Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip
Test of human papillomavirus (HPV) is a useful adjunctive tool of Pap smear to screen cervical cancer. We have developed a novel HPV genotyping DNA chip arrayed by multiple oligonucleotide probes of both L1 and E6/E7 gene sequence of 42 types of anogenital HPV. Consensus PCR products of L1 and E6/E7...
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| Veröffentlicht in: | Gynecologic oncology 2006, Vol.100 (1), p.38-43 |
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| creator | Kim, Ki Hyung Yoon, Man Soo Na, Yong Jin Park, Chang Soo Oh, Myung Ryurl Moon, Woo Chul |
| description | Test of human papillomavirus (HPV) is a useful adjunctive tool of Pap smear to screen cervical cancer. We have developed a novel HPV genotyping DNA chip arrayed by multiple oligonucleotide probes of both L1 and E6/E7 gene sequence of 42 types of anogenital HPV.
Consensus PCR products of L1 and E6/E7 gene sequences of HPV are hybridized to arrayed probes on the HPV chip and HPV genotypes are identified by fluorescence scanner. We have comparatively analyzed the value of HPV DNA chip and DNA sequencing in 100 cervical cancer tissues.
Overall, 98 cervical cancer tissues were found to harbor DNA sequences of high-risk type HPVs, of which 88 (89.8%) were detected by PCR-sequencing of L1 alone, 98 (100%) by PCR-sequencing of both L1 and E6/E7, and 98 (100%) by HPV DNA chip, respectively. All of the genotypes of HPV detected on sequencing analysis were also found on DNA chip analysis. HPV DNA chip was superior to direct DNA sequencing in detection of mixed infection.
These results suggest that HPV DNA chip analysis in the present study is highly accurate for detection and genotyping of HPV and may have potential value as a robust, high-throughput screening test of uterine cervix cancer. |
| doi_str_mv | 10.1016/j.ygyno.2005.08.024 |
| format | Article |
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Consensus PCR products of L1 and E6/E7 gene sequences of HPV are hybridized to arrayed probes on the HPV chip and HPV genotypes are identified by fluorescence scanner. We have comparatively analyzed the value of HPV DNA chip and DNA sequencing in 100 cervical cancer tissues.
Overall, 98 cervical cancer tissues were found to harbor DNA sequences of high-risk type HPVs, of which 88 (89.8%) were detected by PCR-sequencing of L1 alone, 98 (100%) by PCR-sequencing of both L1 and E6/E7, and 98 (100%) by HPV DNA chip, respectively. All of the genotypes of HPV detected on sequencing analysis were also found on DNA chip analysis. HPV DNA chip was superior to direct DNA sequencing in detection of mixed infection.
These results suggest that HPV DNA chip analysis in the present study is highly accurate for detection and genotyping of HPV and may have potential value as a robust, high-throughput screening test of uterine cervix cancer.</description><identifier>ISSN: 0090-8258</identifier><identifier>EISSN: 1095-6859</identifier><identifier>DOI: 10.1016/j.ygyno.2005.08.024</identifier><identifier>PMID: 16216319</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Adult ; Aged ; Base Sequence ; Cervical Intraepithelial Neoplasia - genetics ; Cervical Intraepithelial Neoplasia - virology ; Conserved Sequence ; DNA chip ; DNA sequencing ; DNA, Neoplasm - analysis ; DNA, Neoplasm - genetics ; DNA, Viral - analysis ; DNA, Viral - genetics ; Female ; Genotype ; Genotyping ; Human papillomavirus ; Humans ; Middle Aged ; Molecular Sequence Data ; Oligonucleotide Array Sequence Analysis - methods ; Papillomaviridae - classification ; Papillomaviridae - genetics ; Papillomavirus Infections - complications ; Papillomavirus Infections - virology ; Polymerase chain reaction ; Sensitivity and Specificity ; Uterine Cervical Neoplasms - genetics ; Uterine Cervical Neoplasms - virology</subject><ispartof>Gynecologic oncology, 2006, Vol.100 (1), p.38-43</ispartof><rights>2005 Elsevier Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c357t-7f523ee7d539529fbb6df5fa621f63a160a6629cac8fca993d180fbd2f30a18a3</citedby><cites>FETCH-LOGICAL-c357t-7f523ee7d539529fbb6df5fa621f63a160a6629cac8fca993d180fbd2f30a18a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S009082580500716X$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,4010,27900,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16216319$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kim, Ki Hyung</creatorcontrib><creatorcontrib>Yoon, Man Soo</creatorcontrib><creatorcontrib>Na, Yong Jin</creatorcontrib><creatorcontrib>Park, Chang Soo</creatorcontrib><creatorcontrib>Oh, Myung Ryurl</creatorcontrib><creatorcontrib>Moon, Woo Chul</creatorcontrib><title>Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip</title><title>Gynecologic oncology</title><addtitle>Gynecol Oncol</addtitle><description>Test of human papillomavirus (HPV) is a useful adjunctive tool of Pap smear to screen cervical cancer. We have developed a novel HPV genotyping DNA chip arrayed by multiple oligonucleotide probes of both L1 and E6/E7 gene sequence of 42 types of anogenital HPV.
