-
1
-
-
33745786874
-
Recombination R-triplex: H-bonds contribution to stability as revealed with minor base substitutions for adenine
-
Shchyolkina, A.K., Kaluzhny, D.N., Arndt-Jovin, D.J., Jovin, T.M. & Zhurkin, V.B. Recombination R-triplex: H-bonds contribution to stability as revealed with minor base substitutions for adenine. Nucleic Acids Res. 34, 3239-3245 (2006).
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 3239-3245
-
-
Shchyolkina, A.K.1
Kaluzhny, D.N.2
Arndt-Jovin, D.J.3
Jovin, T.M.4
Zhurkin, V.B.5
-
2
-
-
0037432340
-
Role of a heterogeneous free state in the formation of a specifc RNA-theophylline complex
-
Jucker, F.M., Phillips, R.M., McCallum, S.A. & Pardi, A. Role of a heterogeneous free state in the formation of a specifc RNA-theophylline complex. Biochemistry 42, 2560-2567 (2003).
-
(2003)
Biochemistry
, vol.42
, pp. 2560-2567
-
-
Jucker, F.M.1
Phillips, R.M.2
McCallum, S.A.3
Pardi, A.4
-
3
-
-
70350639272
-
High density labeling of polymerase chain reaction products with the fuorescent base analogue tCo
-
Stengel, G., Urban, M., Purse, B.W. & Kuchta, R.D. High density labeling of polymerase chain reaction products with the fuorescent base analogue tCo. Anal. Chem. 81, 9079-9085 (2009).
-
(2009)
Anal. Chem.
, vol.81
, pp. 9079-9085
-
-
Stengel, G.1
Urban, M.2
Purse, B.W.3
Kuchta, R.D.4
-
4
-
-
76149108425
-
Incorporation of the fuorescent ribonucleotide analogue tCTP by T7 RNA polymerase
-
Stengel, G., Urban, M., Purse, B.W. & Kuchta, R.D. Incorporation of the fuorescent ribonucleotide analogue tCTP by T7 RNA polymerase. Anal. Chem. 82, 1082-1089 (2010).
-
(2010)
Anal. Chem.
, vol.82
, pp. 1082-1089
-
-
Stengel, G.1
Urban, M.2
Purse, B.W.3
Kuchta, R.D.4
-
5
-
-
60149088502
-
Structural rearrangements linked to global folding pathways of the Azoarcus group i ribozyme
-
Chauhan, S., Behrouzi, R., Rangan, P. & Woodson, S.A. Structural rearrangements linked to global folding pathways of the Azoarcus group I ribozyme. J. Mol. Biol. 386, 1167-1178 (2009).
-
(2009)
J. Mol. Biol.
, vol.386
, pp. 1167-1178
-
-
Chauhan, S.1
Behrouzi, R.2
Rangan, P.3
Woodson, S.A.4
-
6
-
-
68349148711
-
The use of 2-aminopurine fuorescence to study DNA polymerase function
-
Reha-Krantz, L.J. The use of 2-aminopurine fuorescence to study DNA polymerase function. Methods Mol. Biol. 521, 381-396 (2009).
-
(2009)
Methods Mol. Biol.
, vol.521
, pp. 381-396
-
-
Reha-Krantz, L.J.1
-
7
-
-
67849103980
-
Nucleic acid base analog FRET-pair facilitating detailed structural measurements in nucleic acid containing systems
-
Borjesson, K. et al. Nucleic acid base analog FRET-pair facilitating detailed structural measurements in nucleic acid containing systems. J. Am. Chem. Soc. 131, 4288-4293 (2009).
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 4288-4293
-
-
Borjesson, K.1
-
8
-
-
41149092164
-
Fluorescence of size-expanded DNA bases: Reporting on DNA sequence and structure with an unnatural genetic set
-
Krueger, A.T. & Kool, E.T. Fluorescence of size-expanded DNA bases: reporting on DNA sequence and structure with an unnatural genetic set. J. Am. Chem. Soc. 130, 3989-3999 (2008).
