-
1
-
-
33748577758
-
Sequence specific recognition and modification of double helical DNA by oligonucleotides
-
Thuong, N. T. and Helene, C. (1993) Sequence specific recognition and modification of double helical DNA by oligonucleotides Angew. Chem., Int. Ed. 32, 666-690
-
(1993)
Angew. Chem., Int. Ed.
, vol.32
, pp. 666-690
-
-
Thuong, N.T.1
Helene, C.2
-
2
-
-
0035902445
-
Manipulating the mammalian genome by homologous recombination
-
Vasquez, K. M., Marburger, K., Intody, Z., and Wilson, J. H. (2001) Manipulating the mammalian genome by homologous recombination Proc. Natl. Acad. Sci. U.S.A. 98, 8403-8410
-
(2001)
Proc. Natl. Acad. Sci. U.S.A.
, vol.98
, pp. 8403-8410
-
-
Vasquez, K.M.1
Marburger, K.2
Intody, Z.3
Wilson, J.H.4
-
3
-
-
85047692457
-
The potential for gene repair via triple helix formation
-
Seidman, M. M. and Glazer, P. M. (2003) The potential for gene repair via triple helix formation J. Clin. Invest. 112, 487-494
-
(2003)
J. Clin. Invest.
, vol.112
, pp. 487-494
-
-
Seidman, M.M.1
Glazer, P.M.2
-
4
-
-
65249122125
-
Repair of DNA lesions associated with triplex-forming oligonucleotides
-
Chin, J. Y. and Glazer, P. M. (2009) Repair of DNA lesions associated with triplex-forming oligonucleotides Mol. Carcinog. 48, 389-399
-
(2009)
Mol. Carcinog.
, vol.48
, pp. 389-399
-
-
Chin, J.Y.1
Glazer, P.M.2
-
5
-
-
0035906322
-
Role of magnesium in genomic stability
-
Hartwig, A. (2001) Role of magnesium in genomic stability Mutat. Res. 475, 113-121
-
(2001)
Mutat. Res.
, vol.475
, pp. 113-121
-
-
Hartwig, A.1
-
6
-
-
0021769970
-
Poly(pyrimidine)A poly(purine) synthetic DNAs containing 5-methylcytosine form stable triplexes at neutral pH
-
Lee, J. S., Woodsworth, M. L., Latimer, L. J., and Morgan, A. R. (1984) Poly(pyrimidine)A poly(purine) synthetic DNAs containing 5-methylcytosine form stable triplexes at neutral pH Nucleic Acids Res. 12, 6603-6614
-
(1984)
Nucleic Acids Res.
, vol.12
, pp. 6603-6614
-
-
Lee, J.S.1
Woodsworth, M.L.2
Latimer, L.J.3
Morgan, A.R.4
-
7
-
-
0027089978
-
Stability and properties of double and triple helices: Dramatic effects of RNA or DNA backbone composition
-
Roberts, R. W. and Crothers, D. M. (1992) Stability and properties of double and triple helices: Dramatic effects of RNA or DNA backbone composition Science 258, 1463-1466
-
(1992)
Science
, vol.258
, pp. 1463-1466
-
-
Roberts, R.W.1
Crothers, D.M.2
-
8
-
-
0027093126
-
Stable triple helices are formed upon binding of RNA oligonucleotides and their 2′-O-methyl derivatives to double-helical DNA
-
Escude, C., Sun, J. S., Rougee, M., Garestier, T., and Helene, C. (1992) Stable triple helices are formed upon binding of RNA oligonucleotides and their 2′-O-methyl derivatives to double-helical DNA C. R. Acad. Sci. III 315, 521-525
-
(1992)
C. R. Acad. Sci. III
, vol.315
, pp. 521-525
-
-
Escude, C.1
Sun, J.S.2
Rougee, M.3
Garestier, T.4
Helene, C.5
-
9
-
-
0033537036
-
Conformational and thermodynamic properties of parallel intramolecular triple helixes containing a DNA, RNA, or 2′-OMeDNA third strand
-
Asensio, J. L., Carr, R., Brown, T., and Lane, A. N. (1999) Conformational and thermodynamic properties of parallel intramolecular triple helixes containing a DNA, RNA, or 2′-OMeDNA third strand J. Am. Chem. Soc. 121, 11063-11070
-
(1999)
