Gene Expression Analysis in Human Gastric Cancer Cell Line Treated with Trichostatin A and S-Adenosyl-L-homocysteine Using cDNA Microarray
Trichostatin A (TSA) and S-adenosyl-L-homocysteine (AdoHcy) have been reported to affect histone modifications. To investigate the effects of two drugs that can reportedly affect chromatin remodeling, we analyzed the gene expression profiles of TSA and AdoHcy in a gastric cancer cell line using 14 K...
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| Veröffentlicht in: | Biological & pharmaceutical bulletin 2004, Vol.27(10), pp.1497-1503 |
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| creator | Lee, Heun-Sik Park, Mie-Hee Yang, Suk-Jin Jung, Hai-Young Byun, Sang-Soon Lee, Dong-Seok Yoo, Hyang-Sook Yeom, Young Il Seo, Sang-Beom |
| description | Trichostatin A (TSA) and S-adenosyl-L-homocysteine (AdoHcy) have been reported to affect histone modifications. To investigate the effects of two drugs that can reportedly affect chromatin remodeling, we analyzed the gene expression profiles of TSA and AdoHcy in a gastric cancer cell line using 14 K cDNA microarray. The significant analysis of microarray (SAM) identified 98 and 43 differentially expressed genes in TSA and AdoHcy treated sets, respectively, and selected genes were functionally classified. In the gastric cancer cell line, genes related to cell communication, cell growth/maintenance, and morphogenesis were highly expressed with TSA, and genes with cell growth/maintenance, metabolism, oxidoreductase activity were upregulated with AdoHcy. Genes downregulated with TSA included those controlling the cell cycle, cell growth/proliferation, DNA binding, and metabolism, whereas genes involved in calcium signaling, cell growth/proliferation, and metabolism were downregulated with AdoHcy. Furthermore, we identified the genes commonly expressed in both drug treatments. Compared to TSA, AdoHcy did not induce apoptosis in the SNU-16 gastric cancer cell line, and RT-PCR was performed for selective genes to confirm the microarray data. This gene expression profile analysis with TSA and AdoHcy should contribute to a greater understanding of the molecular mechanism of chromatin remodeling and cancer, and provide candidate genes for further studies involving the roles of histone modifications in gastric cancer. |
| doi_str_mv | 10.1248/bpb.27.1497 |
| format | Article |
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To investigate the effects of two drugs that can reportedly affect chromatin remodeling, we analyzed the gene expression profiles of TSA and AdoHcy in a gastric cancer cell line using 14 K cDNA microarray. The significant analysis of microarray (SAM) identified 98 and 43 differentially expressed genes in TSA and AdoHcy treated sets, respectively, and selected genes were functionally classified. In the gastric cancer cell line, genes related to cell communication, cell growth/maintenance, and morphogenesis were highly expressed with TSA, and genes with cell growth/maintenance, metabolism, oxidoreductase activity were upregulated with AdoHcy. Genes downregulated with TSA included those controlling the cell cycle, cell growth/proliferation, DNA binding, and metabolism, whereas genes involved in calcium signaling, cell growth/proliferation, and metabolism were downregulated with AdoHcy. Furthermore, we identified the genes commonly expressed in both drug treatments. Compared to TSA, AdoHcy did not induce apoptosis in the SNU-16 gastric cancer cell line, and RT-PCR was performed for selective genes to confirm the microarray data. This gene expression profile analysis with TSA and AdoHcy should contribute to a greater understanding of the molecular mechanism of chromatin remodeling and cancer, and provide candidate genes for further studies involving the roles of histone modifications in gastric cancer.</description><identifier>ISSN: 0918-6158</identifier><identifier>EISSN: 1347-5215</identifier><identifier>DOI: 10.1248/bpb.27.1497</identifier><identifier>PMID: 15467184</identifier><language>eng</language><publisher>Japan: The Pharmaceutical Society of Japan</publisher><subject>Acetylation ; Apoptosis ; cDNA microarray ; Cell Line, Tumor ; Chromatin Assembly and Disassembly - drug effects ; Drug Interactions ; gastric cancer ; Gene Expression Profiling - methods ; Gene Expression Regulation - drug effects ; Histone Deacetylase Inhibitors ; Histones - metabolism ; Humans ; Hydroxamic Acids - pharmacology ; Methylation ; Methyltransferases - antagonists & inhibitors ; Oligonucleotide Array Sequence Analysis ; Protein Processing, Post-Translational - drug effects ; S-adenosyl-L-homocysteine ; S-Adenosylhomocysteine - pharmacology ; Stomach Neoplasms - genetics ; Stomach Neoplasms - metabolism ; trichostatin A</subject><ispartof>Biological and Pharmaceutical Bulletin, 2004, Vol.27(10), pp.1497-1503</ispartof><rights>2004 The Pharmaceutical Society of Japan</rights><rights>Copyright Japan Science and Technology Agency 