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 3989-3999
-
-
Krueger, A.T.1
Kool, E.T.2
-
9
-
-
67651163670
-
Highly effcient incorporation of the fuorescent nucleotide analogs tC and tCo by Klenow fragment
-
Sandin, P. et al. Highly effcient incorporation of the fuorescent nucleotide analogs tC and tCo by Klenow fragment. Nucleic Acids Res. 37, 3924-3933 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 3924-3933
-
-
Sandin, P.1
-
10
-
-
68249131738
-
Ambivalent incorporation of the fuorescent cytosine analogues tC and tCo by human DNA polymerase alpha and Klenow fragment
-
Stengel, G., Purse, B.W., Wilhelmsson, L.M., Urban, M. & Kuchta, R.D. Ambivalent incorporation of the fuorescent cytosine analogues tC and tCo by human DNA polymerase alpha and Klenow fragment. Biochemistry 48, 7547-7555 (2009).
-
(2009)
Biochemistry
, vol.48
, pp. 7547-7555
-
-
Stengel, G.1
Purse, B.W.2
Wilhelmsson, L.M.3
Urban, M.4
Kuchta, R.D.5
-
11
-
-
33751016032
-
Fluorescent DNA base replacements: Reporters and sensors for biological systems
-
Wilson, J.N. & Kool, E.T. Fluorescent DNA base replacements: reporters and sensors for biological systems. Org. Biomol. Chem. 4, 4265-4274 (2006).
-
(2006)
Org. Biomol. Chem.
, vol.4
, pp. 4265-4274
-
-
Wilson, J.N.1
Kool, E.T.2
-
12
-
-
72249111306
-
FRET enabled real time detection of RNA-small molecule binding
-
Xie, Y., Dix, A.V. & Tor, Y. FRET enabled real time detection of RNA-small molecule binding. J. Am. Chem. Soc. 131, 17605-17614 (2009).
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 17605-17614
-
-
Xie, Y.1
Dix, A.V.2
Tor, Y.3
-
13
-
-
54249091527
-
Characterization of two adenosine analogs as fuorescence probes in RNA
-
Zhao, Y., Knee, J.L. & Baranger, A.M. Characterization of two adenosine analogs as fuorescence probes in RNA. Bioorg. Chem. 36, 271-277 (2008).
-
(2008)
Bioorg. Chem.
, vol.36
, pp. 271-277
-
-
Zhao, Y.1
Knee, J.L.2
Baranger, A.M.3
-
14
-
-
28344451166
-
Optimizing splinted ligation of highly structured small RNAs
-
Kurschat, W.C., Muller, J., Wombacher, R. & Helm, M. Optimizing splinted ligation of highly structured small RNAs. RNA 11, 1909-1914 (2005).
-
(2005)
RNA
, vol.11
, pp. 1909-1914
-
-
Kurschat, W.C.1
Muller, J.2
Wombacher, R.3
Helm, M.4
-
15
-
-
0033638325
-
Synthetically modifed DNAs as substrates for polymerases
-
Kool, E.T. Synthetically modifed DNAs as substrates for polymerases. Curr. Opin. Chem. Biol. 4, 602-608 (2000).
-
(2000)
Curr. Opin. Chem. Biol.
, vol.4
, pp. 602-608
-
-
Kool, E.T.1
-
16
-
-
0035942246
-
Unnatural base pairs for specifc transcription
-
Ohtsuki, T. et al. Unnatural base pairs for specifc transcription. Proc. Natl Acad. Sci. USA 98, 4922-4925 (2001).
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 4922-4925
-
-
Ohtsuki, T.1
-
17
-
-
0036168140
-
An unnatural base pair for incorporating amino acid analogs into proteins
-
DOI 10.1038/nbt0202-177
-
Hirao, I. et al. An unnatural base pair for incorporating amino acid analogs into proteins. Nat. Biotechnol. 20, 177-182 (2002). (Pubitemid 34158034)
-
(2002)
Nature Biotechnology
, vol.20
, Issue.2
, pp. 177-182
-
-
Hirao, I.1
Ohtsuki, T.2
Fujiwara, T.3
Mitsui, T.4
Yokogawa, T.5
Okuni, T.6
Nakayama, H.7
Takio, K.8
Yabuki, T.9
Kigawa, T.10
Kodama, K.11
Yokogawa, T.12
Nishikawa, K.13
Yokoyama, S.14
-
18
-
-
0344851941
-
Beyond A C, G and T: Augmenting nature's alphabet
-
Henry, A.A. & Romesberg, F.E. Beyond A, C, G and T: augmenting nature's alphabet. Curr. Opin. Chem. Biol. 7, 727-733 (2003).
