메뉴 건너뛰기




Volumn 9, Issue 6, 1998, Pages 609-614

Technology for microarray analysis of gene expression

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE;

EID: 0032402904     PISSN: 09581669     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0958-1669(98)80138-9     Document Type: Article
Times cited : (111)

References (51)
  • 1
    • 0031453850 scopus 로고    scopus 로고
    • Genome wide expression monitoring in Saccharomyces cerevisiae
    • of outstanding interest. Oligonucleotide arrays are used to measure the expression levels for all predicted S. cerevisiae genes. High sensitivity and good correlation with well studied mRNA changes are reported. Use of single base mismatched oligonucleotides for specificity control is described.
    • Wodicka L, Dong H, Mittmann M, Ho MH, Lockhart DJ. Genome wide expression monitoring in Saccharomyces cerevisiae. of outstanding interest Nat Biotechnol. 15:1997;1359-1367 Oligonucleotide arrays are used to measure the expression levels for all predicted S. cerevisiae genes. High sensitivity and good correlation with well studied mRNA changes are reported. Use of single base mismatched oligonucleotides for specificity control is described.
    • (1997) Nat Biotechnol , vol.15 , pp. 1359-1367
    • Wodicka, L.1    Dong, H.2    Mittmann, M.3    Ho, M.H.4    Lockhart, D.J.5
  • 2
    • 0030669030 scopus 로고    scopus 로고
    • Exploring the metabolic and genetic control of gene expression on a genomic scale
    • of outstanding interest. Microarrays of virtually the entire S. cerevisiae genome were created using gene-specific primers to amplify genes as targets for the microarrays. These were then used to analyze the gene expression changes accompanying the shift from fermentation to respiration. Known changes were observed but changes in unknown genes gave indications as to their biological function.
    • DeRisi JL, Iyer VR, Brown PO. Exploring the metabolic and genetic control of gene expression on a genomic scale. of outstanding interest Science. 278:1997;680-686 Microarrays of virtually the entire S. cerevisiae genome were created using gene-specific primers to amplify genes as targets for the microarrays. These were then used to analyze the gene expression changes accompanying the shift from fermentation to respiration. Known changes were observed but changes in unknown genes gave indications as to their biological function.
    • (1997) Science , vol.278 , pp. 680-686
    • Derisi, J.L.1    Iyer, V.R.2    Brown, P.O.3
  • 3
    • 0030992159 scopus 로고    scopus 로고
    • Discovery and anlysis of inflammatory disease-related genes using cDNA microarrays
    • of special interest. The expression levels of 96 probable inflammatory-related genes are studied in several different tissue specimens showing the potential use of microarray technology in targeted experiments.
    • Heller RA, Schena M, Chai A, Shalon D, Bedilion T, Gilmore J, Woolley DE, Davis RW. Discovery and anlysis of inflammatory disease-related genes using cDNA microarrays. of special interest Proc Natl Acad Sci USA. 94:1997;2150-2155 The expression levels of 96 probable inflammatory-related genes are studied in several different tissue specimens showing the potential use of microarray technology in targeted experiments.
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 2150-2155
    • Heller, R.A.1    Schena, M.2    Chai, A.3    Shalon, D.4    Bedilion, T.5    Gilmore, J.6    Woolley, D.E.7    Davis, R.W.8
  • 5
    • 0030478531 scopus 로고    scopus 로고
    • Light-directed synthesis of high-density oligonucleotide arrays using semiconductor photoresists
    • McGall G, Labadie J, Brock P, Wallraff G, Nguyen T, Hinsberg W. Light-directed synthesis of high-density oligonucleotide arrays using semiconductor photoresists. Proc Natl Acad Sci USA. 93:1996;13555-13560.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 13555-13560
    • McGall, G.1    Labadie, J.2    Brock, P.3    Wallraff, G.4    Nguyen, T.5    Hinsberg, W.6
  • 8
    • 0026612858 scopus 로고
    • Oligonucleotide hybridization on glass supports: A novel linker for oligonucleotides synthesis and hybridization properties of oligonucleotides synthesized in situ
    • Maskos U, Southern EM. Oligonucleotide hybridization on glass supports: a novel linker for oligonucleotides synthesis and hybridization properties of oligonucleotides synthesized in situ. Nucleic Acids Res. 20:1992;1679-1684.