J. Am. Chem. Soc.
, vol.121
, pp. 11063-11070
-
-
Asensio, J.L.1
Carr, R.2
Brown, T.3
Lane, A.N.4
-
10
-
-
0032558974
-
Dual recognition of double-stranded DNA by 2′-aminoethoxy-modified oligonucleotides: The solution structure of an intramolecular triplex obtained by NMR spectroscopy
-
Blommers, M. J., Natt, F., Jahnke, W., and Cuenoud, B. (1998) Dual recognition of double-stranded DNA by 2′-aminoethoxy-modified oligonucleotides: The solution structure of an intramolecular triplex obtained by NMR spectroscopy Biochemistry 37, 17714-17725
-
(1998)
Biochemistry
, vol.37
, pp. 17714-17725
-
-
Blommers, M.J.1
Natt, F.2
Jahnke, W.3
Cuenoud, B.4
-
11
-
-
0032543145
-
Dual recognition of double stranded DNA by 2′-aminoethoxy-modified oligonucleotides
-
Cuenoud, B., Casset, F., Husken, D., Natt, F., Wolf, R. M., Altmann, K. H., Martin, P., and Moser, H. E. (1998) Dual recognition of double stranded DNA by 2′-aminoethoxy-modified oligonucleotides Angew. Chem., Int. Ed. 37, 1288-1291
-
(1998)
Angew. Chem., Int. Ed.
, vol.37
, pp. 1288-1291
-
-
Cuenoud, B.1
Casset, F.2
Husken, D.3
Natt, F.4
Wolf, R.M.5
Altmann, K.H.6
Martin, P.7
Moser, H.E.8
-
12
-
-
0034827501
-
Determination of aliphatic side-chain conformation using cross-correlated relaxation: Application to an extraordinarily stable 2′- aminoethoxy-modified oligonucleotide triplex
-
Carlomagno, T., Blommers, M. J., Meiler, J., Cuenoud, B., and Griesinger, C. (2001) Determination of aliphatic side-chain conformation using cross-correlated relaxation: Application to an extraordinarily stable 2′- aminoethoxy-modified oligonucleotide triplex J. Am. Chem. Soc. 123, 7364-7370
-
(2001)
J. Am. Chem. Soc.
, vol.123
, pp. 7364-7370
-
-
Carlomagno, T.1
Blommers, M.J.2
Meiler, J.3
Cuenoud, B.4
Griesinger, C.5
-
13
-
-
0035800796
-
Targeted gene knockout by 2′-O-aminoethyl modified triplex forming oligonucleotides
-
Puri, N., Majumdar, A., Cuenoud, B., Natt, F., Martin, P., Boyd, A., Miller, P. S., and Seidman, M. M. (2001) Targeted gene knockout by 2′-O-aminoethyl modified triplex forming oligonucleotides J. Biol. Chem. 276, 28991-28998
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 28991-28998
-
-
Puri, N.1
Majumdar, A.2
Cuenoud, B.3
Natt, F.4
Martin, P.5
Boyd, A.6
Miller, P.S.7
Seidman, M.M.8
-
14
-
-
0037129802
-
Minimum Number of 2′-O-(2-Aminoethyl) Residues Required for Gene Knockout Activity by Triple Helix Forming Oligonucleotides
-
Puri, N., Majumdar, A., Cuenoud, B., Natt, F., Martin, P., Boyd, A., Miller, P. S., and Seidman, M. M. (2002) Minimum Number of 2′-O-(2- Aminoethyl) Residues Required for Gene Knockout Activity by Triple Helix Forming Oligonucleotides Biochemistry 41, 7716-7724
-
(2002)
Biochemistry
, vol.41
, pp. 7716-7724
-
-
Puri, N.1
Majumdar, A.2
Cuenoud, B.3
Natt, F.4
Martin, P.5
Boyd, A.6
Miller, P.S.7
Seidman, M.M.8
-
15
-
-
0842304738
-
Importance of Clustered 2′-O-(2-Aminoethyl) Residues for the Gene Targeting Activity of Triple Helix-Forming Oligonucleotides
-
Puri, N., Majumdar, A., Cuenoud, B., Miller, P. S., and Seidman, M. M. (2004) Importance of Clustered 2′-O-(2-Aminoethyl) Residues for the Gene Targeting Activity of Triple Helix-Forming Oligonucleotides Biochemistry 43, 1343-1351
-
(2004)
Biochemistry
, vol.43
, pp. 1343-1351
-
-
Puri, N.1
Majumdar, A.2
Cuenoud, B.3
Miller, P.S.4
Seidman, M.M.5
-
16
-
-
26944475622
-
