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Volumn 31, Issue 13, 2003, Pages 3758-3762

OligoDesign: Optimal design of LNA (locked nucleic acid) oligonucleotide capture probes for gene expression profiling

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEIC ACID; COMPLEMENTARY DNA; COMPLEMENTARY RNA; OLIGONUCLEOTIDE; RNA;

EID: 0042121058     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg580     Document Type: Article
Times cited : (107)

References (36)
  • 1
    • 0028806048 scopus 로고
    • Quantitative monitoring of gene expression patterns with a complementary DNA microarray
    • Schena,M., Shalon,D., Davis,R.W. and Brown,P.O. (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science, 270, 467-470.
    • (1995) Science , vol.270 , pp. 467-470
    • Schena, M.1    Shalon, D.2    Davis, R.W.3    Brown, P.O.4
  • 4
    • 0029812283 scopus 로고    scopus 로고
    • A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization
    • Shalon,D., Smith,S.J. and Brown,P.O. (1996) A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization. Genome Res., 6, 639-645.
    • (1996) Genome Res. , vol.6 , pp. 639-645
    • Shalon, D.1    Smith, S.J.2    Brown, P.O.3
  • 5
    • 0030669030 scopus 로고    scopus 로고
    • Exploring the metabolic and genetic control of gene expression on a genomic scale
    • DeRisi,J.L., Iyer,V.R. and Brown,P.O. (1997) Exploring the metabolic and genetic control of gene expression on a genomic scale. Science, 278, 680-686.
    • (1997) Science , vol.278 , pp. 680-686
    • DeRisi, J.L.1    Iyer, V.R.2    Brown, P.O.3
  • 6
    • 0033031437 scopus 로고    scopus 로고
    • DNA arrays for analysis of gene expression
    • Eisen,M.B. and Brown,P.O. (1999) DNA arrays for analysis of gene expression. Methods Enzymol., 303, 179-205.
    • (1999) Methods Enzymol. , vol.303 , pp. 179-205
    • Eisen, M.B.1    Brown, P.O.2
  • 9
    • 0346942394 scopus 로고    scopus 로고
    • Monitoring expression of genes involved in drug metabolism and toxicology using DNA microarrays
    • Gerhold,D., Lu,M., Xu,J., Austin,C., Caskey,C.T. and Rushmore,T. (2001) Monitoring expression of genes involved in drug metabolism and toxicology using DNA microarrays. Physiol. Genomics, 5, 161-170.
    • (2001) Physiol. Genomics , vol.5 , pp. 161-170
    • Gerhold, D.1    Lu, M.2    Xu, J.3    Austin, C.4    Caskey, C.T.5    Rushmore, T.6
  • 11
    • 0034669668 scopus 로고    scopus 로고
    • Assessment of the sensitivity and specificity of oligonucleotide (50mer) Microarrays
    • Kane,M.D., Jatkoe,T.A., Stumpf,C.R., Lu,J., Thomas,J.D. and Madore,S.J. (2000) Assessment of the sensitivity and specificity of oligonucleotide (50mer) Microarrays. Nucleic Acids Res., 28, 4552-4557.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 4552-4557
    • Kane, M.D.1    Jatkoe, T.A.2    Stumpf, C.R.3    Lu, J.4    Thomas, J.D.5    Madore, S.J.6
  • 12
    • 0037102247 scopus 로고    scopus 로고
    • Use of hybridisation kinetics for differentiating specific from non-specific binding to oligonucleotide microarrays
    • Dai,H., Meyer,M., Stepaniants,S., Ziman,M. and Stoughton,R. (2002) Use of hybridisation kinetics for differentiating specific from non-specific binding to oligonucleotide microarrays. Nucleic Acids Res., 30, e86.
    • (2002) Nucleic Acids Res. , vol.30 , pp. e86
    • Dai, H.1    Meyer, M.2    Stepaniants, S.3    Ziman, M.4    Stoughton, R.5
  • 16
    • 0032473890 scopus 로고    scopus 로고
    • LNA (locked nucleic acids): Synthesis of the adenine, cytosine, guanine, 5-methylcytosine, thymine and uracil bicyclonucleoside monomers, oligomerisation, and unprecedented nucleic acid recognition
    • Koshkin,A., Singh,S.K., Nielsen,P., Rajwanshi,V.K., Kumar,R., Meldgaard,M., Olsen,C.E., and Wengel,J. (1998) LNA (locked nucleic acids): synthesis of the adenine, cytosine, guanine, 5-methylcytosine, thymine and uracil bicyclonucleoside monomers, oligomerisation, and unprecedented nucleic acid recognition. Tetrahedron, 54, 3607-3630.
    • (1998) Tetrahedron , vol.54 , pp. 3607-3630
    • Koshkin, A.1    Singh, S.K.2    Nielsen, P.3    Rajwanshi, V.K.4    Kumar, R.5    Meldgaard, M.6    Olsen, C.E.7    Wengel, J.8
  • 17
    • 0343065617 scopus 로고    scopus 로고
    • LNA (locked nucleic acids): Synthesis and high-affinity nucleic acid recognition
    • Singh,S.K., Nielsen,P., Koshkin,A. and Wengel,J. (1998) LNA (locked nucleic acids): Synthesis and high-affinity nucleic acid recognition. Chem. Commun., 4, 455-456.
    • (1998) Chem. Commun. , vol.4 , pp. 455-456
    • Singh, S.K.1    Nielsen, P.2    Koshkin, A.3    Wengel, J.4
  • 20
    • 0012951839 scopus 로고    scopus 로고
    • Oliz, a suite of Perl scripts that assist in the design of microarrays using 50mer oligonucleotides from the 3� untranslated region