    • (1992) Nucleic Acids Res , vol.20 , pp. 1679-1684
    • Maskos, U.1    Southern, E.M.2
  • 10
    • 0030902471 scopus 로고    scopus 로고
    • Selecting effective antisense reagents on combinatorial oligonucleotide arrays
    • Milner M, Mir K, Southern E. Selecting effective antisense reagents on combinatorial oligonucleotide arrays. Nat Biotechnol. 15:1997;537-541.
    • (1997) Nat Biotechnol , vol.15 , pp. 537-541
    • Milner, M.1    Mir, K.2    Southern, E.3
  • 12
    • 0031029961 scopus 로고    scopus 로고
    • Rapid determination of single base mismatch mutations in DNA hybrids by direct electric field control
    • Sosnowski RG, Tu E, Butler WF, O'Connell JP, Heller MJ. Rapid determination of single base mismatch mutations in DNA hybrids by direct electric field control. Proc Natl Acad Sci USA. 94:1997;1119-1123.
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 1119-1123
    • Sosnowski, R.G.1    Tu, E.2    Butler, W.F.3    O'Connell, J.P.4    Heller, M.J.5
  • 14
    • 0028618275 scopus 로고
    • Direct fluorescence analysis of genetic polymorphisms by hybridization with oligonucleotide arrays on glass supports
    • Guo Z, Guilfoyle RA, Thiel AJ, Wang R, Smith LM. Direct fluorescence analysis of genetic polymorphisms by hybridization with oligonucleotide arrays on glass supports. Nucleic Acids Res. 22:1994;5456-5465.
    • (1994) Nucleic Acids Res , vol.22 , pp. 5456-5465
    • Guo, Z.1    Guilfoyle, R.A.2    Thiel, A.J.3    Wang, R.4    Smith, L.M.5
  • 15
    • 0031553975 scopus 로고    scopus 로고
    • Covalent attachment of hybridizable oligonucleotides to glass supports
    • of special interest. A straightforward and robust method for covalent attachment of oligonucleotides to glass is presented. This chemistry is well suited to the creation of high density printed arrays of oligonucleotides.
    • Joos B, Kuster H, Cone R. Covalent attachment of hybridizable oligonucleotides to glass supports. of special interest Anal Biochem. 247:1997;96-101 A straightforward and robust method for covalent attachment of oligonucleotides to glass is presented. This chemistry is well suited to the creation of high density printed arrays of oligonucleotides.
    • (1997) Anal Biochem , vol.247 , pp. 96-101
    • Joos, B.1    Kuster, H.2    Cone, R.3
  • 16
    • 0021111261 scopus 로고
    • Derivitization of unprotected polynucleotides
    • Chu BCF, Wahl GM, Orgel LE. Derivitization of unprotected polynucleotides. Nucleic Acids Res. 11:1983;6513-6529.
    • (1983) Nucleic Acids Res , vol.11 , pp. 6513-6529
    • Chu, B.C.F.1    Wahl, G.M.2    Orgel, L.E.3
  • 17
    • 0030862620 scopus 로고    scopus 로고
    • Steric factors influencing hybridization of nucleic acids to oligonucleotide arrays
    • of outstanding interest. This paper quantitatively examines the effects of spacer molecules to reduce steric hindrance of the support on the hybridization behavior of immobilized oligonucleotides. Interestingly, steric hindrance is also a problem if the oligonucleotides attached to the support are too close to each other, with the optimum being a surface containing around 50% of the maximum concentration of oligonucleotides.
    • Shchepinov MS, Case-Green SC, Southern EM. Steric factors influencing hybridization of nucleic acids to oligonucleotide arrays. of outstanding interest Nucleic Acids Res. 25:1997;1155-1161 This paper quantitatively examines the effects of spacer molecules to reduce steric hindrance of the support on the hybridization behavior of immobilized oligonucleotides. Interestingly, steric hindrance is also a problem if the oligonucleotides attached to the support are too close to each other, with the optimum being a surface containing around 50% of the maximum concentration of oligonucleotides.
