메뉴 건너뛰기




Volumn 34, Issue 20, 2006, Pages

Position-dependent effects of locked nucleic acid (LNA) on DNA sequencing and PCR primers

Author keywords

[No Author keywords available]

Indexed keywords

ATM PROTEIN; DNA; LOCKED NUCLEIC ACID; MEMBRANE COFACTOR PROTEIN; OLIGONUCLEOTIDE; ANTISENSE OLIGONUCLEOTIDE; PRIMER DNA;

EID: 33845599045     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkl756     Document Type: Article
Times cited : (59)

References (39)
  • 3
    • 0033844637 scopus 로고    scopus 로고
    • Improved cycle sequencing of GC-rich templates by a combination of nucleotide analogs
    • Motz,M., Pääbo,S. and Kilger,C. (2000) Improved cycle sequencing of GC-rich templates by a combination of nucleotide analogs. BioTechniques, 29, 268-270.
    • (2000) BioTechniques , vol.29 , pp. 268-270
    • Motz, M.1    Pääbo, S.2    Kilger, C.3
  • 4
    • 6344277190 scopus 로고    scopus 로고
    • LNA (locked nucleic acid): High-affinity targeting of complementary RNA and DNA
    • Vester,B. and Wengel,J. (2004) LNA (locked nucleic acid): High-affinity targeting of complementary RNA and DNA. Biochemistry, 43, 13233-13241.
    • (2004) Biochemistry , vol.43 , pp. 13233-13241
    • Vester, B.1    Wengel, J.2
  • 5
    • 0036730530 scopus 로고    scopus 로고
    • Single nucleotide polymorphism genotyping using short, fluorescently labeled locked nucleic acid (LNA) probes and fluorescence polarization detection
    • Simeonov,A. and Nikiforov,T.T. (2002) Single nucleotide polymorphism genotyping using short, fluorescently labeled locked nucleic acid (LNA) probes and fluorescence polarization detection. Nucleic Acids Res., 30, e91.
    • (2002) Nucleic Acids Res. , vol.30
    • Simeonov, A.1    Nikiforov, T.T.2
  • 7
    • 0345356408 scopus 로고    scopus 로고
    • Real-time genotyping with oligonucleotide probes containing locked nucleic acids
    • Ugozzoli,L.A., Latorra,D., Pucket,R., Arar,K. and Hamby,K. (2004) Real-time genotyping with oligonucleotide probes containing locked nucleic acids. Anal. Biochem., 324, 143-152.
    • (2004) Anal. Biochem. , vol.324 , pp. 143-152
    • Ugozzoli, L.A.1    Latorra, D.2    Pucket, R.3    Arar, K.4    Hamby, K.5
  • 8
    • 0008488313 scopus 로고    scopus 로고
    • Detection of the factor V Leiden mutation by direct allele-specific hybridization of PCR amplicons to photoimmobilized locked nucleic acids
    • øOrum,H., Jakobsen,M.H., Koch,T., Vuust,J. and Borre,M.B. (1999) Detection of the factor V Leiden mutation by direct allele-specific hybridization of PCR amplicons to photoimmobilized locked nucleic acids. Clin. Chem., 45, 1898-1905.
    • (1999) Clin. Chem. , vol.45 , pp. 1898-1905
    • øOrum, H.1    Jakobsen, M.H.2    Koch, T.3    Vuust, J.4    Borre, M.B.5
  • 9
    • 0242352640 scopus 로고    scopus 로고
    • Design considerations and effects of LNA in PCR primers
    • Latorra,D., Arar,K. and Hurley,J.M. (2003) Design considerations and effects of LNA in PCR primers. Mol. Cell. Probes, 17, 253-259.
    • (2003) Mol. Cell. Probes , vol.17 , pp. 253-259
    • Latorra, D.1    Arar, K.2    Hurley, J.M.3
  • 10
    • 0038723184 scopus 로고    scopus 로고
    • Enhanced allele-specific PCR discrimination in SNP genotyping using 3′ locked nucleic acid (LNA) primers
    • Latorra,D., Campbell,K., Wolter,A. and Hurley,J.M. (2003) Enhanced allele-specific PCR discrimination in SNP genotyping using 3′ locked nucleic acid (LNA) primers. Hum. Mutat., 22, 79-85.
    • (2003) Hum. Mutat. , vol.22 , pp. 79-85
    • Latorra, D.1    Campbell, K.2    Wolter, A.3    Hurley, J.M.4
  • 11
    • 0042121058 scopus 로고    scopus 로고
    • OligoDesign: Optimal design of LNA (locked nucleic acid) oligonucleotide capture probes for gene expression profiling
