메뉴 건너뛰기




Volumn 30, Issue 3, 2006, Pages 209-219

DNA microarray applications in functional genomics

Author keywords

DNA; Gene chips; Genome; Methylation; Microarrays; Molecular pathology; Oligonucleotide; RNA

Indexed keywords

EMETINE; GENE PRODUCT;

EID: 33745892074     PISSN: 01913123     EISSN: 15210758     Source Type: Journal    
DOI: 10.1080/01913120500521380     Document Type: Review
Times cited : (23)

References (54)
  • 1
    • 2042437650 scopus 로고    scopus 로고
    • Initial sequencing and analysis of the human genome
    • Lander ES, Linton LM, Birren B, et al. Initial sequencing and analysis of the human genome. Nature. 2001;409(6822):860-921.
    • (2001) Nature , vol.409 , Issue.6822 , pp. 860-921
    • Lander, E.S.1    Linton, L.M.2    Birren, B.3
  • 2
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • Venter JC, Adams MD, Myers EW, et al. The sequence of the human genome. Science. 2001;291(5507):1304-1351.
    • (2001) Science , vol.291 , Issue.5507 , pp. 1304-1351
    • Venter, J.C.1    Adams, M.D.2    Myers, E.W.3
  • 3
    • 84984934354 scopus 로고    scopus 로고
    • Molecular interactions on microarrays
    • Southern E, Mir K, Shchepinov M. Molecular interactions on microarrays. Nat Genet. 1999;21(1 Suppl):5-9.
    • (1999) Nat Genet , vol.21 , Issue.1 SUPPL. , pp. 5-9
    • Southern, E.1    Mir, K.2    Shchepinov, M.3
  • 4
    • 0036900267 scopus 로고    scopus 로고
    • Options available - From start to finish - for obtaining data from DNA microarrays II
    • Holloway AJ, van Laar RK, Tothill RW, Bowtell DD. Options available - from start to finish - for obtaining data from DNA microarrays II. Nat Genet. 2002;32(Suppl):481-489.
    • (2002) Nat Genet , vol.32 , Issue.SUPPL. , pp. 481-489
    • Holloway, A.J.1    Van Laar, R.K.2    Tothill, R.W.3    Bowtell, D.D.4
  • 6
    • 0037458085 scopus 로고    scopus 로고
    • Microarrays: The use of oligonucleotides and cDNA for the analysis of gene expression
    • Barrett JC, Kawasaki ES. Microarrays: the use of oligonucleotides and cDNA for the analysis of gene expression. Drug Discov Today. 2003;8:134-141.
    • (2003) Drug Discov Today , vol.8 , pp. 134-141
    • Barrett, J.C.1    Kawasaki, E.S.2
  • 7
    • 0033200398 scopus 로고    scopus 로고
    • Expression profiling: DNA arrays in many guises
    • Granjeaud S, Bertucci F, Jordan BR. Expression profiling: DNA arrays in many guises. Bioessays. 1999;21:781-790.
    • (1999) Bioessays , vol.21 , pp. 781-790
    • Granjeaud, S.1    Bertucci, F.2    Jordan, B.R.3
  • 8
    • 0028806048 scopus 로고
    • Quantitative monitoring of gene expression patterns with a complementary DNA microarray
    • Schena M, Shalon D, Davis RW, Brown PO. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science. 1995;270(5235):467-470.
    • (1995) Science , vol.270 , Issue.5235 , pp. 467-470
    • Schena, M.1    Shalon, D.2    Davis, R.W.3    Brown, P.O.4
  • 12
    • 0026108692 scopus 로고
    • Light-directed, spatially addressable parallel chemical synthesis
    • Fodor SP, Read JL, Pirrung MC, Stryer L, Lu AT, Solas D. Light-directed, spatially addressable parallel chemical synthesis. Science. 1991;251(4995):767- 773.
    • (1991) Science , vol.251 , Issue.4995 , pp. 767-773
    • Fodor, S.P.1    Read, J.L.2    Pirrung, M.C.3    Stryer, L.4    Lu, A.T.5    Solas, D.6
  • 13
    • 0035072249 scopus 로고    scopus 로고
    • Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer
    • Hughes TR, Mao M, Jones AR, et al. Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nat Biotechnol. 2001;19:342-347.
    • (2001) Nat Biotechnol , vol.19 , pp. 342-347
    • Hughes, T.R.1    Mao, M.2    Jones, A.R.3
  • 14
    • 0036807321 scopus 로고    scopus 로고
    • Expression profiling with oligonucleotide arrays: Technologies and applications for neurobiology
    • Sendera TJ, Dorris D, Ramakrishnan R, Nguyen A, Trakas D, Mazumder A. Expression profiling with oligonucleotide arrays: technologies and applications for neurobiology. Neurochem Res. 2002; 27:1005-1026.