Triplex targeted genomic crosslinks enter separable deletion and base substitution pathways
-
Richards, S., Liu, S. T., Majumdar, A., Liu, J. L., Nairn, R. S., Bernier, M., Maher, V., and Seidman, M. M. (2005) Triplex targeted genomic crosslinks enter separable deletion and base substitution pathways Nucleic Acids Res. 33, 5382-5393
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 5382-5393
-
-
Richards, S.1
Liu, S.T.2
Majumdar, A.3
Liu, J.L.4
Nairn, R.S.5
Bernier, M.6
Maher, V.7
Seidman, M.M.8
-
17
-
-
32344447218
-
Targeted cross-linking of the human β-globin gene in living cells mediated by a triple helix forming oligonucleotide
-
Shahid, K. A., Majumdar, A., Alam, R., Liu, S. T., Kuan, J. Y., Sui, X., Cuenoud, B., Glazer, P. M., Miller, P. S., and Seidman, M. M. (2006) Targeted cross-linking of the human β-globin gene in living cells mediated by a triple helix forming oligonucleotide Biochemistry 45, 1970-1978
-
(2006)
Biochemistry
, vol.45
, pp. 1970-1978
-
-
Shahid, K.A.1
Majumdar, A.2
Alam, R.3
Liu, S.T.4
Kuan, J.Y.5
Sui, X.6
Cuenoud, B.7
Glazer, P.M.8
Miller, P.S.9
Seidman, M.M.10
-
18
-
-
0037500338
-
Cell Cycle Modulation of Gene Targeting by a Triple Helix-forming Oligonucleotide
-
Majumdar, A., Puri, N., Cuenoud, B., Natt, F., Martin, P., Khorlin, A., Dyatkina, N., George, A. J., Miller, P. S., and Seidman, M. M. (2003) Cell Cycle Modulation of Gene Targeting by a Triple Helix-forming Oligonucleotide J. Biol. Chem. 278, 11072-11077
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 11072-11077
-
-
Majumdar, A.1
Puri, N.2
Cuenoud, B.3
Natt, F.4
Martin, P.5
Khorlin, A.6
Dyatkina, N.7
George, A.J.8
Miller, P.S.9
Seidman, M.M.10
-
19
-
-
0033118865
-
Towards mixed sequence recognition by triple helix formation
-
Gowers, D. M. and Fox, K. R. (1999) Towards mixed sequence recognition by triple helix formation Nucleic Acids Res. 27, 1569-1577
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 1569-1577
-
-
Gowers, D.M.1
Fox, K.R.2
-
20
-
-
0037371154
-
Non-natural nucleosides for the specific recognition of Watson-Crick base pairs
-
Purwanto, M. G. and Weisz, K. (2003) Non-natural nucleosides for the specific recognition of Watson-Crick base pairs Curr. Org. Chem. 7, 427-446
-
(2003)
Curr. Org. Chem.
, vol.7
, pp. 427-446
-
-
Purwanto, M.G.1
Weisz, K.2
-
21
-
-
33748523870
-
An extra dimension in nucleic acid sequence recognition
-
Fox, K. R. and Brown, T. (2005) An extra dimension in nucleic acid sequence recognition Q. Rev. Biophys. 38, 311-320
-
(2005)
Q. Rev. Biophys.
, vol.38
, pp. 311-320
-
-
Fox, K.R.1
Brown, T.2
-
22
-
-
0033588863
-
Selective recognition of a C-G base-pair in the parallel DNA triple-helical binding motif
-
Prevot-Halter, I. and Leumann, C. J. (1999) Selective recognition of a C-G base-pair in the parallel DNA triple-helical binding motif Bioorg. Med. Chem. Lett. 9, 2657-2660
-
(1999)
Bioorg. Med. Chem. Lett.
, vol.9
, pp. 2657-2660
-
-
Prevot-Halter, I.1
Leumann, C.J.2
-
23
-
-
20444469710
-
Recognition of CG inversions in DNA triple helices by methylated 3H-pyrrolo[2,3-d]pyrimidin-2(7H)-one nucleoside analogues
-
Ranasinghe, R. T., Rusling, D. A., Powers, V. E., Fox, K. R., and Brown, T. (2005) Recognition of CG inversions in DNA triple helices by methylated 3H-pyrrolo[2,3-d]pyrimidin-2(7H)-one nucleoside analogues Chem. Commun., 2555-2557
-
(2005)
Chem. Commun.