Consensus PCR products of L1 and E6/E7 gene sequences of HPV are hybridized to arrayed probes on the HPV chip and HPV genotypes are identified by fluorescence scanner. We have comparatively analyzed the value of HPV DNA chip and DNA sequencing in 100 cervical cancer tissues.
Overall, 98 cervical cancer tissues were found to harbor DNA sequences of high-risk type HPVs, of which 88 (89.8%) were detected by PCR-sequencing of L1 alone, 98 (100%) by PCR-sequencing of both L1 and E6/E7, and 98 (100%) by HPV DNA chip, respectively. All of the genotypes of HPV detected on sequencing analysis were also found on DNA chip analysis. HPV DNA chip was superior to direct DNA sequencing in detection of mixed infection.
These results suggest that HPV DNA chip analysis in the present study is highly accurate for detection and genotyping of HPV and may have potential value as a robust, high-throughput screening test of uterine cervix cancer.</description><subject>Adult</subject><subject>Aged</subject><subject>Base Sequence</subject><subject>Cervical Intraepithelial Neoplasia - genetics</subject><subject>Cervical Intraepithelial Neoplasia - virology</subject><subject>Conserved Sequence</subject><subject>DNA chip</subject><subject>DNA sequencing</subject><subject>DNA, Neoplasm - analysis</subject><subject>DNA, Neoplasm - genetics</subject><subject>DNA, Viral - analysis</subject><subject>DNA, Viral - genetics</subject><subject>Female</subject><subject>Genotype</subject><subject>Genotyping</subject><subject>Human papillomavirus</subject><subject>Humans</subject><subject>Middle Aged</subject><subject>Molecular Sequence Data</subject><subject>Oligonucleotide Array Sequence Analysis - methods</subject><subject>Papillomaviridae - classification</subject><subject>Papillomaviridae - genetics</subject><subject>Papillomavirus Infections - complications</subject><subject>Papillomavirus Infections - virology</subject><subject>Polymerase chain reaction</subject><subject>Sensitivity and Specificity</subject><subject>Uterine Cervical Neoplasms - genetics</subject><subject>Uterine Cervical Neoplasms - virology</subject><issn>0090-8258</issn><issn>1095-6859</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2006</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kMFu1DAQhi1ERbeFJ0BCPnFLGNvYax84VC0UpIpe2gMny-uMd71K7BAnkfL2pOxK3DjN5fv_mfkIec-gZsDUp2O97JeUaw4ga9A18M-vyIaBkZXS0rwmGwADleZSX5KrUo4AIIDxN-SSKc6UYGZDft3hjG3uO0wjdamhOLt2cmPMieZAHT3E_aFdaMFU4hhnpIepc4n2ro9tmzs3x2EqdI8pj0sf057e_byh_hD7t-QiuLbgu_O8Js_fvj7dfq8eHu9_3N48VF7I7Vhtg-QCcdtIYSQ3YbdTTZDBrRcGJRxT4JTixjuvg3fGiIZpCLuGBwGOaSeuycdTbz_k3xOW0XaxeGxblzBPxaqt1FIptYLiBPohlzJgsP0QOzcsloF9MWqP9q9R-2LUgrar0TX14Vw_7Tps_mXOClfgywnA9ck54mCLj5g8NnFAP9omx_8u-ANW-YpH</recordid><startdate>2006</startdate><enddate>2006</enddate><creator>Kim, Ki Hyung</creator><creator>Yoon, Man Soo</creator><creator>Na, Yong Jin</creator><creator>Park, Chang Soo</creator><creator>Oh, Myung Ryurl</creator><creator>Moon, Woo Chul</creator><general>Elsevier Inc</general><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>7X8</scope></search><sort><creationdate>2006</creationdate><title>Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip</title><author>Kim, Ki Hyung ; Yoon, Man Soo ; Na, Yong Jin ; Park, Chang Soo ; Oh, Myung Ryurl ; Moon, Woo Chul</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c357t-7f523ee7d539529fbb6df5fa621f63a160a6629cac8fca993d180fbd2f30a18a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2006</creationdate><topic>Adult</topic><topic>Aged</topic><topic>Base Sequence</topic><topic>Cervical Intraepithelial Neoplasia - genetics</topic><topic>Cervical Intraepithelial Neoplasia - virology</topic><topic>Conserved Sequence</topic><topic>DNA chip</topic><topic>DNA sequencing</topic><topic>DNA, Neoplasm - analysis</topic><topic>DNA, Neoplasm - genetics</topic><topic>DNA, Viral - analysis</topic><topic>DNA, Viral - genetics</topic><topic>Female</topic><topic>Genotype</topic><topic>Genotyping</topic><topic>Human papillomavirus</topic><topic>Humans</topic><topic>Middle Aged</topic><topic>Molecular Sequence Data</topic><topic>Oligonucleotide Array Sequence Analysis - methods</topic><topic>Papillomaviridae - classification</topic><topic>Papillomaviridae - genetics</topic><topic>Papillomavirus Infections - complications</topic><topic>Papillomavirus Infections - virology</topic><topic>Polymerase chain reaction</topic><topic>Sensitivity and Specificity</topic><topic>Uterine Cervical Neoplasms - genetics</topic><topic>Uterine Cervical Neoplasms - virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kim, Ki Hyung</creatorcontrib><creatorcontrib>Yoon, Man Soo</creatorcontrib><creatorcontrib>Na, Yong Jin</creatorcontrib><creatorcontrib>Park, Chang Soo</creatorcontrib><creatorcontrib>Oh, Myung Ryurl</creatorcontrib><creatorcontrib>Moon, Woo Chul</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Gynecologic oncology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kim, Ki Hyung</au><au>Yoon, Man Soo</au><au>Na, Yong Jin</au><au>Park, Chang Soo</au><au>Oh, Myung Ryurl</au><au>Moon, Woo Chul</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip</atitle><jtitle>Gynecologic oncology</jtitle><addtitle>Gynecol Oncol</addtitle><date>2006</date><risdate>2006</risdate><volume>100</volume><issue>1</issue><spage>38</spage><epage>43</epage><pages>38-43</pages><issn>0090-8258</issn><eissn>1095-6859</eissn><abstract>Test of human papillomavirus (HPV) is a useful adjunctive tool of Pap smear to screen cervical cancer. We have developed a novel HPV genotyping DNA chip arrayed by multiple oligonucleotide probes of both L1 and E6/E7 gene sequence of 42 types of anogenital HPV.
Consensus PCR products of L1 and E6/E7 gene sequences of HPV are hybridized to arrayed probes on the HPV chip and HPV genotypes are identified by fluorescence scanner. We have comparatively analyzed the value of HPV DNA chip and DNA sequencing in 100 cervical cancer tissues.
Overall, 98 cervical cancer tissues were found to harbor DNA sequences of high-risk type HPVs, of which 88 (89.8%) were detected by PCR-sequencing of L1 alone, 98 (100%) by PCR-sequencing of both L1 and E6/E7, and 98 (100%) by HPV DNA chip, respectively. All of the genotypes of HPV detected on sequencing analysis were also found on DNA chip analysis. HPV DNA chip was superior to direct DNA sequencing in detection of mixed infection.
These results suggest that HPV DNA chip analysis in the present study is highly accurate for detection and genotyping of HPV and may have potential value as a robust, high-throughput screening test of uterine cervix cancer.</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>16216319</pmid><doi>10.1016/j.ygyno.2005.08.024</doi><tpages>6</tpages></addata></record> |
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| subjects | Adult Aged Base Sequence Cervical Intraepithelial Neoplasia - genetics Cervical Intraepithelial Neoplasia - virology Conserved Sequence DNA chip DNA sequencing DNA, Neoplasm - analysis DNA, Neoplasm - genetics DNA, Viral - analysis DNA, Viral - genetics Female Genotype Genotyping Human papillomavirus Humans Middle Aged Molecular Sequence Data Oligonucleotide Array Sequence Analysis - methods Papillomaviridae - classification Papillomaviridae - genetics Papillomavirus Infections - complications Papillomavirus Infections - virology Polymerase chain reaction Sensitivity and Specificity Uterine Cervical Neoplasms - genetics Uterine Cervical Neoplasms - virology |
| title | Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip |
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