-
(2003)
Curr. Opin. Chem. Biol.
, vol.7
, pp. 727-733
-
-
Henry, A.A.1
Romesberg, F.E.2
-
19
-
-
1142306164
-
Site-Specific Incorporation of a Photo-Crosslinking Component into RNA by T7 Transcription Mediated by Unnatural Base Pairs
-
DOI 10.1016/S1074-5521(03)00295-3
-
Kimoto, M. et al. Site-specifc incorporation of a photo-crosslinking component into RNA by T7 transcription mediated by unnatural base pairs. Chem. Biol. 11, 47-55 (2004). (Pubitemid 38203989)
-
(2004)
Chemistry and Biology
, vol.11
, Issue.1
, pp. 47-55
-
-
Kimoto, M.1
Endo, M.2
Mitsui, T.3
Okuni, T.4
Hirao, I.5
Yokoyama, S.6
-
21
-
-
26444610292
-
Site-specifc biotinylation of RNA molecules by transcription using unnatural base pairs
-
Moriyama, K., Kimoto, M., Mitsui, T., Yokoyama, S. & Hirao, I. Site-specifc biotinylation of RNA molecules by transcription using unnatural base pairs. Nucleic Acids Res. 33, e129 (2005).
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Moriyama, K.1
Kimoto, M.2
Mitsui, T.3
Yokoyama, S.4
Hirao, I.5
-
22
-
-
33846393737
-
Unnatural base pair systems for DNA/RNA-based biotechnology
-
Hirao, I. Unnatural base pair systems for DNA/RNA-based biotechnology. Curr. Opin. Chem. Biol. 10, 622-627 (2006).
-
(2006)
Curr. Opin. Chem. Biol.
, vol.10
, pp. 622-627
-
-
Hirao, I.1
-
23
-
-
33746521883
-
Placing extra components into RNA by specifc transcription using unnatural base pair systems
-
Hirao, I. Placing extra components into RNA by specifc transcription using unnatural base pair systems. Biotechniques 40, 711-717 (2006).
-
(2006)
Biotechniques
, vol.40
, pp. 711-717
-
-
Hirao, I.1
-
24
-
-
33747762272
-
An unnatural hydrophobic base pair system: Site-specifc incorporation of nucleotide analogs into DNA and RNA
-
Hirao, I. et al. An unnatural hydrophobic base pair system: site-specifc incorporation of nucleotide analogs into DNA and RNA. Nat. Methods 3, 729-735 (2006).
-
(2006)
Nat. Methods
, vol.3
, pp. 729-735
-
-
Hirao, I.1
-
25
-
-
34548757334
-
Fluorescent probing for RNA molecules by an unnatural base-pair system
-
Kimoto, M. et al. Fluorescent probing for RNA molecules by an unnatural base-pair system. Nucleic Acids Res. 35, 5360-5369 (2007).
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 5360-5369
-
-
Kimoto, M.1
-
26
-
-
70549098251
-
Non-natural nucleic acids for synthetic biology
-
Appella, D.H. Non-natural nucleic acids for synthetic biology. Curr. Opin. Chem. Biol. 13, 687-696 (2009).
-
(2009)
Curr. Opin. Chem. Biol.
, vol.13
, pp. 687-696
-
-
Appella, D.H.1
-
27
-
-
59649091247
-
An unnatural base pair system for effcient PCR amplifcation and functionalization of DNA molecules
-
Kimoto, M., Kawai, R., Mitsui, T., Yokoyama, S. & Hirao, I. An unnatural base pair system for effcient PCR amplifcation and functionalization of DNA molecules. Nucleic Acids Res. 37, e14 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Kimoto, M.1
Kawai, R.2
Mitsui, T.3
Yokoyama, S.4
Hirao, I.5
-
28
-
-
73349140532
-
Expanded genetic alphabets in the polymerase chain reaction
-
Yang, Z., Chen, F., Chamberlin, S.G. & Benner, S.A. Expanded genetic alphabets in the polymerase chain reaction. Angew. Chem. Int. Ed. Engl. 49, 177-180 (2010).