    • (1997) Nucleic Acids Res , vol.25 , pp. 1155-1161
    • Shchepinov, M.S.1    Case-Green, S.C.2    Southern, E.M.3
  • 18
    • 0032526318 scopus 로고    scopus 로고
    • Detection of differentially expressed genes in primary tumor tissues using representational differences analysis coupled to microarray hybridization
    • of special interest. A cDNA library subtraction is performed in order to enrich for cDNA clones that are differentially expressed. These clones are then used as the microarray targets.
    • Welford SM, Gregg J, Chen E, Garrison D, Sorensen PH, Denny CT, Nelson SF. Detection of differentially expressed genes in primary tumor tissues using representational differences analysis coupled to microarray hybridization. of special interest Nucleic Acids Res. 26:1998;3059-3065 A cDNA library subtraction is performed in order to enrich for cDNA clones that are differentially expressed. These clones are then used as the microarray targets.
    • (1998) Nucleic Acids Res , vol.26 , pp. 3059-3065
    • Welford, S.M.1    Gregg, J.2    Chen, E.3    Garrison, D.4    Sorensen, P.H.5    Denny, C.T.6    Nelson, S.F.7
  • 20
    • 0030589692 scopus 로고    scopus 로고
    • Combining the preparation of oligonucleotide arrays and synthesis of high-quality primers
    • Weiler J, Hoheisel JD. Combining the preparation of oligonucleotide arrays and synthesis of high-quality primers. Anal Biochem. 243:1996;218-227.
    • (1996) Anal Biochem , vol.243 , pp. 218-227
    • Weiler, J.1    Hoheisel, J.D.2
  • 21
    • 0030834257 scopus 로고    scopus 로고
    • Whole genome analysis: Experimental access to all genome sequenced segments through larger-scale efficient oligonucleotide synthesis and PCR
    • of special interest. A description of high-throughput oligonucleotide synthesis applied to the production of PCR primers for the amplification of coding DNA from genomic DNA. A high first time success rate in PCR amplification is achieved.
    • Lashkari DA, McCusker JH, Davis RW. Whole genome analysis: experimental access to all genome sequenced segments through larger-scale efficient oligonucleotide synthesis and PCR. of special interest Proc Natl Acad Sci USA. 94:1997;8945-8947 A description of high-throughput oligonucleotide synthesis applied to the production of PCR primers for the amplification of coding DNA from genomic DNA. A high first time success rate in PCR amplification is achieved.
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 8945-8947
    • Lashkari, D.A.1    McCusker, J.H.2    Davis, R.W.3
  • 22
    • 0031800106 scopus 로고    scopus 로고
    • Microarrays: Biotechnology's discovery platform for functional genomics
    • of outstanding interest. This review paper contains a good overview of the use of microarrays and describes the results of using noncontact printing for array synthesis
    • Schena M, Heller R, Theriault T, Konrad K, Lachenmeier E, Davis R. Microarrays: biotechnology's discovery platform for functional genomics. of outstanding interest Trends Biotechnol. 16:1998;301-306 This review paper contains a good overview of the use of microarrays and describes the results of using noncontact printing for array synthesis.
    • (1998) Trends Biotechnol , vol.16 , pp. 301-306
    • Schena, M.1    Heller, R.2    Theriault, T.3    Konrad, K.4    Lachenmeier, E.5    Davis, R.6
  • 23
    • 85030342801 scopus 로고    scopus 로고
    • The McGuide on World Wide Web URL: ttp://cmgm.stanford.edu/pbrown/mguide/index.html of special interest
    • The McGuide on World Wide Web URL: ttp://cmgm.stanford.edu/pbrown/mguide/index.html of special interest.
  • 24
    • 85030346339 scopus 로고    scopus 로고
    • Instructions for constructing the Stanford array printer, used in many of the cDNA printing applications, are provided.