, pp. 2555-2557
-
-
Ranasinghe, R.T.1
Rusling, D.A.2
Powers, V.E.3
Fox, K.R.4
Brown, T.5
-
24
-
-
19644390288
-
Four base recognition by triplex-forming oligonucleotides at physiological pH
-
Rusling, D. A., Powers, V. E., Ranasinghe, R. T., Wang, Y., Osborne, S. D., Brown, T., and Fox, K. R. (2005) Four base recognition by triplex-forming oligonucleotides at physiological pH Nucleic Acids Res. 33, 3025-3032
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 3025-3032
-
-
Rusling, D.A.1
Powers, V.E.2
Ranasinghe, R.T.3
Wang, Y.4
Osborne, S.D.5
Brown, T.6
Fox, K.R.7
-
25
-
-
0001368782
-
A 2′,4′-Bridged Nucleic Acid Containing 2-Pyridone as a Nucleobase: Efficient recognition of a C-C Interruption by Triplex Formation with a Pyrimidine Motif
-
Okiba, S., Hari, Y., Sekiguchi, M., and Imanishi, T. (2002) A 2′,4′-Bridged Nucleic Acid Containing 2-Pyridone as a Nucleobase: Efficient recognition of a C-C Interruption by Triplex Formation with a Pyrimidine Motif Angew. Chem., Int. Ed. 40, 2079-2081
-
(2002)
Angew. Chem., Int. Ed.
, vol.40
, pp. 2079-2081
-
-
Okiba, S.1
Hari, Y.2
Sekiguchi, M.3
Imanishi, T.4
-
26
-
-
4544284320
-
Stable and selective recognition of three base pairs in the parallel triple-helical DNA binding motif
-
Buchini, S. and Leumann, C. J. (2004) Stable and selective recognition of three base pairs in the parallel triple-helical DNA binding motif Angew. Chem., Int. Ed. 43, 3925-3928
-
(2004)
Angew. Chem., Int. Ed.
, vol.43
, pp. 3925-3928
-
-
Buchini, S.1
Leumann, C.J.2
-
27
-
-
0034744290
-
2′-O,4′-C-Methylene bridged nucleic acid (2′,4′- BNA): Synthesis and triplex-forming properties
-
Obika, S., Uneda, T., Sugimoto, T., Nanbu, D., Minami, T., Doi, T., and Imanishi, T. (2001) 2′-O,4′-C-Methylene bridged nucleic acid (2′,4′-BNA): synthesis and triplex-forming properties Bioorg. Med. Chem. 9, 1001-1011
-
(2001)
Bioorg. Med. Chem.
, vol.9
, pp. 1001-1011
-
-
Obika, S.1
Uneda, T.2
Sugimoto, T.3
Nanbu, D.4
Minami, T.5
Doi, T.6
Imanishi, T.7
-
28
-
-
0034938693
-
Locked nucleic acids: A promising molecular family for gene-function analysis and antisense drug development
-
Orum, H. and Wengel, J. (2001) Locked nucleic acids: A promising molecular family for gene-function analysis and antisense drug development Curr. Opin. Mol. Ther. 3, 239-243
-
(2001)
Curr. Opin. Mol. Ther.
, vol.3
, pp. 239-243
-
-
Orum, H.1
Wengel, J.2
-
29
-
-
0000712651
-
Triplex formation by an oligonucleotide containing N4-(3-acetamidopropyl) cytosine
-
Huang, C. Y., Cushman, C. D., and Miller, P. S. (1993) Triplex formation by an oligonucleotide containing N4-(3-acetamidopropyl)cytosine J. Org. Chem. 58, 5048-5049
-
(1993)