    • Tolstrup,N., Nielsen,P.S., Kolberg,J.G., Frankel,A.M., Vissing,H. and Kauppinen,S. (2003) OligoDesign: Optimal design of LNA (locked nucleic acid) oligonucleotide capture probes for gene expression profiling. Nucleic Acids Res., 31, 3758-3762.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3758-3762
    • Tolstrup, N.1    Nielsen, P.S.2    Kolberg, J.G.3    Frankel, A.M.4    Vissing, H.5    Kauppinen, S.6
  • 15
    • 0036567147 scopus 로고    scopus 로고
    • Design of antisense oligonucleotides stabilized by locked nucleic acids
    • Kurreck,J. (2002) Design of antisense oligonucleotides stabilized by locked nucleic acids. Nucleic Acids Res., 30, 1911-1918.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 1911-1918
    • Kurreck, J.1
  • 17
    • 16544365954 scopus 로고    scopus 로고
    • Sensitive and specific detection of microRNAs by northern blot analysis using LNA-modified oligonucleotide probes
    • Valoczi,A., Hornyik,C., Varga,N., Burgyan,J., Kauppinen,S. and Havelda,Z. (2004) Sensitive and specific detection of microRNAs by northern blot analysis using LNA-modified oligonucleotide probes. Nucleic Acids Res., 32, e175.
    • (2004) Nucleic Acids Res. , vol.32
    • Valoczi, A.1    Hornyik, C.2    Varga, N.3    Burgyan, J.4    Kauppinen, S.5    Havelda, Z.6
  • 18
    • 0036606669 scopus 로고    scopus 로고
    • Design and characterization of decoy oligonucleotides containing locked nucleic acids
    • Crinelli,R., Bianchi,M., Gentilini,L. and Magnani,M. (2002) Design and characterization of decoy oligonucleotides containing locked nucleic acids. Nucleic Acids Res., 30, 2435-2443.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 2435-2443
    • Crinelli, R.1    Bianchi, M.2    Gentilini, L.3    Magnani, M.4
  • 19
    • 33645808435 scopus 로고    scopus 로고
    • Locked nucleic acid: High-affinity targeting of complementary RNA for RNomics
    • Kauppinen,S., Vester,B. and Wengel,J. (2006) Locked nucleic acid: high-affinity targeting of complementary RNA for RNomics. Handb. Exp. Pharmacol, 405-422.
    • (2006) Handb. Exp. Pharmacol , pp. 405-422
    • Kauppinen, S.1    Vester, B.2    Wengel, J.3
  • 21
    • 24944439851 scopus 로고    scopus 로고
    • Nanomechanical sensing of DNA sequences using piezoresistive cantilevers
    • Mukhopadhyay,R., Lorentzen,M., Kjems,J. and Besenbacher,F. (2005) Nanomechanical sensing of DNA sequences using piezoresistive cantilevers. Langmuir, 21, 8400-8408.
    • (2005) Langmuir , vol.21 , pp. 8400-8408
    • Mukhopadhyay, R.1    Lorentzen, M.2    Kjems, J.3    Besenbacher, F.4
  • 22
    • 2442496406 scopus 로고    scopus 로고
    • Sequence-dependent thermodynamic parameters for locked nucleic acid (LNA)-DNA duplex formation
    • McTigue,P.M., Peterson,R.J. and Kahn,J.D. (2004) Sequence-dependent thermodynamic parameters for locked nucleic acid (LNA)-DNA duplex formation. Biochemistry, 43, 5388-5405.
    • (2004) Biochemistry , vol.43 , pp. 5388-5405
    • McTigue, P.M.1    Peterson, R.J.2    Kahn, J.D.3
  • 23
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. II. Error probabilities
    • Ewing,B. and Green,P. (1998) Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res., 8, 186-194.
    • (1998) Genome Res. , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 24
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. Accuracy assessment
    • Ewing,B., Hillier,L., Wendl,M.C. and Green,P. (1998) Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res., 8, 175-185.
    • (1998) Genome Res. , vol.8 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 26
    • 0032539693 scopus 로고    scopus 로고
    • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
    • SantaLucia,J. (1998) A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. Proc. Natl Acad. Sci. USA, 95, 1460-1465.
    • (1998) Proc. Natl Acad. Sci. USA , vol.95 , pp. 1460-1465
    • SantaLucia, J.1
  • 27
    • 0034771194 scopus 로고    scopus 로고
    • 2+, deoxynucleotide triphosphate, and dimethyl sulfoxide concentrations with comparison to alternative empirical formulas
