Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung
Summary Genomic alterations have been identified in lung cancer tissues and reported in numerous studies. To analyze genomic aberrations in lung cancer patients, we used array comparative genomic hybridization (array CGH) in 14 squamous cell lung carcinoma (SqC) tissues. Copy number gain and loss in...
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| Veröffentlicht in: | Lung cancer (Amsterdam, Netherlands) Netherlands), 2007-01, Vol.55 (1), p.43-51 |
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| creator | Choi, Yong-Woo Choi, Jin Soo Zheng, Long Tai Lim, Yun Jeong Yoon, Hyoung Kyu Kim, Yeul Hong Wang, Young-Pil Lim, Young |
| description | Summary Genomic alterations have been identified in lung cancer tissues and reported in numerous studies. To analyze genomic aberrations in lung cancer patients, we used array comparative genomic hybridization (array CGH) in 14 squamous cell lung carcinoma (SqC) tissues. Copy number gain and loss in chromosomal regions were detected, and the corresponding genes were confirmed by real time PCR. Several frequently altered loci, including gain of 3q (36% of samples), were found. The most frequently identified losses were found at 14q32.33 (21% of samples). The relative degree of chromosomal change was analyzed using log2 ratios. High-level DNA amplifications (>0.8 log2 ratio) were detected at 20 regions in 1p, 2q, 3q, 4q, 6q, 7p, 8q, 9p, 10q, 12q, 14q and 19p. We found that the fold change levels were highest at EVI1 (3q26.2), LPP (3q27-28) and FHF-1 (3q28) gene loci. Our results show that array CGH is a useful tool for identification of gene alteration in lung cancer, and that the above-mentioned genes might represent potential candidate genes for pathogenesis and diagnosis of lung cancer. |
| doi_str_mv | 10.1016/j.lungcan.2006.09.018 |
| format | Article |
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To analyze genomic aberrations in lung cancer patients, we used array comparative genomic hybridization (array CGH) in 14 squamous cell lung carcinoma (SqC) tissues. Copy number gain and loss in chromosomal regions were detected, and the corresponding genes were confirmed by real time PCR. Several frequently altered loci, including gain of 3q (36% of samples), were found. The most frequently identified losses were found at 14q32.33 (21% of samples). The relative degree of chromosomal change was analyzed using log2 ratios. High-level DNA amplifications (>0.8 log2 ratio) were detected at 20 regions in 1p, 2q, 3q, 4q, 6q, 7p, 8q, 9p, 10q, 12q, 14q and 19p. We found that the fold change levels were highest at EVI1 (3q26.2), LPP (3q27-28) and FHF-1 (3q28) gene loci. Our results show that array CGH is a useful tool for identification of gene alteration in lung cancer, and that the above-mentioned genes might represent potential candidate genes for pathogenesis and diagnosis of lung cancer.</description><identifier>ISSN: 0169-5002</identifier><identifier>EISSN: 1872-8332</identifier><identifier>DOI: 10.1016/j.lungcan.2006.09.018</identifier><identifier>PMID: 17109992</identifier><language>eng</language><publisher>Ireland: Elsevier Ireland Ltd</publisher><subject>Aged ; Aged, 80 and over ; Array CGH ; Carcinoma, Squamous Cell - genetics ; Carcinoma, Squamous Cell - pathology ; Chromosomal aberration ; Chromosome Aberrations ; DNA, Neoplasm - genetics ; Female ; Gene amplification ; Hematology, Oncology and Palliative Medicine ; Humans ; Lung cancer ; Lung Neoplasms - genetics ; Lung Neoplasms - pathology ; Lymph Nodes - pathology ; Male ; Middle Aged ; Mutation ; Neoplasm Metastasis ; Nucleic Acid Hybridization - methods ; Oligonucleotide Array Sequence Analysis ; Polymerase Chain Reaction ; Pulmonary/Respiratory ; Real time PCR ; Squamous cell carcinoma</subject><ispartof>Lung cancer (Amsterdam, Netherlands), 2007-01, Vol.55 (1), p.43-51</ispartof><rights>Elsevier Ireland Ltd</rights><rights>2006 Elsevier Ireland