Attachment of oligonucleotide probes to poly carbodiimide‐coated glass for microarray applications
Oligonucleotide‐based DNA microarrays are becoming increasingly useful tools for the analysis of gene expression and single nucleotide polymorphisms (SNPs). Here, we present a method that permits the manufacture of microarrays from non‐modified oligonucleotides on a poly carbodiimide‐coated glass su...
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| Veröffentlicht in: | Nucleic acids research 2004, Vol.32 (7), p.e68-e68 |
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| container_title | Nucleic acids research |
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| creator | Kimura, Naoki Oda, Ryuichi Inaki, Yoshiaki Suzuki, Osamu |
| description | Oligonucleotide‐based DNA microarrays are becoming increasingly useful tools for the analysis of gene expression and single nucleotide polymorphisms (SNPs). Here, we present a method that permits the manufacture of microarrays from non‐modified oligonucleotides on a poly carbodiimide‐coated glass surface by UV‐irradiation. The use of UV‐irradiation facilitates an increase in the level of signal intensity, but it does not affect signal discrimination by the oligonucleotides immobilized on the surface. The signal intensity obtained for an array fabricated using non‐modified oligonucleotides with UV‐irradiation is ∼7‐fold greater than that without UV‐irradiation. The detection of SNPs was tested to ascertain whether this technique could discriminate specific hybridization signals without causing significant UV‐irradiation‐induced damage to the immobilized oligonucleotides. We found that this immobilization method provides greater hybridization signals and a better match/mismatch ratio of SNPs than do the established aminosilane techniques. Application of this technology to manufacturing DNA microarrays for sequence analysis is discussed. |
| doi_str_mv | 10.1093/nar/gnh057 |
| format | Article |
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Here, we present a method that permits the manufacture of microarrays from non‐modified oligonucleotides on a poly carbodiimide‐coated glass surface by UV‐irradiation. The use of UV‐irradiation facilitates an increase in the level of signal intensity, but it does not affect signal discrimination by the oligonucleotides immobilized on the surface. The signal intensity obtained for an array fabricated using non‐modified oligonucleotides with UV‐irradiation is ∼7‐fold greater than that without UV‐irradiation. The detection of SNPs was tested to ascertain whether this technique could discriminate specific hybridization signals without causing significant UV‐irradiation‐induced damage to the immobilized oligonucleotides. We found that this immobilization method provides greater hybridization signals and a better match/mismatch ratio of SNPs than do the established aminosilane techniques. Application of this technology to manufacturing DNA microarrays for sequence analysis is discussed.</description><identifier>ISSN: 0305-1048</identifier><identifier>ISSN: 1362-4962</identifier><identifier>EISSN: 1362-4962</identifier><identifier>DOI: 10.1093/nar/gnh057</identifier><identifier>PMID: 15107483</identifier><identifier>CODEN: NARHAD</identifier><language>eng</language><publisher>England: Oxford University Press</publisher><subject>Bacteriophage lambda - genetics ; Carbodiimides - radiation effects ; DNA, Viral - genetics ; Gene Expression Profiling - instrumentation ; Glass ; Humans ; NAR Methods Online ; Nucleic Acid Hybridization ; Oligonucleotide Array Sequence Analysis - instrumentation ; Oligonucleotide Probes - genetics ; Oligonucleotide Probes - metabolism ; Oligonucleotides - genetics ; Oligonucleotides - metabolism ; Polymerase Chain Reaction ; Polymorphism, Single Nucleotide - genetics ; Reproducibility of Results ; Ultraviolet Rays</subject><ispartof>Nucleic acids research, 2004, Vol.32 (7), p.e68-e68</ispartof><rights>Copyright Oxford University Press(England) Apr 01, 2004</rights><rights>Copyright © 2004 Oxford University Press 2004</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c566t-55d54da9ddbdfaf1d066f4af99806f9d92562608b151d05bb58c93a3b421b5403</citedby></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC407837/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC407837/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,724,777,781,882,4011,27905,27906,27907,53773,53775</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15107483$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kimura, Naoki</creatorcontrib><creatorcontrib>Oda, Ryuichi</creatorcontrib><creatorcontrib>Inaki, Yoshiaki</creatorcontrib><creatorcontrib>Suzuki, Osamu</creatorcontrib><title>Attachment of oligonucleotide probes to poly carbodiimide‐coated glass for microarray applications</title><title>Nucleic acids research</title><addtitle>Nucl. Acids Res</addtitle><description>Oligonucleotide‐based DNA microarrays are becoming increasingly useful tools for the analysis of gene expression and single nucleotide polymorphisms (SNPs). Here, we present a method that permits the manufacture of microarrays from non‐modified oligonucleotides on a poly carbodiimide‐coated glass surface by UV‐irradiation. The use of UV‐irradiation facilitates an increase in the level of signal intensity, but it does not affect signal discrimination by the oligonucleotides immobilized on the surface. The signal intensity obtained for an array fabricated using non‐modified oligonucleotides with UV‐irradiation is ∼7‐fold greater than that without UV‐irradiation. The detection of SNPs was tested to ascertain whether this technique could discriminate specific hybridization signals without causing significant UV‐irradiation‐induced damage to the immobilized oligonucleotides. We found that this immobilization method provides greater hybridization signals and a better match/mismatch ratio of SNPs than do the established aminosilane techniques. Application of this technology to manufacturing DNA microarrays for sequence analysis is discussed.