    • Instructions for constructing the Stanford array printer, used in many of the cDNA printing applications, are provided.
  • 25
    • 0031595149 scopus 로고    scopus 로고
    • Adapting the biomek 2000 laboratory automation workstation for printing DNA microarrays
    • Macas J, Nouzova M, Galbraith DW. Adapting the biomek 2000 laboratory automation workstation for printing DNA microarrays. Bio Techniques. 25:1998;106-110.
    • (1998) Bio Techniques , vol.25 , pp. 106-110
    • MacAs, J.1    Nouzova, M.2    Galbraith, D.W.3
  • 26
    • 0028412294 scopus 로고
    • Multiple fragment ligation on glass surface: A novel approach
    • Maitra R, Thakur AR. Multiple fragment ligation on glass surface: a novel approach. Indian J Biochem Biophys. 31:1994;97-99.
    • (1994) Indian J Biochem Biophys , vol.31 , pp. 97-99
    • Maitra, R.1    Thakur, A.R.2
  • 28
    • 0242581339 scopus 로고
    • Generation of single-stranded DNA by the polymerase chain reaction and its application to direct sequencing of the HLA-DQA locus
    • Gyllensten UB, Erlich HA. Generation of single-stranded DNA by the polymerase chain reaction and its application to direct sequencing of the HLA-DQA locus. Proc Natl Acad Sci USA. 85:1988;7652-7656.
    • (1988) Proc Natl Acad Sci USA , vol.85 , pp. 7652-7656
    • Gyllensten, U.B.1    Erlich, H.A.2
  • 29
    • 0028210782 scopus 로고
    • The use of phosphorothioate primers and exonuclease hydrolysis for the preparation of single-stranded PCR products and their detection by solid-phase hybridization
    • Nikiforov TT, Rendle RB, Kotewicz ML, Rogers Y-H. The use of phosphorothioate primers and exonuclease hydrolysis for the preparation of single-stranded PCR products and their detection by solid-phase hybridization. PCR Methods Applic. 3:1994;285-291.
    • (1994) PCR Methods Applic , vol.3 , pp. 285-291
    • Nikiforov, T.T.1    Rendle, R.B.2    Kotewicz, M.L.3    Rogers Y-H4
  • 30
    • 0030680249 scopus 로고    scopus 로고
    • Encoding strategies in combinatorial chemistry
    • Czarnik AW. Encoding strategies in combinatorial chemistry. Proc Natl Acad Sci USA. 94:1997;12738-12739.
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 12738-12739
    • Czarnik, A.W.1
  • 31
    • 0030776426 scopus 로고    scopus 로고
    • Advanced multiplexed analysis with FlowMetrix system
    • of special interest. A novel method for analyzing multiplexed assays is described. This has the potential to be faster, cheaper, and more sensitive than microarrays when several hundred genes need to be assayed.
    • Fulton RJ, McDade RL, Smith PL, Keinker LJ, Kettman JR. Advanced multiplexed analysis with FlowMetrix system. of special interest Clin Chem. 43:1997;1749-1756 A novel method for analyzing multiplexed assays is described. This has the potential to be faster, cheaper, and more sensitive than microarrays when several hundred genes need to be assayed.
    • (1997) Clin Chem , vol.43 , pp. 1749-1756
    • Fulton, R.J.1    McDade, R.L.2    Smith, P.L.3    Keinker, L.J.4    Kettman, J.R.5
  • 32
    • 0002473260 scopus 로고    scopus 로고
    • Biomolecular multiplexing of up to 512 assays on a new solid-state 4 color flow analyzer
    • Chandler VS, Denton D, Pempsell P. Biomolecular multiplexing of up to 512 assays on a new solid-state 4 color flow analyzer. Cytometry. (suppl9):1998;40.
