA(Phe) and U1 snRNA-binding peptides from bacteriophage display libraries J Protein Chem 18 1999 425 435
-
(1999)
J Protein Chem
, vol.18
, pp. 425-435
-
-
Agris, P.F.1
Marchbank, M.T.2
Newman, W.3
Guenther, R.4
Ingram, P.5
Swallow, J.6
-
36
-
-
0032727991
-
Themes in RNA-protein recognition
-
D.E. Draper Themes in RNA-protein recognition J Mol Biol 293 1999 255 270
-
(1999)
J Mol Biol
, vol.293
, pp. 255-270
-
-
Draper, D.E.1
-
37
-
-
2642699794
-
Rapid and efficient site-specific mutagenesis without phenotypic selection
-
T.A. Kunkel Rapid and efficient site-specific mutagenesis without phenotypic selection Proc Natl Acad Sci U S A 82 1985 488 492
-
(1985)
Proc Natl Acad Sci U S A
, vol.82
, pp. 488-492
-
-
Kunkel, T.A.1
-
40
-
-
0035085466
-
Structural basis of the enhanced stability of a mutant ribozyme domain and a detailed view of RNA-solvent interactions
-
K. Juneau, E. Podell, D.J. Harrington, and T.R. Cech Structural basis of the enhanced stability of a mutant ribozyme domain and a detailed view of RNA-solvent interactions Structure 9 2001 221 231
-
(2001)
Structure
, vol.9
, pp. 221-231
-
-
Juneau, K.1
Podell, E.2
Harrington, D.J.3
Cech, T.R.4
-
41
-
-
38049025288
-
Chemical basis of glycine riboswitch cooperativity
-
M. Kwon, and S.A. Strobel Chemical basis of glycine riboswitch cooperativity RNA 14 2008 25 34
-
(2008)
RNA
, vol.14
, pp. 25-34
-
-
Kwon, M.1
Strobel, S.A.2
-
42
-
-
84857438025
-
An energetically beneficial leader-linker interaction abolishes ligand-binding cooperativity in glycine riboswitches
-
E.M. Sherman, J. Esquiaqui, G. Elsayed, and J.D. Ye An energetically beneficial leader-linker interaction abolishes ligand-binding cooperativity in glycine riboswitches RNA 18 2012 496 507
-
(2012)
RNA
, vol.18
, pp. 496-507
-
-
Sherman, E.M.1
Esquiaqui, J.2
Elsayed, G.3
Ye, J.D.4
-
43
-
-
5044234799
-
A glycine-dependent riboswitch that uses cooperative binding to control gene expression
-
M. Mandal, M. Lee, J.E. Barrick, Z. Weinberg, G.M. Emilsson, and W.L. Ruzzo et al. A glycine-dependent riboswitch that uses cooperative binding to control gene expression Science 306 2004 275 279
-
(2004)
Science
, vol.306
, pp. 275-279
-
-
Mandal, M.1
Lee, M.2
Barrick, J.E.3
Weinberg, Z.4
Emilsson, G.M.5
Ruzzo, W.L.6
-
44
-
-
79953052076
-
Structural basis of cooperative ligand binding by the glycine riboswitch
-
E.B. Butler, Y. Xiong, J. Wang, and S.A. Strobel Structural basis of cooperative ligand binding by the glycine riboswitch Chem Biol 18 2011 293 298
-
(2011)
Chem Biol
, vol.18
, pp. 293-298
-
-
Butler, E.B.1
Xiong, Y.2
Wang, J.3
Strobel, S.A.4
-
45
-
-
0034823943
-
Statistical analysis of atomic contacts at RNA-protein interfaces
-
M. Treger, and E. Westhof Statistical analysis of atomic contacts at RNA-protein interfaces J Mol Recognit 14 2001 199 214
-
(2001)
J Mol Recognit
, vol.14
, pp. 199-214
-
-
Treger, M.1
Westhof, E.2
-
46
-
-
26444619105
-
Discovering the interaction propensities of amino acids and nucleotides from protein-RNA complexes
-
E. Jeong, H. Kim, S.W. Lee, and K. Han Discovering the interaction propensities of amino acids and nucleotides from protein-RNA complexes Mol Cell 16 2003 161 167
-
(2003)
Mol Cell
, vol.16
, pp. 161-167
-
-
Jeong, E.1
Kim, H.2
Lee, S.W.3
Han, K.4
-
47
-
-
40849097408
-
The intrinsic contributions of tyrosine, serine, glycine and arginine to the affinity and specificity of antibodies
-
S. Birtalan, Y. Zhang, F.A. Fellouse, L. Shao, G. Schaefer, and S.S. Sidhu The intrinsic contributions of tyrosine, serine, glycine and arginine to the affinity and specificity of antibodies J Mol Biol 377 2008 1518 1528
-
(2008)
J Mol Biol
, vol.377
, pp. 1518-1528
-
-
Birtalan, S.1
Zhang, Y.2
Fellouse, F.A.3
Shao, L.4
Schaefer, G.5
Sidhu, S.S.6
-
48
-
-
40849147457
-
Riboswitches that sense S-adenosylhomocysteine and activate genes involved in coenzyme recycling
-
J.X. Wang, E.R. Lee, D.R. Morales, J. Lim, and R.R. Breaker Riboswitches that sense S-adenosylhomocysteine and activate genes involved in coenzyme recycling Mol Cell 29 2008 691 702
-
(2008)
Mol Cell
, vol.29
, pp. 691-702
-
-
Wang, J.X.1
Lee, E.R.2
Morales, D.R.3
Lim, J.4
Breaker, R.R.5
-
49
-
-
79851499341
-
Comparative study between transcriptionally- and translationally-acting adenine riboswitches reveals key differences in riboswitch regulatory mechanisms
-
J.F. Lemay, G. Desnoyers, S. Blouin, B. Heppell, L. Bastet, and P. St-Pierre et al. Comparative study between transcriptionally- and translationally-acting adenine riboswitches reveals key differences in riboswitch regulatory mechanisms PLoS Genet 7 2011 e1001278
-
(2011)
PLoS Genet
, vol.7
, pp. 1001278
-
-
Lemay, J.F.1
Desnoyers, G.2
Blouin, S.3
Heppell, B.4
Bastet, L.5
St-Pierre, P.6
-
50
-
-
0027050148
-
Recursive PCR: A novel technique for total gene synthesis
-
C. Prodromou, and L.H. Pearl Recursive PCR: a novel technique for total gene synthesis Protein Eng 5 1992 827 829
-
(1992)
Protein Eng
, vol.5
, pp. 827-829
-
-
Prodromou, C.1
Pearl, L.H.2
-
51
-
-
44149103156
-
A conserved element that stabilizes the group II intron active site
-
O. Fedorova, and A.M. Pyle A conserved element that stabilizes the group II intron active site RNA 14 2008 1048 1056
-
(2008)
RNA
, vol.14
, pp. 1048-1056
-
-
Fedorova, O.1
Pyle, A.M.2
|