J. Org. Chem.
, vol.58
, pp. 5048-5049
-
-
Huang, C.Y.1
Cushman, C.D.2
Miller, P.S.3
-
30
-
-
0029901452
-
Triplex formation by oligonucleotides containing novel deoxycytidine derivatives
-
[published erratum, (1997) Nucleic Acids Res. 25, 3750]
-
Huang, C. Y., Bi, G., and Miller, P. S. (1996) Triplex formation by oligonucleotides containing novel deoxycytidine derivatives Nucleic Acids Res. 24, 2606-2613 [published erratum, (1997) Nucleic Acids Res. 25, 3750]
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 2606-2613
-
-
Huang, C.Y.1
Bi, G.2
Miller, P.S.3
-
31
-
-
0347361508
-
Binding of imidazole-derived nucleosides to a CG base pair
-
Purwanto, M. G. and Weisz, K. (2004) Binding of imidazole-derived nucleosides to a CG base pair J. Org. Chem. 69, 195-197
-
(2004)
J. Org. Chem.
, vol.69
, pp. 195-197
-
-
Purwanto, M.G.1
Weisz, K.2
-
32
-
-
24744460051
-
Molecular recognition via triplex formation of mixed purine/pyrimidine DNA sequences using oligoTRIPs
-
Li, J. S., Chen, F. X., Shikiya, R., Marky, L. A., and Gold, B. (2005) Molecular recognition via triplex formation of mixed purine/pyrimidine DNA sequences using oligoTRIPs J. Am. Chem. Soc. 127, 12657-12665
-
(2005)
J. Am. Chem. Soc.
, vol.127
, pp. 12657-12665
-
-
Li, J.S.1
Chen, F.X.2
Shikiya, R.3
Marky, L.A.4
Gold, B.5
-
33
-
-
69949143888
-
Recognition of CG interrupting site by W-shaped nucleoside analogs (WNA) having the pyrazole ring in an anti-parallel triplex DNA
-
Taniguchi, Y., Uchida, Y., Takaki, T., Aoki, E., and Sasaki, S. (2009) Recognition of CG interrupting site by W-shaped nucleoside analogs (WNA) having the pyrazole ring in an anti-parallel triplex DNA Bioorg. Med. Chem. 17, 6803-6810
-
(2009)
Bioorg. Med. Chem.
, vol.17
, pp. 6803-6810
-
-
Taniguchi, Y.1
Uchida, Y.2
Takaki, T.3
Aoki, E.4
Sasaki, S.5
-
34
-
-
0001494518
-
Recognition of all four base pairs of double helical DNA by triple helix formation: Design of nonnatural deoxyribonucleosides for pyrimidine-purine base pair binding
-
Griffin, L. C., Kiessling, L. L., Beal, P. A., Gillespie, P., and Dervan, P. B. (1992) Recognition of all four base pairs of double helical DNA by triple helix formation: Design of nonnatural deoxyribonucleosides for pyrimidine-purine base pair binding J. Am. Chem. Soc. 114, 7976-7982
-
(1992)
J. Am. Chem. Soc.
, vol.114
, pp. 7976-7982
-
-
Griffin, L.C.1
Kiessling, L.L.2
Beal, P.A.3
Gillespie, P.4
Dervan, P.B.5
-
35
-
-
40949119424
-
Recognition of TA A interruption by 2′,4′-BNAs bearing heteroaromatic nucleobases through parallel motif triplex formation
-
Obika, S., Inohara, H., Hari, Y., and Imanishi, T. (2008) Recognition of TA A interruption by 2′,4′-BNAs bearing heteroaromatic nucleobases through parallel motif triplex formation Bioorg. Med. Chem. 16, 2945-2954
-
(2008)
Bioorg. Med. Chem.
, vol.16
, pp. 2945-2954
-
-
Obika, S.1
Inohara, H.2
Hari, Y.3
Imanishi, T.4
-
36
-
-
39049185401
-
Modification of the aromatic ring of the WNA analogues for expansion of the triplex recognition codes
-
Taniguchi, Y., Nakamura, A., Aoki, E., and Sasaki, S. (2005) Modification of the aromatic ring of the WNA analogues for expansion of the triplex recognition codes Nucleic Acids Res. Suppl., 173-174
-
(2005)
Nucleic Acids Res. Suppl.
, pp. 173-174
-
-
Taniguchi, Y.1
Nakamura, A.2
Aoki, E.3
Sasaki, S.4
-
37
-
-
17344367023
-
Targeted gene knockout mediated by triple helix forming oligonucleotides
-
Majumdar, A., Khorlin, A., Dyatkina, N., Lin, F. L., Powell, J., Liu, J., Fei, Z., Khripine, Y., Watanabe, K. A., George, J., Glazer, P. M., and Seidman, M. M. (1998) Targeted gene knockout mediated by triple helix forming oligonucleotides Nat. Genet. 20, 212-214
-
(1998)
Nat. Genet.