Ltd</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c484t-76e3d9e384e64d0cb503cdcb2905b3795b2484127345f996a4379f89a39e82e93</citedby><cites>FETCH-LOGICAL-c484t-76e3d9e384e64d0cb503cdcb2905b3795b2484127345f996a4379f89a39e82e93</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.lungcan.2006.09.018$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,777,781,3537,27905,27906,45976</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/17109992$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Choi, Yong-Woo</creatorcontrib><creatorcontrib>Choi, Jin Soo</creatorcontrib><creatorcontrib>Zheng, Long Tai</creatorcontrib><creatorcontrib>Lim, Yun Jeong</creatorcontrib><creatorcontrib>Yoon, Hyoung Kyu</creatorcontrib><creatorcontrib>Kim, Yeul Hong</creatorcontrib><creatorcontrib>Wang, Young-Pil</creatorcontrib><creatorcontrib>Lim, Young</creatorcontrib><title>Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung</title><title>Lung cancer (Amsterdam, Netherlands)</title><addtitle>Lung Cancer</addtitle><description>Summary Genomic alterations have been identified in lung cancer tissues and reported in numerous studies. To analyze genomic aberrations in lung cancer patients, we used array comparative genomic hybridization (array CGH) in 14 squamous cell lung carcinoma (SqC) tissues. Copy number gain and loss in chromosomal regions were detected, and the corresponding genes were confirmed by real time PCR. Several frequently altered loci, including gain of 3q (36% of samples), were found. The most frequently identified losses were found at 14q32.33 (21% of samples). The relative degree of chromosomal change was analyzed using log2 ratios. High-level DNA amplifications (>0.8 log2 ratio) were detected at 20 regions in 1p, 2q, 3q, 4q, 6q, 7p, 8q, 9p, 10q, 12q, 14q and 19p. We found that the fold change levels were highest at EVI1 (3q26.2), LPP (3q27-28) and FHF-1 (3q28) gene loci. Our results show that array CGH is a useful tool for identification of gene alteration in lung cancer, and that the above-mentioned genes might represent potential candidate genes for pathogenesis and diagnosis of lung cancer.</description><subject>Aged</subject><subject>Aged, 80 and over</subject><subject>Array CGH</subject><subject>Carcinoma, Squamous Cell - genetics</subject><subject>Carcinoma, Squamous Cell - pathology</subject><subject>Chromosomal aberration</subject><subject>Chromosome Aberrations</subject><subject>DNA, Neoplasm - genetics</subject><subject>Female</subject><subject>Gene amplification</subject><subject>Hematology, Oncology and Palliative Medicine</subject><subject>Humans</subject><subject>Lung cancer</subject><subject>Lung Neoplasms - genetics</subject><subject>Lung Neoplasms - pathology</subject><subject>Lymph Nodes - pathology</subject><subject>Male</subject><subject>Middle Aged</subject><subject>Mutation</subject><subject>Neoplasm Metastasis</subject><subject>Nucleic Acid Hybridization - methods</subject><subject>Oligonucleotide Array Sequence Analysis</subject><subject>Polymerase Chain Reaction</subject><subject>Pulmonary/Respiratory</subject><subject>Real time PCR</subject><subject>Squamous cell carcinoma</subject><issn>0169-5002</issn><issn>1872-8332</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2007</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFUstu1DAUtRCITgufAPKKXcK1nZc3IDQqBakSiMfacpyb1kNiT-1kpPAB_W6czgikbljdh865r3MJecUgZ8Cqt7t8mN2N0S7nAFUOMgfWPCEb1tQ8a4TgT8km4WRWAvAzch7jDoDVDORzcvZgpeQbcr_1414HPdkD0ht0frSG3i5tsJ39nbLeUR2CXqh2eliijcnpaEA90MmOSL9uv6XokOL4l66HCcMDN1LraLyb9ejnSA0OAzU6GJtwOlLf0-kW6brHC_KsTyXw5clekJ8fL39sP2XXX64-bz9cZ6ZoiimrKxSdRNEUWBUdmLYEYTrTcgllK2pZtjzhGK9FUfZSVrpIyb6RWkhsOEpxQd4c6-6Dv5sxTmq0cZ1LO0wjqiqxi7JmCVgegSb4GAP2ah_sqMOiGKhVALVTJwHUKoACqZIAiff61GBuR-z-sU4XT4D3RwCmNQ8Wg4rGojPY2YBmUp23_23x7lEFM1hnjR5-4YJx5-eQtIqKqcgVqO_rF6xPABVAydLF_gBP2rCX</recordid><startdate>20070101</startdate><enddate>20070101</enddate><creator>Choi, Yong-Woo</creator><creator>Choi, Jin Soo</creator><creator>Zheng, Long Tai</creator><creator>Lim, Yun Jeong</creator><creator>Yoon, Hyoung Kyu</creator><creator>Kim, Yeul Hong</creator><creator>Wang, Young-Pil</creator><creator>Lim, Young</creator><general>Elsevier Ireland Ltd</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>20070101</creationdate><title>Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung</title><author>Choi, Yong-Woo ; Choi, Jin Soo ; Zheng, Long Tai ; Lim, Yun Jeong ; Yoon, Hyoung