</description><subject>Bacteriophage lambda - genetics</subject><subject>Carbodiimides - radiation effects</subject><subject>DNA, Viral - genetics</subject><subject>Gene Expression Profiling - instrumentation</subject><subject>Glass</subject><subject>Humans</subject><subject>NAR Methods Online</subject><subject>Nucleic Acid Hybridization</subject><subject>Oligonucleotide Array Sequence Analysis - instrumentation</subject><subject>Oligonucleotide Probes - genetics</subject><subject>Oligonucleotide Probes - metabolism</subject><subject>Oligonucleotides - genetics</subject><subject>Oligonucleotides - metabolism</subject><subject>Polymerase Chain Reaction</subject><subject>Polymorphism, Single Nucleotide - genetics</subject><subject>Reproducibility of Results</subject><subject>Ultraviolet Rays</subject><issn>0305-1048</issn><issn>1362-4962</issn><issn>1362-4962</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkrtuFTEQhi0EIieBhgdAKwqKSEvG68vaBUUSAUGKQsFFiMby2t5zHHbXi-1FnI5H4Bl5EozOUbg0qab4vxnN_PMj9AjDMwySnEw6nqynDbD2DlphwpuaSt7cRSsgwGoMVBygw5SuATDFjN5HB5hhaKkgK2RPc9ZmM7opV6GvwuDXYVrM4EL21lVzDJ1LVQ7VHIZtZXTsgvV-LNrP7z9M0NnZaj3olKo-xGr0JgYdo95Wep4Hb3T2YUoP0L1eD8k93Ncj9P7li3fnF_Xlm1evz08va8M4zzVjllGrpbWd7XWPLXDeU91LKYD30sqG8YaD6Mr6FljXMWEk0aSjDe4YBXKEnu_mzks3OmvKUVEPao5-1HGrgvbqX2XyG7UOXxWFVpC29D_d98fwZXEpq9En44ZBTy4sSbVYcMEI3ApiyblkktwOtrIFQXEBn_wHXoclTsUt1QAwKZiQBTreQcXllKLrb07DoH5HQZUoqF0UCvz4bzP-oPvfF6DeAT5l9-1G1_Gz4i1pmbr4-Ek1Z2_p1dkVVx_IL4HawrE</recordid><startdate>2004</startdate><enddate>2004</enddate><creator>Kimura, Naoki</creator><creator>Oda, Ryuichi</creator><creator>Inaki, Yoshiaki</creator><creator>Suzuki, Osamu</creator><general>Oxford University Press</general><general>Oxford Publishing Limited (England)</general><scope>BSCLL</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QO</scope><scope>7QP</scope><scope>7QR</scope><scope>7SS</scope><scope>7TK</scope><scope>7TM</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>K9.</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>2004</creationdate><title>Attachment of oligonucleotide probes to poly carbodiimide‐coated glass for microarray applications</title><author>Kimura, Naoki ; Oda, Ryuichi ; Inaki, Yoshiaki ; Suzuki, Osamu</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c566t-55d54da9ddbdfaf1d066f4af99806f9d92562608b151d05bb58c93a3b421b5403</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Bacteriophage lambda - genetics</topic><topic>Carbodiimides - radiation effects</topic><topic>DNA, Viral - genetics</topic><topic>Gene Expression Profiling - instrumentation</topic><topic>Glass</topic><topic>Humans</topic><topic>NAR Methods Online</topic><topic>Nucleic Acid Hybridization</topic><topic>Oligonucleotide Array Sequence Analysis - instrumentation</topic><topic>Oligonucleotide Probes - genetics</topic><topic>Oligonucleotide Probes - metabolism</topic><topic>Oligonucleotides - genetics</topic><topic>Oligonucleotides - metabolism</topic><topic>Polymerase Chain Reaction</topic><topic>Polymorphism, Single Nucleotide - genetics</topic><topic>Reproducibility of Results</topic><topic>Ultraviolet Rays</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kimura, Naoki</creatorcontrib><creatorcontrib>Oda, Ryuichi</creatorcontrib><creatorcontrib>Inaki, Yoshiaki</creatorcontrib><creatorcontrib>Suzuki, Osamu</creatorcontrib><collection>Istex</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Nucleic acids research</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kimura, Naoki</au><au>Oda, Ryuichi</au><au>Inaki, Yoshiaki</au><au>Suzuki, Osamu</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Attachment of oligonucleotide probes to poly carbodiimide‐coated glass for microarray applications</atitle><jtitle>Nucleic acids research</jtitle><addtitle>Nucl. Acids Res</addtitle><date>2004</date><risdate>2004</risdate><volume>32</volume><issue>7</issue><spage>e68</spage><epage>e68</epage><pages>e68-e68</pages><issn>0305-1048</issn><issn>1362-4962</issn><eissn>1362-4962</eissn><coden>NARHAD</coden><abstract>Oligonucleotide‐based DNA microarrays are becoming increasingly useful tools for the analysis of gene expression and single nucleotide polymorphisms (SNPs). Here, we present a method that permits the manufacture of microarrays from non‐modified oligonucleotides on a poly carbodiimide‐coated glass surface by UV‐irradiation. The use of UV‐irradiation facilitates an increase in the level of signal intensity, but it does not affect signal discrimination by the oligonucleotides immobilized on the surface. The signal intensity obtained for an array fabricated using non‐modified oligonucleotides with UV‐irradiation is ∼7‐fold greater than that without UV‐irradiation. 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| subjects | Bacteriophage lambda - genetics Carbodiimides - radiation effects DNA, Viral - genetics Gene Expression Profiling - instrumentation Glass Humans NAR Methods Online Nucleic Acid Hybridization Oligonucleotide Array Sequence Analysis - instrumentation Oligonucleotide Probes - genetics Oligonucleotide Probes - metabolism Oligonucleotides - genetics Oligonucleotides - metabolism Polymerase Chain Reaction Polymorphism, Single Nucleotide - genetics Reproducibility of Results Ultraviolet Rays |
| title | Attachment of oligonucleotide probes to poly carbodiimide‐coated glass for microarray applications |
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