, vol.20
, pp. 212-214
-
-
Majumdar, A.1
Khorlin, A.2
Dyatkina, N.3
Lin, F.L.4
Powell, J.5
Liu, J.6
Fei, Z.7
Khripine, Y.8
Watanabe, K.A.9
George, J.10
Glazer, P.M.11
Seidman, M.M.12
-
38
-
-
0025062563
-
Reversible G1 arrest in the cell cycle of human lymphoid cell lines by dimethyl sulfoxide
-
Sawai, M., Takase, K., Teraoka, H., and Tsukada, K. (1990) Reversible G1 arrest in the cell cycle of human lymphoid cell lines by dimethyl sulfoxide Exp. Cell Res. 187, 4-10
-
(1990)
Exp. Cell Res.
, vol.187
, pp. 4-10
-
-
Sawai, M.1
Takase, K.2
Teraoka, H.3
Tsukada, K.4
-
39
-
-
0031010028
-
Persistent DNA damage inhibits S-phase and G2 progression, and results in apoptosis
-
Orren, D. K., Petersen, L. N., and Bohr, V. A. (1997) Persistent DNA damage inhibits S-phase and G2 progression, and results in apoptosis Mol. Biol. Cell 8, 1129-1142
-
(1997)
Mol. Biol. Cell
, vol.8
, pp. 1129-1142
-
-
Orren, D.K.1
Petersen, L.N.2
Bohr, V.A.3
-
40
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
Brooks, B. R., Olafson, B. D., States, D. J., Swaminathan, S., and Karplus, M. (1983) CHARMM: A program for macromolecular energy, minimization, and dynamics calculations J. Comput. Chem. 4, 187-217
-
(1983)
J. Comput. Chem.
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Olafson, B.D.2
States, D.J.3
Swaminathan, S.4
Karplus, M.5
-
41
-
-
6344260593
-
An all atom empirical energy function for the simulation of nucleic acids
-
Mackerell, A. D., Jr., Wiorkiewicz-Kuczera, J., and Karplus, M. (1995) An all atom empirical energy function for the simulation of nucleic acids J. Am. Chem. Soc. 117, 11046-11975
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 11046-11975
-
-
Mackerell Jr., A.D.1
Wiorkiewicz-Kuczera, J.2
Karplus, M.3
-
42
-
-
0000214231
-
An all atom empirical energy function for the simulation of nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution
-
Mackerell, A. D., Jr. and Banavali, N. K. (2000) An all atom empirical energy function for the simulation of nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution J. Comput. Chem. 21, 105-120
-
(2000)
J. Comput. Chem.
, vol.21
, pp. 105-120
-
-
Mackerell Jr., A.D.1
Banavali, N.K.2
-
43
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
Phillips, J. C. and Braun, R. (2005) Scalable molecular dynamics with NAMD J. Comput. Chem. 26, 1781-1802
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
-
44
-
-
0014675222
-
Refinement of protein conformations using a macromolecular energy minimization procedure
-
Levitt, M. and Lifson, S. (1969) Refinement of protein conformations using a macromolecular energy minimization procedure J. Mol. Biol. 46, 269-279
-
(1969)
J. Mol. Biol.
, vol.46
, pp. 269-279
-
-
Levitt, M.1
Lifson, S.2
-
46
-
-
33846823909
-
Particle Mesh Ewald: An N-log(N) method for Ewald sums in large systems
-
Darden, T. and York, D. (1993) Particle Mesh Ewald: An N-log(N) method for Ewald sums in large systems J. Chem. Phys. 98, 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
-
47
-
-
84986534166
-
New spherical cutoff methods for long range forces in macromolecular simulation
-
Steinbach, P. J. and Brooks, B. R. (1994) New spherical cutoff methods for long range forces in macromolecular simulation J. Comput. Chem. 15, 667-683
-
(1994)
J. Comput. Chem.
, vol.15
, pp. 667-683
-
-
Steinbach, P.J.1
Brooks, B.R.2
-
48
-
-
33646940952
-
Numerical integration of Cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J. P. and Ciccotti, G. (1977) Numerical integration of Cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes J. Comput. Phys. 23, 327-341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
-
49
-
-
0000432120
-
-
in (, Eds.) pp - 211, Academic Press, San Diego.