    • (1998) Cytometry , Issue.SUPPL9 , pp. 40
    • Chandler, V.S.1    Denton, D.2    Pempsell, P.3
  • 33
    • 0031149334 scopus 로고    scopus 로고
    • Detection of oligonucleotide hybridization on a single microparticle by time-resolved fluorometry: Hybridization assays on polymer particles obtained by direct solid phase assembly of the oligonucleotide probes
    • Hakala H, Heinonen P, Iitia A, Lonnberg H. Detection of oligonucleotide hybridization on a single microparticle by time-resolved fluorometry: hybridization assays on polymer particles obtained by direct solid phase assembly of the oligonucleotide probes. Bioconj Chem. 8:1997;378-384.
    • (1997) Bioconj Chem , vol.8 , pp. 378-384
    • Hakala, H.1    Heinonen, P.2    Iitia, A.3    Lonnberg, H.4
  • 34
    • 0342618455 scopus 로고    scopus 로고
    • Time-resolved fluorescence detection of oligonucleotide hybridization on a single microparticle: Covalent immobilization of oligonucleotides and quantitation of a model system
    • Hakala H, Lonnberg H. Time-resolved fluorescence detection of oligonucleotide hybridization on a single microparticle: covalent immobilization of oligonucleotides and quantitation of a model system. Bioconj Chem. 8:1997;232-237.
    • (1997) Bioconj Chem , vol.8 , pp. 232-237
    • Hakala, H.1    Lonnberg, H.2
  • 35
    • 0032043853 scopus 로고    scopus 로고
    • Randomly ordered addressable high-density optical sensor arrays
    • of special interest. A method for the creation and analysis of arrays with thousands of micrometer sized elements is described. Mixtures of microspheres, each a different assay, are applied to the array.
    • Michael KL, Taylor LC, Schultz SL, Walt DR. Randomly ordered addressable high-density optical sensor arrays. of special interest Anal Chem. 70:1998;1242-1248 A method for the creation and analysis of arrays with thousands of micrometer sized elements is described. Mixtures of microspheres, each a different assay, are applied to the array.
    • (1998) Anal Chem , vol.70 , pp. 1242-1248
    • Michael, K.L.1    Taylor, L.C.2    Schultz, S.L.3    Walt, D.R.4
  • 36
    • 0031822837 scopus 로고    scopus 로고
    • Tissue microarrays for high-throughput molecular profiling of tumor specimens
    • of outstanding interest. A novel method for arraying tumor biopsies is described. Standard in situ techniques are used to measure genomic DNA changes, mRNA levels, and protein levels.
    • Kononen J, Bubendorf L, Kallioniemi A, Barlund M, Schraml P, Leighton S, Torhorst J, Mihatsch MJ, Sauter G, Kallioniemi OP. Tissue microarrays for high-throughput molecular profiling of tumor specimens. of outstanding interest Nat Med. 4:1998;844-847 A novel method for arraying tumor biopsies is described. Standard in situ techniques are used to measure genomic DNA changes, mRNA levels, and protein levels.
    • (1998) Nat Med , vol.4 , pp. 844-847
    • Kononen, J.1    Bubendorf, L.2    Kallioniemi, A.3    Barlund, M.4    Schraml, P.5    Leighton, S.6    Torhorst, J.7    Mihatsch, M.J.8    Sauter, G.9    Kallioniemi, O.P.10
  • 39
    • 0030560897 scopus 로고    scopus 로고
    • Antisense RNA amplification: A linear amplification method for analyzing the mRNA population from single living cells
    • Phillips J, Eberwine JH. Antisense RNA amplification: a linear amplification method for analyzing the mRNA population from single living cells. Methods. 10:1996;283-288.
    • (1996) Methods , vol.10 , pp. 283-288
    • Phillips, J.1    Eberwine, J.H.2
  • 41
    • 0027287587 scopus 로고
    • RPCR: A powerful tool for random amplification of whole RNA sequences
    • Froussard P. rPCR: a powerful tool for random amplification of whole RNA sequences. PCR Methods Applic. 2:1993;185-190.
    • (1993) PCR Methods Applic , vol.2 , pp. 185-190
    • Froussard, P.1
  • 42
    • 0025944267 scopus 로고
    • DNA probes: Applications of the principles of nucleic acid hybridization
    • Wetmur JG. DNA probes: applications of the principles of nucleic acid hybridization. Crit Rev Biochem Mol Biol. 26:1991;227-259.
