메뉴 건너뛰기




Volumn 5, Issue 3, 2006, Pages 181-186

Mprobe 2.0: Computer-aided probe design for oligonucleotide microarray

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER AIDED DESIGN; COMPUTER PROGRAM; DNA MICROARRAY; FACTUAL DATABASE; GENE EXPRESSION; MPROBE 2; NUCLEOTIDE SEQUENCE; OLIGONUCLEOTIDE PROBE; STRUCTURE ANALYSIS;

EID: 33747868675     PISSN: 11755636     EISSN: 11755636     Source Type: Journal    
DOI: 10.2165/00822942-200605030-00006     Document Type: Article
Times cited : (10)

References (27)
  • 1
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genomewide expression patterns
    • Eisen MB, Spellman PT, Brown PO, et al. Cluster analysis and display of genomewide expression patterns. Proc Natl Acad Sci U S A 1998; 95: 14863-8
    • (1998) Proc Natl Acad Sci U S A , vol.95 , pp. 14863-14868
    • Eisen, M.B.1    Spellman, P.T.2    Brown, P.O.3
  • 2
    • 0036190915 scopus 로고    scopus 로고
    • Tclass: Tumor classification system based on gene expression profile
    • Li WJ, Xiong MM. Tclass: tumor classification system based on gene expression profile. Bioinformatics 2002; 18: 325-6
    • (2002) Bioinformatics , vol.18 , pp. 325-326
    • Li, W.J.1    Xiong, M.M.2
  • 3
    • 0037620686 scopus 로고    scopus 로고
    • SamCluster: An integrated scheme for automatic discovery of sample classes using gene expression profile
    • Li WJ, Fan M, Xiong MM. SamCluster: an integrated scheme for automatic discovery of sample classes using gene expression profile. Bioinformatics 2003; 19: 811-7
    • (2003) Bioinformatics , vol.19 , pp. 811-817
    • Li, W.J.1    Fan, M.2    Xiong, M.M.3
  • 4
    • 10744226222 scopus 로고    scopus 로고
    • Computational discovery of gene modules and regulatory networks
    • Bar-Joseph Z, Gerber GK, Lee TI, et al. Computational discovery of gene modules and regulatory networks. Nat Biotechnol 2003; 21: 1337-42
    • (2003) Nat Biotechnol , vol.21 , pp. 1337-1342
    • Bar-Joseph, Z.1    Gerber, G.K.2    Lee, T.I.3
  • 5
    • 4143138539 scopus 로고    scopus 로고
    • Designing microarray oligonucleotide probes
    • Russell R. Designing microarray oligonucleotide probes. Brief Bioinform 2003; 4: 361-7
    • (2003) Brief Bioinform , vol.4 , pp. 361-367
    • Russell, R.1
  • 6
    • 7944220031 scopus 로고    scopus 로고
    • Determinants of sensitivity and specificity in spotted DNA microarrays with unmodified oligonucleotides
    • Kucho K, Yoneda H, Harada M, et al. Determinants of sensitivity and specificity in spotted DNA microarrays with unmodified oligonucleotides. Genes Genet Syst 2004; 79: 189-97
    • (2004) Genes Genet Syst , vol.79 , pp. 189-197
    • Kucho, K.1    Yoneda, H.2    Harada, M.3
  • 7
    • 18544410036 scopus 로고    scopus 로고
    • Assessing unmodified 70-mer oligonucleotide probe performance on glass-slide microarrays
    • Wang HY, Malek RL, Kwitek AE, et al. Assessing unmodified 70-mer oligonucleotide probe performance on glass-slide microarrays. Genome Biol 2003; 4: R5
    • (2003) Genome Biol , vol.4
    • Wang, H.Y.1    Malek, R.L.2    Kwitek, A.E.3
  • 8
    • 0034669668 scopus 로고    scopus 로고
    • Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays
    • Kane MD, Jatkoe TA, Stumpf CR, et al. Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays. Nucleic Acids Res 2000; 28: 4552-7