    • (2002) Neurochem Res , vol.27 , pp. 1005-1026
    • Sendera, T.J.1    Dorris, D.2    Ramakrishnan, R.3    Nguyen, A.4    Trakas, D.5    Mazumder, A.6
  • 15
    • 0034575479 scopus 로고    scopus 로고
    • Sequence variation in genes and genomic DNA: Methods for large-scale analysis
    • Mir KU, Southern EM. Sequence variation in genes and genomic DNA: methods for large-scale analysis. Annu Rev Genomics Hum Genet. 2000;1:329-360.
    • (2000) Annu Rev Genomics Hum Genet , vol.1 , pp. 329-360
    • Mir, K.U.1    Southern, E.M.2
  • 16
    • 0035094764 scopus 로고    scopus 로고
    • Variation is the spice of life
    • Kruglyak L, Nickerson DA. Variation is the spice of life. Nat Genet. 2001;27:234-236.
    • (2001) Nat Genet , vol.27 , pp. 234-236
    • Kruglyak, L.1    Nickerson, D.A.2
  • 17
    • 0035988620 scopus 로고    scopus 로고
    • The promise of biomarkers in cancer screening and detection
    • Negm RS, Verma M, Srivastava S. The promise of biomarkers in cancer screening and detection. Trends Mol Med. 2002;8:288-293.
    • (2002) Trends Mol Med , vol.8 , pp. 288-293
    • Negm, R.S.1    Verma, M.2    Srivastava, S.3
  • 19
    • 0035865322 scopus 로고    scopus 로고
    • A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms
    • Sachidanandam R, Weissman D, Schmidt SC, et al. A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature. 2001;409(6822):928-933.
    • (2001) Nature , vol.409 , Issue.6822 , pp. 928-933
    • Sachidanandam, R.1    Weissman, D.2    Schmidt, S.C.3
  • 20
    • 0032524383 scopus 로고    scopus 로고
    • Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome
    • Wang DG, Fan JB, Siao CJ, et al. Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science. 1998;280(5366):1077-1082.
    • (1998) Science , vol.280 , Issue.5366 , pp. 1077-1082
    • Wang, D.G.1    Fan, J.B.2    Siao, C.J.3
  • 21
    • 18344364081 scopus 로고    scopus 로고
    • New developments in high-throughput resequencing and variation detection using high density microarrays
    • Warrington JA, Shah NA, Chen X, et al. New developments in high-throughput resequencing and variation detection using high density microarrays. Hum Mutat. 2002;19:402-409.
    • (2002) Hum Mutat , vol.19 , pp. 402-409
    • Warrington, J.A.1    Shah, N.A.2    Chen, X.3
  • 22
    • 0030810721 scopus 로고    scopus 로고
    • Minisequencing: A specific tool for DNA analysis and diagnostics on oligonucleotide arrays
    • Pastinen T, Kurg A, Metspalu A, Peltonen L, Syvanen AC. Minisequencing: a specific tool for DNA analysis and diagnostics on oligonucleotide arrays. Genome Res. 1997;7:606-614.
    • (1997) Genome Res , vol.7 , pp. 606-614
    • Pastinen, T.1    Kurg, A.2    Metspalu, A.3    Peltonen, L.4    Syvanen, A.C.5
  • 23
    • 0033865806 scopus 로고    scopus 로고
    • A system for specific, high-throughput genotyping by allele-specific primer extension on microarrays
    • Pastinen T, Raitio M, Lindroos K, Tainola P, Peltonen L, Syvanen AC. A system for specific, high-throughput genotyping by allele-specific primer extension on microarrays. Genome Res. 2000;10: 1031-1042.
    • (2000) Genome Res , vol.10 , pp. 1031-1042
    • Pastinen, T.1    Raitio, M.2    Lindroos, K.3    Tainola, P.4    Peltonen, L.5    Syvanen, A.C.6
  • 24
    • 0033936872 scopus 로고    scopus 로고
    • Parallel genotyping of human SNPs using generic high-density oligonucleotide tag arrays
    • Fan JB, Chen X, Halushka MK, Berno A, Huang X, Ryder T et al. Parallel genotyping of human SNPs using generic high-density oligonucleotide tag arrays. Genome Res. 2000;10:853-860.