-
Hockney, R. W. (1970) in The potential calculation and some applications (Alder, B., Fernbach, S., and Rotenberg, M., Eds.) pp 136 - 211, Academic Press, San Diego.
-
(1970)
The Potential Calculation and Some Applications
, pp. 136
-
-
Hockney, R.W.1
Alder, B.2
Fernbach, S.3
Rotenberg, M.4
-
50
-
-
84943502952
-
A molecular dynamics method for simulations in the canonical ensemble
-
Nose, S. (1984) A molecular dynamics method for simulations in the canonical ensemble Mol. Phys. 52, 255-268
-
(1984)
Mol. Phys.
, vol.52
, pp. 255-268
-
-
Nose, S.1
-
51
-
-
0001538909
-
Canonical dynamics: Equilibrium phase-space distributions
-
Hoover, W. G. (1985) Canonical dynamics: Equilibrium phase-space distributions Phys. Rev. A 31, 1659-1697
-
(1985)
Phys. Rev. A
, vol.31
, pp. 1659-1697
-
-
Hoover, W.G.1
-
52
-
-
36449007836
-
Constant pressure molecular dynamics simulation: The Langevin piston method
-
Feller, S. E. and Zhang, H. (1995) Constant pressure molecular dynamics simulation: The Langevin piston method J. Chem. Phys. 103, 4613-4621
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 4613-4621
-
-
Feller, S.E.1
Zhang, H.2
-
53
-
-
0000127073
-
Sequence-specific recognition of double helical nucleic acids by proteins
-
Seeman, N. C., Rosenberg, J. M., and Rich, A. (1976) Sequence-specific recognition of double helical nucleic acids by proteins Proc. Natl. Acad. Sci. U.S.A. 73, 804-808
-
(1976)
Proc. Natl. Acad. Sci. U.S.A.
, vol.73
, pp. 804-808
-
-
Seeman, N.C.1
Rosenberg, J.M.2
Rich, A.3
-
54
-
-
0033624684
-
DNA recognition by Cys2His2 zinc finger proteins
-
Wolfe, S. A., Nekludova, L., and Pabo, C. O. (2000) DNA recognition by Cys2His2 zinc finger proteins Annu. Rev. Biophys. Biomol. Struct. 29, 183-212
-
(2000)
Annu. Rev. Biophys. Biomol. Struct.
, vol.29
, pp. 183-212
-
-
Wolfe, S.A.1
Nekludova, L.2
Pabo, C.O.3
-
55
-
-
45549088525
-
Targeted Gene Knock in and Sequence Modulation Mediated by a Psoralen-linked Triplex-forming Oligonucleotide
-
Majumdar, A., Muniandy, P. A., Liu, J., Liu, J. L., Liu, S. T., Cuenoud, B., and Seidman, M. M. (2008) Targeted Gene Knock In and Sequence Modulation Mediated by a Psoralen-linked Triplex-forming Oligonucleotide J. Biol. Chem. 283, 11244-11252
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 11244-11252
-
-
Majumdar, A.1
Muniandy, P.A.2
Liu, J.3
Liu, J.L.4
Liu, S.T.5
Cuenoud, B.6
Seidman, M.M.7
-
56
-
-
77954889079
-
Sequence conversion by single strand oligonucleotide donors via non-homologous end joining in mammalian cells
-
Liu, J., Majumdar, A., Liu, J., Thompson, L. H., and Seidman, M. M. (2010) Sequence conversion by single strand oligonucleotide donors via non-homologous end joining in mammalian cells J. Biol. Chem. 285, 23198-23207
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 23198-23207
-
-
Liu, J.1
Majumdar, A.2
Liu, J.3
Thompson, L.H.4
Seidman, M.M.5
-
57
-
-
1342268515
-
Gene Targeting by Triple Helix-Forming Oligonucleotides
-
Majumdar, A., Puri, N., McCollum, N., Richards, S., Cuenoud, B., Miller, P., and Seidman, M. M. (2003) Gene Targeting by Triple Helix-Forming Oligonucleotides Ann. N.Y. Acad. Sci. 1002, 141-153
-
(2003)
Ann. N.Y. Acad. Sci.