    • Chen,H., and Sharp,B.M. (2002) Oliz, a suite of Perl scripts that assist in the design of microarrays using 50mer oligonucleotides from the 3� untranslated region. BMC Bioinformatics, 3, 27-34.
    • (2002) BMC Bioinformatics , vol.3 , pp. 27-34
    • Chen, H.1    Sharp, B.M.2
  • 21
    • 0036208669 scopus 로고    scopus 로고
    • OligoArray: Genomescale oligonucleotide design for microarrays
    • Rouillard,J.M., Herbert,C.J. and Zuker,M. (2002) OligoArray: genomescale oligonucleotide design for microarrays. Bioinformatics, 18, 486-487.
    • (2002) Bioinformatics , vol.18 , pp. 486-487
    • Rouillard, J.M.1    Herbert, C.J.2    Zuker, M.3
  • 22
    • 0035190608 scopus 로고    scopus 로고
    • Selection of optimal DNA oligos for gene expression arrays
    • Li,F. and Stormo,G.D. (2001) Selection of optimal DNA oligos for gene expression arrays. Bioinformatics, 17, 1067-1076.
    • (2001) Bioinformatics , vol.17 , pp. 1067-1076
    • Li, F.1    Stormo, G.D.2
  • 25
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • Pearson,W.R. and Lipman,D.J. (1988) Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. USA, 85, 2444-2448.
    • (1988) Proc. Natl. Acad. Sci. USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 27
    • 0032539693 scopus 로고    scopus 로고
    • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
    • SantaLucia,J.Jr (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 Jr., J.1
  • 28
    • 0030875847 scopus 로고    scopus 로고
    • Thermodynamics and NMR of internal G:T mismatches in DNA
    • Allawi,H.T. and SantaLucia,J.Jr (1997) Thermodynamics and NMR of internal G:T mismatches in DNA. Biochemistry, 36, 10581-10594.
    • (1997) Biochemistry , vol.36 , pp. 10581-10594
    • Allawi, H.T.1    SantaLucia Jr., J.2
  • 29
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith,T.F., Waterman,M.S. (1981) Identification of common molecular subsequences. J. Mol. Biol., 147, 195-197.
    • (1981) J. Mol. Biol. , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 31
    • 0025077218 scopus 로고
    • Speeding up the dynamic algorithm for planar RNA folding
    • Nussinov,R., Shapiro,B., Le,S. and Maizel,J.V. (1990) Speeding up the dynamic algorithm for planar RNA folding. Math. Biosci., 100, 33-47.
    • (1990) Math. Biosci. , vol.100 , pp. 33-47
    • Nussinov, R.1    Shapiro, B.2    Le, S.3    Maizel, J.V.4
  • 32
    • 0002287019 scopus 로고    scopus 로고
    • Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide
    • Barciszewski,J. and Clark,B.F.C. (eds), Kluwer Academic Publishers, Dordrecht, The Netherlands
    • Zuker,M., Mathews,D.H. and Turner,D.H. (1999) Algorithms and thermodynamics for RNA secondary structure prediction: a practical guide. In Barciszewski,J. and Clark,B.F.C. (eds), RNA Biochemistry and Biotechnology, NATO ASI Series, Kluwer Academic Publishers, Dordrecht, The Netherlands, pp. 11-43.
    • (1999) RNA Biochemistry and Biotechnology, NATO ASI Series , pp. 11-43
    • Zuker, M.1    Mathews, D.H.2    Turner, D.H.3
  • 33
    • 0033591465 scopus 로고    scopus 로고
    • Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
    • Mathews,D.H., Sabina,J., Zuker,M. and Turner,D.H. (1999) Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol., 288, 911-940.
    • (1999) J. Mol. Biol. , vol.288 , pp. 911-940
    • Mathews, D.H.1    Sabina, J.2    Zuker, M.3    Turner, D.H.4
  • 34
    • 0036201645 scopus 로고    scopus 로고
    • Genotyping of the apolipoprotein B R3500Q mutation using immobilized locked nucleic acid capture probes
    • Jacobsen,N., Fenger,M., Bentzen,J. Rasmussen,S.L., Jakobsen,M.H., Fenstholt,J. and Skouv,J. (2002) Genotyping of the apolipoprotein B R3500Q mutation using immobilized locked nucleic acid capture probes. Clin. Chem., 48, 657-660.
    • (2002) Clin. Chem. , vol.48 , pp. 657-660
    • Jacobsen, N.1    Fenger, M.2    Bentzen, J.3    Rasmussen, S.L.4    Jakobsen, M.H.5    Fenstholt, J.6    Skouv, J.7
  • 36
    • 0036110292 scopus 로고    scopus 로고
    • Identification of a novel cis-regulatory element involved in the heat shock response in Caenorhabditis elegans using microarray gene expression and computational methods
    • GuhaThakurta,D., Palomar,L., Stormo,G.D., Tedesco,P., Johnson,T.E., Walker,D.W., Lithgow,G., Kim,S. and Link,C.D. (2002) Identification of a novel cis-regulatory element involved in the heat shock response in Caenorhabditis elegans using microarray gene expression and computational methods. Genome Res., 12, 701-712.
    • (2002) Genome Res. , vol.12 , pp. 701-712
    • GuhaThakurta, D.1    Palomar, L.2    Stormo, G.D.3    Tedesco, P.4    Johnson, T.E.5    Walker, D.W.6    Lithgow, G.7    Kim, S.8    Link, C.D.9


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.