    • (2000) Genome Res , vol.10 , pp. 853-860
    • Fan, J.B.1    Chen, X.2    Halushka, M.K.3    Berno, A.4    Huang, X.5    Ryder, T.6
  • 25
    • 84984934752 scopus 로고    scopus 로고
    • Resequencing and mutational analysis using oligonucleotide microarrays
    • Hacia JG. Resequencing and mutational analysis using oligonucleotide microarrays. Nat Genet. 1999;21(1 Suppl):42-47.
    • (1999) Nat Genet , vol.21 , Issue.1 SUPPL. , pp. 42-47
    • Hacia, J.G.1
  • 26
    • 0032415283 scopus 로고    scopus 로고
    • Strategies for mutational analysis of the large multiexon ATM gene using high-density oligonucleotide arrays
    • Hacia JG, Sun B, Hunt N, et al. Strategies for mutational analysis of the large multiexon ATM gene using high-density oligonucleotide arrays. Genome Res. 1998;8:1245-1258.
    • (1998) Genome Res , vol.8 , pp. 1245-1258
    • Hacia, J.G.1    Sun, B.2    Hunt, N.3
  • 27
    • 0033595018 scopus 로고    scopus 로고
    • Rapid p53 sequence analysis in primary lung cancer using an oligonucleotide probe array
    • Ahrendt SA, Halachmi S, Chow JT, et al. Rapid p53 sequence analysis in primary lung cancer using an oligonucleotide probe array. Proc Natl Acad Sci U S A. 1999;96:7382-7387.
    • (1999) Proc Natl Acad Sci U S A , vol.96 , pp. 7382-7387
    • Ahrendt, S.A.1    Halachmi, S.2    Chow, J.T.3
  • 28
    • 0034984305 scopus 로고    scopus 로고
    • Location analysis of DNA-bound proteins at the whole-genome level: Untangling transcriptional regulatory networks
    • Nal B, Mohr E, Ferrier P. Location analysis of DNA-bound proteins at the whole-genome level: untangling transcriptional regulatory networks. Bioessays. 2001;23:473-476.
    • (2001) Bioessays , vol.23 , pp. 473-476
    • Nal, B.1    Mohr, E.2    Ferrier, P.3
  • 29
    • 0034161329 scopus 로고    scopus 로고
    • Mapping chromosomal proteins in vivo by formaldehyde-crosslinked- chromatin immunoprecipitation
    • Orlando V. Mapping chromosomal proteins in vivo by formaldehyde- crosslinked-chromatin immunoprecipitation. Trends Biochem Sci. 2000;25:99-104.
    • (2000) Trends Biochem Sci , vol.25 , pp. 99-104
    • Orlando, V.1
  • 30
    • 0036649756 scopus 로고    scopus 로고
    • Genome-wide binding map of the histone deacetylase Rpd3 in yeast
    • Kurdistani SK, Robyr D, Tavazoie S, Grunstein M. Genome-wide binding map of the histone deacetylase Rpd3 in yeast. Nat Genet. 2002;31:248-254.
    • (2002) Nat Genet , vol.31 , pp. 248-254
    • Kurdistani, S.K.1    Robyr, D.2    Tavazoie, S.3    Grunstein, M.4
  • 31
    • 0035945567 scopus 로고    scopus 로고
    • Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
    • Iyer VR, Horak CE, Scafe CS, Botstein D, Snyder M, Brown PO. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature. 2001;409(6819):533-538.
    • (2001) Nature , vol.409 , Issue.6819 , pp. 533-538
    • Iyer, V.R.1    Horak, C.E.2    Scafe, C.S.3    Botstein, D.4    Snyder, M.5    Brown, P.O.6
  • 32
    • 0036024955 scopus 로고    scopus 로고
    • Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation
    • Weinmann AS, Farnham PJ. Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation. Methods. 2002;26:37-47.
    • (2002) Methods , vol.26 , pp. 37-47
    • Weinmann, A.S.1    Farnham, P.J.2
  • 33
    • 0037080674 scopus 로고    scopus 로고
    • Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis
    • Weinmann AS, Van PS, Oberley MJ, Huang TH, Farnham PJ. Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis. Genes Dev. 2002;16:235-244.
    • (2002) Genes Dev , vol.16 , pp. 235-244
    • Weinmann, A.S.1    Van, P.S.2    Oberley, M.J.3    Huang, T.H.4    Farnham, P.J.5
  • 34
    • 0026495364 scopus 로고
    • Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors
    • Kallioniemi A, Kallioniemi OP, Sudar D, et al. Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors. Science. 1992;258(5083):818-821.