Kyu ; Kim, Yeul Hong ; Wang, Young-Pil ; Lim, Young</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c484t-76e3d9e384e64d0cb503cdcb2905b3795b2484127345f996a4379f89a39e82e93</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2007</creationdate><topic>Aged</topic><topic>Aged, 80 and over</topic><topic>Array CGH</topic><topic>Carcinoma, Squamous Cell - genetics</topic><topic>Carcinoma, Squamous Cell - pathology</topic><topic>Chromosomal aberration</topic><topic>Chromosome Aberrations</topic><topic>DNA, Neoplasm - genetics</topic><topic>Female</topic><topic>Gene amplification</topic><topic>Hematology, Oncology and Palliative Medicine</topic><topic>Humans</topic><topic>Lung cancer</topic><topic>Lung Neoplasms - genetics</topic><topic>Lung Neoplasms - pathology</topic><topic>Lymph Nodes - pathology</topic><topic>Male</topic><topic>Middle Aged</topic><topic>Mutation</topic><topic>Neoplasm Metastasis</topic><topic>Nucleic Acid Hybridization - methods</topic><topic>Oligonucleotide Array Sequence Analysis</topic><topic>Polymerase Chain Reaction</topic><topic>Pulmonary/Respiratory</topic><topic>Real time PCR</topic><topic>Squamous cell carcinoma</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Choi, Yong-Woo</creatorcontrib><creatorcontrib>Choi, Jin Soo</creatorcontrib><creatorcontrib>Zheng, Long Tai</creatorcontrib><creatorcontrib>Lim, Yun Jeong</creatorcontrib><creatorcontrib>Yoon, Hyoung Kyu</creatorcontrib><creatorcontrib>Kim, Yeul Hong</creatorcontrib><creatorcontrib>Wang, Young-Pil</creatorcontrib><creatorcontrib>Lim, Young</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>Lung cancer (Amsterdam, Netherlands)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Choi, Yong-Woo</au><au>Choi, Jin Soo</au><au>Zheng, Long Tai</au><au>Lim, Yun Jeong</au><au>Yoon, Hyoung Kyu</au><au>Kim, Yeul Hong</au><au>Wang, Young-Pil</au><au>Lim, Young</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung</atitle><jtitle>Lung cancer (Amsterdam, Netherlands)</jtitle><addtitle>Lung Cancer</addtitle><date>2007-01-01</date><risdate>2007</risdate><volume>55</volume><issue>1</issue><spage>43</spage><epage>51</epage><pages>43-51</pages><issn>0169-5002</issn><eissn>1872-8332</eissn><abstract>Summary Genomic alterations have been identified in lung cancer tissues and reported in numerous studies. To analyze genomic aberrations in lung cancer patients, we used array comparative genomic hybridization (array CGH) in 14 squamous cell lung carcinoma (SqC) tissues. Copy number gain and loss in chromosomal regions were detected, and the corresponding genes were confirmed by real time PCR. Several frequently altered loci, including gain of 3q (36% of samples), were found. The most frequently identified losses were found at 14q32.33 (21% of samples). The relative degree of chromosomal change was analyzed using log2 ratios. High-level DNA amplifications (>0.8 log2 ratio) were detected at 20 regions in 1p, 2q, 3q, 4q, 6q, 7p, 8q, 9p, 10q, 12q, 14q and 19p. We found that the fold change levels were highest at EVI1 (3q26.2), LPP (3q27-28) and FHF-1 (3q28) gene loci. Our results show that array CGH is a useful tool for identification of gene alteration in lung cancer, and that the above-mentioned genes might represent potential candidate genes for pathogenesis and diagnosis of lung cancer.</abstract><cop>Ireland</cop><pub>Elsevier Ireland Ltd</pub><pmid>17109992</pmid><doi>10.1016/j.lungcan.2006.09.018</doi><tpages>9</tpages></addata></record> |
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| subjects | Aged Aged, 80 and over Array CGH Carcinoma, Squamous Cell - genetics Carcinoma, Squamous Cell - pathology Chromosomal aberration Chromosome Aberrations DNA, Neoplasm - genetics Female Gene amplification Hematology, Oncology and Palliative Medicine Humans Lung cancer Lung Neoplasms - genetics Lung Neoplasms - pathology Lymph Nodes - pathology Male Middle Aged Mutation Neoplasm Metastasis Nucleic Acid Hybridization - methods Oligonucleotide Array Sequence Analysis Polymerase Chain Reaction Pulmonary/Respiratory Real time PCR Squamous cell carcinoma |
| title | Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung |
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