    • (2000) Nucleic Acids Res , vol.28 , pp. 4552-4557
    • Kane, M.D.1    Jatkoe, T.A.2    Stumpf, C.R.3
  • 9
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul SF, Madden TL, Schaffer AA, et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997; 25: 3389-402
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3
  • 10
    • 0035190608 scopus 로고    scopus 로고
    • Selection of optimal DNA oligos for gene expression arrays
    • Li F, Stormo GD. Selection of optimal DNA oligos for gene expression arrays. Bioinformatics 2001; 17: 1067-76
    • (2001) Bioinformatics , vol.17 , pp. 1067-1076
    • Li, F.1    Stormo, G.D.2
  • 11
    • 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, Sharp BM. Oliz: a suite of Perl scripts that assist in the design of microarrays using 50mer oligonucleotides from the 3′ untranslated region. BMC Bioinformatics 2002; 3: 27
    • (2002) BMC Bioinformatics , vol.3 , pp. 27
    • Chen, H.1    Sharp, B.M.2
  • 12
    • 0036952918 scopus 로고    scopus 로고
    • Oligodb: Interactive design of oligo DNA for transcription profiling of human genes
    • Mrowka R, Schuchhardt JGC. Oligodb: interactive design of oligo DNA for transcription profiling of human genes. Bioinformatics 2002; 18: 1686-7
    • (2002) Bioinformatics , vol.18 , pp. 1686-1687
    • Mrowka, R.1    Schuchhardt, J.G.C.2
  • 13
    • 0042121060 scopus 로고    scopus 로고
    • PROBEmer: A web-based software tool for selecting optimal DNA oligos
    • Emrich SJ, Lowe M, Delcher AL. PROBEmer: a web-based software tool for selecting optimal DNA oligos. Nucleic Acids Res 2003; 31: 3746-50
    • (2003) Nucleic Acids Res , vol.31 , pp. 3746-3750
    • Emrich, S.J.1    Lowe, M.2    Delcher, A.L.3
  • 14
    • 0037958765 scopus 로고    scopus 로고
    • Selection of oligonucleotide probes for protein coding sequences
    • Wang X, Seed B. Selection of oligonucleotide probes for protein coding sequences. Bioinformatics 2003; 19: 796-802
    • (2003) Bioinformatics , vol.19 , pp. 796-802
    • Wang, X.1    Seed, B.2
  • 15
    • 0043123142 scopus 로고    scopus 로고
    • Design of oligonucleotides for microarrays and perspectives for design of multi-transcriptome arrays
    • Nielsen HB, Wernersson R, Knudsen S. Design of oligonucleotides for microarrays and perspectives for design of multi-transcriptome arrays. Nucleic Acids Res 2003; 31: 3491-6
    • (2003) Nucleic Acids Res , vol.31 , pp. 3491-3496
    • Nielsen, H.B.1    Wernersson, R.2    Knudsen, S.3
  • 16
    • 0038239283 scopus 로고    scopus 로고
    • OligoArray 2.0: Design of oligonucleotide probes for DNA microarrays using a thermodynamic approach
    • Rouillard JM, Zuker M, Gulari E. OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach. Nucleic Acids Res 2003; 31: 3057-62
    • (2003) Nucleic Acids Res , vol.31 , pp. 3057-3062
    • Rouillard, J.M.1    Zuker, M.2    Gulari, E.3
  • 17
    • 10244229783 scopus 로고    scopus 로고
    • Picky: Oligo microarray design for large genomes
    • Chou HH, Hsia AP, Mooney DL, et al. Picky: oligo microarray design for large genomes. Bioinformatics 2004; 20: 2893-902
    • (2004) Bioinformatics , vol.20 , pp. 2893-2902
    • Chou, H.H.1    Hsia, A.P.2    Mooney, D.L.3
  • 18
    • 1042304215 scopus 로고    scopus 로고
    • ROSO: Optimizing oligonucleotide probes for microarrays