-
(2010)
Angew. Chem. Int. Ed. Engl.
, vol.49
, pp. 177-180
-
-
Yang, Z.1
Chen, F.2
Chamberlin, S.G.3
Benner, S.A.4
-
29
-
-
39549087460
-
Discovery, characterization, and optimization of an unnatural base pair for expansion of the genetic alphabet
-
Leconte, A.M. et al. Discovery, characterization, and optimization of an unnatural base pair for expansion of the genetic alphabet. J. Am. Chem. Soc. 130, 2336-2343 (2008).
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 2336-2343
-
-
Leconte, A.M.1
-
30
-
-
33947255494
-
Characterization of fuorescent, unnatural base pairs
-
Mitsui, T., Kimoto, M., Kawai, R., Yokoyama, S. & Hirao, I. Characterization of fuorescent, unnatural base pairs. Tetrahedron 63, 3528-3537 (2007).
-
(2007)
Tetrahedron
, vol.63
, pp. 3528-3537
-
-
Mitsui, T.1
Kimoto, M.2
Kawai, R.3
Yokoyama, S.4
Hirao, I.5
-
31
-
-
34548581964
-
Cytostatic evaluations of nucleoside analogs related to unnatural base pairs for a genetic expansion system
-
Kimoto, M., Moriyama, K., Yokoyama, S. & Hirao, I. Cytostatic evaluations of nucleoside analogs related to unnatural base pairs for a genetic expansion system. Bioorg. Med. Chem. Lett. 17, 5582-5585 (2007).
-
(2007)
Bioorg. Med. Chem. Lett.
, vol.17
, pp. 5582-5585
-
-
Kimoto, M.1
Moriyama, K.2
Yokoyama, S.3
Hirao, I.4
-
32
-
-
0023651444
-
Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates
-
Milligan, J.F., Groebe, D.R., Witherell, G.W. & Uhlenbeck, O.C. Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates. Nucleic Acids Res. 15, 8783-8798 (1987).
-
(1987)
Nucleic Acids Res.
, vol.15
, pp. 8783-8798
-
-
Milligan, J.F.1
Groebe, D.R.2
Witherell, G.W.3
Uhlenbeck, O.C.4
-
33
-
-
0024819449
-
Synthesis of small RNAs using T7 RNA polymerase
-
Milligan, J.F. & Uhlenbeck, O.C. Synthesis of small RNAs using T7 RNA polymerase. Methods Enzymol. 180, 51-62 (1989).
-
(1989)
Methods Enzymol.
, vol.180
, pp. 51-62
-
-
Milligan, J.F.1
Uhlenbeck, O.C.2
-
34
-
-
77954247857
-
-
Oligonucleotide synthesis 3rd edn. (eds. Sambrook J. & Russell D.W.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA
-
Oligonucleotide synthesis. In Molecular Cloning: A Laboratory Manual 3rd edn. Vol.2 (eds. Sambrook J. & Russell D.W.) 10.42-10.46 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA, 2001).
-
(2001)
Molecular Cloning: A Laboratory Manual
, vol.2
, pp. 1042-1046
-
-
-
35
-
-
0023502864
-
Chemical synthesis of deoxyoligonucleotides by the phosphoramidite method
-
Caruthers, M.H. et al. Chemical synthesis of deoxyoligonucleotides by the phosphoramidite method. Methods Enzymol. 154, 287-313 (1987).
-
(1987)
Methods Enzymol.
, vol.154
, pp. 287-313
-
-
Caruthers, M.H.1
-
36
-
-
0031915891
-
Error analysis of chemically synthesized polynucleotides
-
Hecker, K.H. & Rill, R.L. Error analysis of chemically synthesized polynucleotides. Biotechniques 24, 256-260 (1998).