    • (1991) Crit Rev Biochem Mol Biol , vol.26 , pp. 227-259
    • Wetmur, J.G.1
  • 43
    • 0029124186 scopus 로고
    • Differential gene expression in the murine thymus assayed by quantitative hybridization of arrayed cDNA clones
    • Nguyen C, Rocha D, Granjeaud S, Baldit M, Bernard K, Naquet P, Jordan BR. Differential gene expression in the murine thymus assayed by quantitative hybridization of arrayed cDNA clones. Genomics. 29:1995;207-216.
    • (1995) Genomics , vol.29 , pp. 207-216
    • Nguyen, C.1    Rocha, D.2    Granjeaud, S.3    Baldit, M.4    Bernard, K.5    Naquet, P.6    Jordan, B.R.7
  • 44
    • 0028881098 scopus 로고
    • The biophysics of DNA hybridization with immobilized oligonucleotide probes
    • Chan V, Graves DJ, McKenzie SE. The biophysics of DNA hybridization with immobilized oligonucleotide probes. Biophys J. 69:1995;2243-2255.
    • (1995) Biophys J , vol.69 , pp. 2243-2255
    • Chan, V.1    Graves, D.J.2    McKenzie, S.E.3
  • 46
    • 0001743904 scopus 로고    scopus 로고
    • In situ surface plasmon resonance imaging detection of DNA hybridization to oligonucleotide arrays on gold surfaces
    • Thiel AJ, Frutos AG, Jordan CE, Corn RM, Smith LM. In situ surface plasmon resonance imaging detection of DNA hybridization to oligonucleotide arrays on gold surfaces. Anal Chem. 69:1997;4948-4956.
    • (1997) Anal Chem , vol.69 , pp. 4948-4956
    • Thiel, A.J.1    Frutos, A.G.2    Jordan, C.E.3    Corn, R.M.4    Smith, L.M.5
  • 47
    • 0031554899 scopus 로고    scopus 로고
    • Fiberoptic DNA sensor array capable of detecting point mutations
    • Healy BG, Matson RS, Walt DR. Fiberoptic DNA sensor array capable of detecting point mutations. Anal Biochem. 251:1997;270-279.
    • (1997) Anal Biochem , vol.251 , pp. 270-279
    • Healy, B.G.1    Matson, R.S.2    Walt, D.R.3
  • 49
    • 0031246430 scopus 로고    scopus 로고
    • Ratio-based decisions and the quantitative analysis of cDNA microarray images
    • of special interest. A statistically based analysis method for microarrays is described as well as an iterative procedure for signal calibration.
    • Chen Y, Dougherty ER, Bittner ML. Ratio-based decisions and the quantitative analysis of cDNA microarray images. of special interest J Biomed Optics. 2:1997;364-374 A statistically based analysis method for microarrays is described as well as an iterative procedure for signal calibration.
    • (1997) J Biomed Optics , vol.2 , pp. 364-374
    • Chen, Y.1    Dougherty, E.R.2    Bittner, M.L.3
  • 51
    • 0031915896 scopus 로고    scopus 로고
    • Large scale temporal gene expression mapping of central nervous system development
    • of special interest. RT-PCR is used to generate expression profiles of 112 genes during rat central nervous system development. Five different temporal patterns of gene expression were observed. The method described for data analysis has utility for analysis of microarray gene expression data.
    • Wen X, Fuhrman S, Michaels GS, Carr DB, Smith S, Barker JL, Somogyi R. Large scale temporal gene expression mapping of central nervous system development. of special interest Proc Natl Acad Sci USA. 95:1998;334-339 RT-PCR is used to generate expression profiles of 112 genes during rat central nervous system development. Five different temporal patterns of gene expression were observed. The method described for data analysis has utility for analysis of microarray gene expression data.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 334-339
    • Wen, X.1    Fuhrman, S.2    Michaels, G.S.3    Carr, D.B.4    Smith, S.5    Barker, J.L.6    Somogyi, R.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.