    • (1992) Science , vol.258 , Issue.5083 , pp. 818-821
    • Kallioniemi, A.1    Kallioniemi, O.P.2    Sudar, D.3
  • 35
    • 0030701970 scopus 로고    scopus 로고
    • Matrix-based comparative genomic hybridization: Biochips to screen for genomic imbalances
    • Solinas-Toldo S, Lampel S, Stilgenbauer S, et al. Matrix-based comparative genomic hybridization: biochips to screen for genomic imbalances. Genes Chromosomes Cancer. 1997;20:399-407.
    • (1997) Genes Chromosomes Cancer , vol.20 , pp. 399-407
    • Solinas-Toldo, S.1    Lampel, S.2    Stilgenbauer, S.3
  • 36
    • 0036218046 scopus 로고    scopus 로고
    • Genome-wide detection of chromosomal imbalances in tumors using BAC microarrays
    • Cai WW, Mao JH, Chow CW, Damani S, Balmain A, Bradley A. Genome-wide detection of chromosomal imbalances in tumors using BAC microarrays. Nat Biotechnol. 2002;20:393-396.
    • (2002) Nat Biotechnol , vol.20 , pp. 393-396
    • Cai, W.W.1    Mao, J.H.2    Chow, C.W.3    Damani, S.4    Balmain, A.5    Bradley, A.6
  • 37
    • 0037376804 scopus 로고    scopus 로고
    • DNA microarrays for comparative genomic hybridization based on DOP-PCR amplification of BAC and PAC clones
    • Fiegler H, Carr P, Douglas EJ, et al. DNA microarrays for comparative genomic hybridization based on DOP-PCR amplification of BAC and PAC clones. Genes Chromosomes Cancer. 2003;36:361-374.
    • (2003) Genes Chromosomes Cancer , vol.36 , pp. 361-374
    • Fiegler, H.1    Carr, P.2    Douglas, E.J.3
  • 38
    • 0032823523 scopus 로고    scopus 로고
    • Genome-wide analysis of DNA copy-number changes using cDNA microarrays
    • Pollack JR, Perou CM, Alizadeh AA, et al. Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nat Genet. 1999;23:41-46.
    • (1999) Nat Genet , vol.23 , pp. 41-46
    • Pollack, J.R.1    Perou, C.M.2    Alizadeh, A.A.3
  • 39
    • 0027141519 scopus 로고
    • Number of CpG islands and genes in human and mouse
    • Antequera F, Bird A. Number of CpG islands and genes in human and mouse. Proc Natl Acad Sci U S A. 1993;90:11995-11999.
    • (1993) Proc Natl Acad Sci U S A , vol.90 , pp. 11995-11999
    • Antequera, F.1    Bird, A.2
  • 41
    • 0036798927 scopus 로고    scopus 로고
    • Cancer epigenomics
    • Plass C. Cancer epigenomics. Hum Mol Genet. 2002;11:2479-2488.
    • (2002) Hum Mol Genet , vol.11 , pp. 2479-2488
    • Plass, C.1
  • 42
    • 0011964662 scopus 로고    scopus 로고
    • Tumour class prediction and discovery by microarray-based DNA methylation analysis
    • Adorjan P, Distler J, Lipscher E, et al. Tumour class prediction and discovery by microarray-based DNA methylation analysis. Nucleic Acids Res. 2002;30:e21.
    • (2002) Nucleic Acids Res , vol.30
    • Adorjan, P.1    Distler, J.2    Lipscher, E.3
  • 43
    • 0035577862 scopus 로고    scopus 로고
    • Dissecting complex epigenetic alterations in breast cancer using CpG island microarrays
    • Yan PS, Chen CM, Shi H, et al. Dissecting complex epigenetic alterations in breast cancer using CpG island microarrays. Cancer Res. 2001;61:8375-8380.
    • (2001) Cancer Res , vol.61 , pp. 8375-8380
    • Yan, P.S.1    Chen, C.M.2    Shi, H.3
  • 44
    • 0034051419 scopus 로고    scopus 로고
    • CpG island arrays: An application toward deciphering epigenetic signatures of breast cancer
    • Yan PS, Perry MR, Laux DE, Asare AL, Caldwell CW, Huang TH. CpG island arrays: an application toward deciphering epigenetic signatures of breast cancer. Clin Cancer Res. 2000;6:1432-1438.
    • (2000) Clin Cancer Res , vol.6 , pp. 1432-1438
    • Yan, P.S.1    Perry, M.R.2    Laux, D.E.3    Asare, A.L.4    Caldwell, C.W.5    Huang, T.H.6
  • 45
    • 0036144883 scopus 로고    scopus 로고
    • Methylation-specific oligonucleotide microarray: A new potential for high-throughput methylation analysis
    • Gitan RS, Shi H, Chen CM, Van PS, Huang TH. Methylation-specific oligonucleotide microarray: a new potential for high-throughput methylation analysis. Genome Res. 2002;12:158-164.