    • 2+, deoxynucleotide triphosphate, and dimethyl sulfoxide concentrations with comparison to alternative empirical formulas. Clin. Chem., 47, 1956-1961.
    • (2001) Clin. Chem. , vol.47 , pp. 1956-1961
    • von Ahsen, N.1    Wittwer, C.T.2    Schutz, E.3
  • 28
    • 0035113736 scopus 로고    scopus 로고
    • Locked nucleic acid (LNA): Fine-tuning the recognition of DNA and RNA
    • Braasch,D.A. and Corey,D.R. (2001) Locked nucleic acid (LNA): fine-tuning the recognition of DNA and RNA. Chem. Biol., 8, 1-7.
    • (2001) Chem. Biol. , vol.8 , pp. 1-7
    • Braasch, D.A.1    Corey, D.R.2
  • 29
    • 4644364097 scopus 로고    scopus 로고
    • Four viruses, two bacteria, and one receptor: Membrane cofactor protein (CD46) as pathogens' magnet
    • Cattaneo,R. (2004) Four viruses, two bacteria, and one receptor: membrane cofactor protein (CD46) as pathogens' magnet. J. Virol., 78, 4385-4388.
    • (2004) J. Virol. , vol.78 , pp. 4385-4388
    • Cattaneo, R.1
  • 31
    • 1242269406 scopus 로고    scopus 로고
    • Molecular dynamics simulations of DNA curvature and flexibility: Helix phasing and premelting
    • Beveridge,D.L., Dixit,S.B., Barreiro,G. and Thayer,K.M. (2004) Molecular dynamics simulations of DNA curvature and flexibility: Helix phasing and premelting. Biopolymers, 73, 380-403.
    • (2004) Biopolymers , vol.73 , pp. 380-403
    • Beveridge, D.L.1    Dixit, S.B.2    Barreiro, G.3    Thayer, K.M.4
  • 32
    • 33646557618 scopus 로고    scopus 로고
    • Single-nucleotide-polymorphism-specific PCR for quantification and discrimination of Chlamydia pneumoniae genotypes by use of a 'locked' nucleic acid
    • Rupp,J., Solbach,W. and Gieffers,J. (2006) Single-nucleotide-polymorphism-specific PCR for quantification and discrimination of Chlamydia pneumoniae genotypes by use of a 'locked' nucleic acid. Appl. Environ. Microbiol., 72, 3785-3787.
    • (2006) Appl. Environ. Microbiol. , vol.72 , pp. 3785-3787
    • Rupp, J.1    Solbach, W.2    Gieffers, J.3
  • 34
    • 0004249246 scopus 로고    scopus 로고
    • WH Freeman and Company, New York
    • Sokal,R.R. and Rohlf,F.J. (1997) Biometry. WH Freeman and Company, New York.
    • (1997) Biometry
    • Sokal, R.R.1    Rohlf, F.J.2
  • 35
    • 0029137215 scopus 로고
    • Priming efficiency in PCR
    • Rychlik,W. (1995) Priming efficiency in PCR. Biotechniques, 18, 84-90.
    • (1995) Biotechniques , vol.18 , pp. 84-90
    • Rychlik, W.1
  • 36
    • 2342613554 scopus 로고    scopus 로고
    • Strong positional preference in the interaction of LNA oligonucleotides with DNA polymerase and proofreading exonuclease activities: Implications for genotyping assays
    • Di Giusto,D.A. and King,G.C. (2004) Strong positional preference in the interaction of LNA oligonucleotides with DNA polymerase and proofreading exonuclease activities: Implications for genotyping assays. Nucleic Acids Res., 32, e32.
    • (2004) Nucleic Acids Res. , vol.32
    • Di Giusto, D.A.1    King, G.C.2
  • 38
    • 0038340327 scopus 로고    scopus 로고
    • Primer design for automated DNA sequencing in a core facility
    • O'Shaughnessy,J.B., Chan,M., Clark,K. and Ivanetich,K.M. (2003) Primer design for automated DNA sequencing in a core facility. Biotechniques, 35, 112-121.
    • (2003) Biotechniques , vol.35 , pp. 112-121
    • O'Shaughnessy, J.B.1    Chan, M.2    Clark, K.3    Ivanetich, K.M.4
  • 39
    • 0038002236 scopus 로고    scopus 로고
    • Analysis and quantification of multiple methylation variable positions in CpG islands by pyrosequencing
    • Tost,J., Dunker,J. and Gut,I.G. (2003) Analysis and quantification of multiple methylation variable positions in CpG islands by pyrosequencing. Biotechniques, 35, 152-156.
    • (2003) Biotechniques , vol.35 , pp. 152-156
    • Tost, J.1    Dunker, J.2    Gut, I.G.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.