    • Reymond N, Charles H, Duret L, et al. ROSO: optimizing oligonucleotide probes for microarrays. Bioinformatics 2004; 20: 271-3
    • (2004) Bioinformatics , vol.20 , pp. 271-273
    • Reymond, N.1    Charles, H.2    Duret, L.3
  • 19
    • 17444407072 scopus 로고    scopus 로고
    • YODA: Selecting signature oligonucleotides
    • Nordberg EK. YODA: selecting signature oligonucleotides. Bioinformatics 2005; 21: 1365-70
    • (2005) Bioinformatics , vol.21 , pp. 1365-1370
    • Nordberg, E.K.1
  • 20
    • 16344370555 scopus 로고    scopus 로고
    • GoArrays: Highly dynamic and efficient microarray probe design
    • Rimour S, Hill D, Militon C, et al. GoArrays: highly dynamic and efficient microarray probe design. Bioinformatics 2005; 21: 1094-103
    • (2005) Bioinformatics , vol.21 , pp. 1094-1103
    • Rimour, S.1    Hill, D.2    Militon, C.3
  • 21
    • 0032539693 scopus 로고    scopus 로고
    • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
    • SantaLucia J. A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. Proc Natl Acad Sci U S A 1998; 95: 1460-5
    • (1998) Proc Natl Acad Sci U S A , vol.95 , pp. 1460-1465
    • SantaLucia, J.1
  • 22
    • 0019876473 scopus 로고
    • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
    • Zuker M, Stiegler P. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res 1981; 9: 133-48
    • (1981) Nucleic Acids Res , vol.9 , pp. 133-148
    • Zuker, M.1    Stiegler, P.2
  • 24
    • 2442674384 scopus 로고    scopus 로고
    • MProbe: Computer aided probe design for oligonucleotide microarrays
    • Li WJ, Huang J, Fan M, et al. MProbe: computer aided probe design for oligonucleotide microarrays. Appl Bioinformatics 2002; 1: 163-6
    • (2002) Appl Bioinformatics , vol.1 , pp. 163-166
    • Li, W.J.1    Huang, J.2    Fan, M.3
  • 25
    • 33747836751 scopus 로고    scopus 로고
    • Preparation of oligonucleotide microarray for expression detection of virus infection-associated genes and its application in screening responsive genes against HBV infection
    • Yang J, Yao J, Yan GN, et al. Preparation of oligonucleotide microarray for expression detection of virus infection-associated genes and its application in screening responsive genes against HBV infection. Chinese J Virol 2004; 20: 218-24
    • (2004) Chinese J Virol , vol.20 , pp. 218-224
    • Yang, J.1    Yao, J.2    Yan, G.N.3
  • 26
    • 0036651525 scopus 로고    scopus 로고
    • Preparation and analysis of oligonucleotide microarray for expression detection of mouse cytokine-associated genes
    • Huang J, Chen SH, Tong L, et al. Preparation and analysis of oligonucleotide microarray for expression detection of mouse cytokine-associated genes. Chin J Biotechnol 2002; 18: 501-4
    • (2002) Chin J Biotechnol , vol.18 , pp. 501-504
    • Huang, J.1    Chen, S.H.2    Tong, L.3
  • 27
    • 1642575066 scopus 로고    scopus 로고
    • Preparation of oligonucleotide microarray for tumor-associated gene expression detection and its primary application
    • Huang J, Du QY, Ding Y, et al. Preparation of oligonucleotide microarray for tumor-associated gene expression detection and its primary application. Prog Biochem Biophys 2003; 30: 900-5
    • (2003) Prog Biochem Biophys , vol.30 , pp. 900-905
    • Huang, J.1    Du, Q.Y.2    Ding, Y.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.