    • (2002) Genome Res , vol.12 , pp. 158-164
    • Gitan, R.S.1    Shi, H.2    Chen, C.M.3    Van, P.S.4    Huang, T.H.5
  • 46
    • 18444364803 scopus 로고    scopus 로고
    • A microarray-based method for detecting methylated loci
    • Hatada I, Kato A, Morita S, et al. A microarray-based method for detecting methylated loci. J Hum Genet. 2002;47:448-451.
    • (2002) J Hum Genet , vol.47 , pp. 448-451
    • Hatada, I.1    Kato, A.2    Morita, S.3
  • 47
    • 0032837376 scopus 로고    scopus 로고
    • Nonsense-mediated mRNA decay in health and disease
    • Frischmeyer PA, Dietz HC. Nonsense-mediated mRNA decay in health and disease. Hum Mol Genet. 1999;8:1893-1900.
    • (1999) Hum Mol Genet , vol.8 , pp. 1893-1900
    • Frischmeyer, P.A.1    Dietz, H.C.2
  • 48
    • 0035005985 scopus 로고    scopus 로고
    • A strategy for disease gene identification through nonsense-mediated mRNA decay inhibition
    • Noensie EN, Dietz HC. A strategy for disease gene identification through nonsense-mediated mRNA decay inhibition. Nat Biotechnol. 2001;19:434-439.
    • (2001) Nat Biotechnol , vol.19 , pp. 434-439
    • Noensie, E.N.1    Dietz, H.C.2
  • 49
    • 1242296021 scopus 로고    scopus 로고
    • Manipulation of nonsense mediated decay identifies gene mutations in colon cancer cells with microsatellite instability
    • Ionov Y, Nowak N, Perucho M, Markowitz S, Cowell JK. Manipulation of nonsense mediated decay identifies gene mutations in colon cancer cells with microsatellite instability. Oncogene. 2004;23: 639-645.
    • (2004) Oncogene , vol.23 , pp. 639-645
    • Ionov, Y.1    Nowak, N.2    Perucho, M.3    Markowitz, S.4    Cowell, J.K.5
  • 50
    • 0035796407 scopus 로고    scopus 로고
    • Control of chromosomal DNA replication in the early Xenopus embryo
    • Blow JJ. Control of chromosomal DNA replication in the early Xenopus embryo. EMBO J. 2001;20:3293-3297.
    • (2001) EMBO J , vol.20 , pp. 3293-3297
    • Blow, J.J.1
  • 51
    • 0034304457 scopus 로고    scopus 로고
    • The Cdc7/Dbf4 protein kinase: Target of the S phase checkpoint?
    • Jares P, Donaldson A, Blow JJ. The Cdc7/Dbf4 protein kinase: target of the S phase checkpoint? EMBO Rep. 2000;1:319-322.
    • (2000) EMBO Rep , vol.1 , pp. 319-322
    • Jares, P.1    Donaldson, A.2    Blow, J.J.3
  • 52
    • 0035812808 scopus 로고    scopus 로고
    • Replication dynamics of the yeast genome
    • Raghuraman MK, Winzeler EA, Collingwood D, et al. Replication dynamics of the yeast genome. Science. 2001;294(5540):115-121.
    • (2001) Science , vol.294 , Issue.5540 , pp. 115-121
    • Raghuraman, M.K.1    Winzeler, E.A.2    Collingwood, D.3
  • 53
    • 0036842221 scopus 로고    scopus 로고
    • Genome-wide DNA replication profile for Drosophila melanogaster. A link between transcription and replication timing
    • Schubeler D, Scalzo D, Kooperberg C, van Steensel B, Delrow J, Groudine M. Genome-wide DNA replication profile for Drosophila melanogaster. a link between transcription and replication timing. Nat Genet. 2002;32:438-442.
    • (2002) Nat Genet , vol.32 , pp. 438-442
    • Schubeler, D.1    Scalzo, D.2    Kooperberg, C.3    Van Steensel, B.4    Delrow, J.5    Groudine, M.6
  • 54
    • 1642514822 scopus 로고    scopus 로고
    • Replication timing of the human genome
    • Woodfine K, Fiegler H, Beare DM, et al. Replication timing of the human genome. Hum Mol Genet. 2004;13:191-202.
    • (2004) Hum Mol Genet , vol.13 , pp. 191-202
    • Woodfine, K.1    Fiegler, H.2    Beare, D.M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.