, vol.1002
, pp. 141-153
-
-
Majumdar, A.1
Puri, N.2
McCollum, N.3
Richards, S.4
Cuenoud, B.5
Miller, P.6
Seidman, M.M.7
-
58
-
-
33745316870
-
The development of bioactive triple helix-forming oligonucleotides
-
Seidman, M. M., Puri, N., Majumdar, A., Cuenoud, B., Miller, P. S., and Alam, R. (2005) The development of bioactive triple helix-forming oligonucleotides Ann. N.Y. Acad. Sci. 1058, 119-127
-
(2005)
Ann. N.Y. Acad. Sci.
, vol.1058
, pp. 119-127
-
-
Seidman, M.M.1
Puri, N.2
Majumdar, A.3
Cuenoud, B.4
Miller, P.S.5
Alam, R.6
-
59
-
-
0027715886
-
Stability of triple helices containing RNA and DNA strands: Experimental and molecular modeling studies
-
Escude, C., Francois, J. C., Sun, J. S., Ott, G., Sprinzl, M., Garestier, T., and Helene, C. (1993) Stability of triple helices containing RNA and DNA strands: Experimental and molecular modeling studies Nucleic Acids Res. 21, 5547-5553
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 5547-5553
-
-
Escude, C.1
Francois, J.C.2
Sun, J.S.3
Ott, G.4
Sprinzl, M.5
Garestier, T.6
Helene, C.7
-
60
-
-
55549089296
-
Selectivity and affinity of DNA triplex forming oligonucleotides containing the nucleoside analogues 2′-O-methyl-5-(3-amino-1-propynyl) uridine and 2′-O-methyl-5-propynyluridine
-
Li, H., Miller, P. S., and Seidman, M. M. (2008) Selectivity and affinity of DNA triplex forming oligonucleotides containing the nucleoside analogues 2′-O-methyl-5-(3-amino-1-propynyl)uridine and 2′-O-methyl-5- propynyluridine Org. Biomol. Chem. 6, 4212-4217
-
(2008)
Org. Biomol. Chem.
, vol.6
, pp. 4212-4217
-
-
Li, H.1
Miller, P.S.2
Seidman, M.M.3
-
61
-
-
0037131487
-
Stable oligonucleotide-directed triplex formation at target sites with CG interruptions: Strong sequence-specific recognition by 2′,4′- bridged nucleic-acid-containing 2-pyridones under physiological conditions
-
Obika, S., Hari, Y., Sekiguchi, M., and Imanishi, T. (2002) Stable oligonucleotide-directed triplex formation at target sites with CG interruptions: Strong sequence-specific recognition by 2′,4′-bridged nucleic-acid-containing 2-pyridones under physiological conditions Chemistry 8, 4796-4802
-
(2002)
Chemistry
, vol.8
, pp. 4796-4802
-
-
Obika, S.1
Hari, Y.2
Sekiguchi, M.3
Imanishi, T.4
-
62
-
-
17144377878
-
Stable recognition of TA interruptions by triplex forming oligonucleotides containing a novel nucleoside
-
Wang, Y., Rusling, D. A., Powers, V. E., Lack, O., Osborne, S. D., Fox, K. R., and Brown, T. (2005) Stable recognition of TA interruptions by triplex forming oligonucleotides containing a novel nucleoside Biochemistry 44, 5884-5892
-
(2005)
Biochemistry
, vol.44
, pp. 5884-5892
-
-
Wang, Y.1
Rusling, D.A.2
Powers, V.E.3
Lack, O.4
Osborne, S.D.5
Fox, K.R.6
Brown, T.7
-
63
-
-
34548482958
-
Extensive sugar modification improves triple helix forming oligonucleotide activity in vitro but reduces activity in vivo
-
Alam, M. R., Majumdar, A., Thazhathveetil, A. K., Liu, S. T., Liu, J. L., Puri, N., Cuenoud, B., Sasaki, S., Miller, P. S., and Seidman, M. M. (2007) Extensive sugar modification improves triple helix forming oligonucleotide activity in vitro but reduces activity in vivo Biochemistry 46, 10222-10233
-
(2007)
Biochemistry
, vol.46
, pp. 10222-10233
-
-
Alam, M.R.1
Majumdar, A.2
Thazhathveetil, A.K.3
Liu, S.T.4
Liu, J.L.5
Puri, N.6
Cuenoud, B.7
Sasaki, S.8
Miller, P.S.9
Seidman, M.M.10
|