-
(1998)
Biotechniques
, vol.24
, pp. 256-260
-
-
Hecker, K.H.1
Rill, R.L.2
-
37
-
-
3042820410
-
A simple, rapid, high-fdelity and cost-effective PCR-based two-step DNA synthesis method for long gene sequences
-
Xiong, A.S. et al. A simple, rapid, high-fdelity and cost-effective PCR-based two-step DNA synthesis method for long gene sequences. Nucleic Acids Res. 32, e98 (2004).
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Xiong, A.S.1
-
38
-
-
44749088592
-
Phosphoserine aminoacylation of tRNA bearing an unnatural base anticodon
-
Fukunaga, R., Harada, Y., Hirao, I. & Yokoyama, S. Phosphoserine aminoacylation of tRNA bearing an unnatural base anticodon. Biochem. Biophys. Res. Commun. 372, 480-485 (2008).
-
(2008)
Biochem. Biophys. Res. Commun.
, vol.372
, pp. 480-485
-
-
Fukunaga, R.1
Harada, Y.2
Hirao, I.3
Yokoyama, S.4
-
39
-
-
42149130929
-
Chemical gene synthesis: Strategies, softwares, error corrections, and applications
-
Xiong, A.S. et al. Chemical gene synthesis: strategies, softwares, error corrections, and applications. FEMS Microbiol. Rev. 32, 522-540 (2008).
-
(2008)
FEMS Microbiol. Rev.
, vol.32
, pp. 522-540
-
-
Xiong, A.S.1
-
40
-
-
0347364647
-
Generating a synthetic genome by whole genome assembly: PhiX174 bacteriophage from synthetic oligonucleotides
-
Smith, H.O., Hutchison, C.A. III, Pfannkoch, C. & Venter, J.C. Generating a synthetic genome by whole genome assembly: phiX174 bacteriophage from synthetic oligonucleotides. Proc. Natl Acad. Sci. USA 100, 15440-15445 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 15440-15445
-
-
Smith, H.O.1
Iii, A.H.C.2
Pfannkoch, C.3
Venter, J.C.4
-
41
-
-
8144226497
-
Total synthesis of long DNA sequences: Synthesis of a contiguous 32-kb polyketide synthase gene cluster
-
Kodumal, S.J. et al. Total synthesis of long DNA sequences: synthesis of a contiguous 32-kb polyketide synthase gene cluster. Proc. Natl Acad. Sci. USA 101, 15573-15578 (2004).
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 15573-15578
-
-
Kodumal, S.J.1
-
42
-
-
0004136246
-
Purifcation of synthetic oligonucleotides by polyacrylamide gel electrophoresis
-
3rd edn. (eds. Sambrook J. & Russell D.W.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA
-
Purifcation of synthetic oligonucleotides by polyacrylamide gel electrophoresis. In Molecular Cloning: A Laboratory Manual 3rd edn. Vol.2 (eds. Sambrook J. & Russell D.W.) 10.11-10.16 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA, 2001).
-
(2001)
Molecular Cloning: A Laboratory Manual
, vol.2
, pp. 1011-1016
-
-
-
43
-
-
77954272158
-
Preparation of denaturing polyacrylamide gels
-
3rd edn (eds. Sambrook J. & Russell D.W.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA
-
Preparation of denaturing polyacrylamide gels. In Molecular Cloning: A Laboratory Manual 3rd edn. Vol.2 (eds. Sambrook J. & Russell D.W.) 12.74-12.80 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, USA, 2001).
-
(2001)
Molecular Cloning: A Laboratory Manual
, vol.2
, pp. 1274-1280
-
-
-
44
-
-
24344485204
-
Melting temperatures of nucleic acids: Discrepancies in analysis
-
Owczarzy, R. Melting temperatures of nucleic acids: discrepancies in analysis. Biophys. Chem. 117, 207-215 (2005).
-
(2005)
Biophys. Chem.
, vol.117
, pp. 207-215
-
-
Owczarzy, R.1
-
45
-
-
0034840623
-
A simple and effcient method to transcribe RNAs with reduced 3′ heterogeneity
-
Kao, C., Rudisser, S. & Zheng, M. A simple and effcient method to transcribe RNAs with reduced 3′ heterogeneity. Methods 23, 201-205 (2001).
-
(2001)
Methods
, vol.23
, pp. 201-205
-
-
Kao, C.1
Rudisser, S.2
Zheng, M.3
|