2004</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c501t-17706af3e61f0900eeb806aa680cb283a22e81a8de1f93c5bd70cab49a370be3</citedby><cites>FETCH-LOGICAL-c501t-17706af3e61f0900eeb806aa680cb283a22e81a8de1f93c5bd70cab49a370be3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,1881,27923,27924</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15467184$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Lee, Heun-Sik</creatorcontrib><creatorcontrib>Park, Mie-Hee</creatorcontrib><creatorcontrib>Yang, Suk-Jin</creatorcontrib><creatorcontrib>Jung, Hai-Young</creatorcontrib><creatorcontrib>Byun, Sang-Soon</creatorcontrib><creatorcontrib>Lee, Dong-Seok</creatorcontrib><creatorcontrib>Yoo, Hyang-Sook</creatorcontrib><creatorcontrib>Yeom, Young Il</creatorcontrib><creatorcontrib>Seo, Sang-Beom</creatorcontrib><title>Gene Expression Analysis in Human Gastric Cancer Cell Line Treated with Trichostatin A and S-Adenosyl-L-homocysteine Using cDNA Microarray</title><title>Biological & pharmaceutical bulletin</title><addtitle>Biol Pharm Bull</addtitle><description>Trichostatin A (TSA) and S-adenosyl-L-homocysteine (AdoHcy) have been reported to affect histone modifications. To investigate the effects of two drugs that can reportedly affect chromatin remodeling, we analyzed the gene expression profiles of TSA and AdoHcy in a gastric cancer cell line using 14 K cDNA microarray. The significant analysis of microarray (SAM) identified 98 and 43 differentially expressed genes in TSA and AdoHcy treated sets, respectively, and selected genes were functionally classified. In the gastric cancer cell line, genes related to cell communication, cell growth/maintenance, and morphogenesis were highly expressed with TSA, and genes with cell growth/maintenance, metabolism, oxidoreductase activity were upregulated with AdoHcy. Genes downregulated with TSA included those controlling the cell cycle, cell growth/proliferation, DNA binding, and metabolism, whereas genes involved in calcium signaling, cell growth/proliferation, and metabolism were downregulated with AdoHcy. Furthermore, we identified the genes commonly expressed in both drug treatments. Compared to TSA, AdoHcy did not induce apoptosis in the SNU-16 gastric cancer cell line, and RT-PCR was performed for selective genes to confirm the microarray data. This gene expression profile analysis with TSA and AdoHcy should contribute to a greater understanding of the molecular mechanism of chromatin remodeling and cancer, and provide candidate genes for further studies involving the roles of histone modifications in gastric cancer.</description><subject>Acetylation</subject><subject>Apoptosis</subject><subject>cDNA microarray</subject><subject>Cell Line, Tumor</subject><subject>Chromatin Assembly and Disassembly - drug effects</subject><subject>Drug Interactions</subject><subject>gastric cancer</subject><subject>Gene Expression Profiling - methods</subject><subject>Gene Expression Regulation - drug effects</subject><subject>Histone Deacetylase Inhibitors</subject><subject>Histones - metabolism</subject><subject>Humans</subject><subject>Hydroxamic Acids - pharmacology</subject><subject>Methylation</subject><subject>Methyltransferases - antagonists & inhibitors</subject><subject>Oligonucleotide Array Sequence Analysis</subject><subject>Protein Processing, Post-Translational - drug effects</subject><subject>S-adenosyl-L-homocysteine</subject><subject>S-Adenosylhomocysteine - pharmacology</subject><subject>Stomach Neoplasms - genetics</subject><subject>Stomach Neoplasms - metabolism</subject><subject>trichostatin A</subject><issn>0918-6158</issn><issn>1347-5215</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpFkE9v0zAYhy0EYt3gxB1Z4jil-E8SO8fQbR1SgQPlHL1x3qyuUqfYrrZ8BT71XLUqF1u2n99Prx9CPnE25yLXX9t9OxdqzvNKvSEzLnOVFYIXb8mMVVxnJS_0FbkOYcsYU0zI9-SKF3mpuM5n5N8SHdL7l73HEOzoaO1gmIIN1Dr6eNiBo0sI0VtDF-AMerrAYaArm1JrjxCxo882btLBms0YIsQUrCm4jv7O6g7dGKYhW2WbcTeaKUQ8Jv8E656ouftZ0x_W-BG8h-kDedfDEPDjeb8h64f79eIxW_1afl_Uq8wUjMeMK8VK6CWWvGcVY4itThdQamZaoSUIgZqD7pD3lTRF2ylmoM0rkIq1KG_Il1Pt3o9_Dxhisx0PPv06NDzPKykqyWWibk9Umi4Ej32z93YHfmo4a47am6S9Eao5ak_053Pnod1h9589e07AtxOwTYae8AKAj9YMeClj5_XYenk0G_ANOvkKQqWV_A</recordid><startdate>20041001</startdate><enddate>20041001</enddate><creator>Lee, Heun-Sik</creator><creator>Park, Mie-Hee</creator><creator>Yang, Suk-Jin</creator><creator>Jung, Hai-Young</creator><creator>Byun, Sang-Soon</creator><creator>Lee, Dong-Seok</creator><creator>Yoo, Hyang-Sook</creator><creator>Yeom, Young Il</creator><creator>Seo, Sang-Beom</creator><general>The Pharmaceutical Society of Japan</general><general>Japan Science and Technology Agency</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>7QP</scope><scope>7QR</scope><scope>7TK</scope><scope>7U9</scope><scope>8FD</scope><scope>FR3</scope><scope>H94</scope><scope>P64</scope></search><sort><creationdate>20041001</creationdate><title>Gene Expression Analysis in Human Gastric Cancer Cell Line Treated with Trichostatin A and S-Adenosyl-L-homocysteine Using cDNA Microarray</title><author>Lee, Heun-Sik ; Park, Mie-Hee ; Yang, Suk-Jin ; Jung, Hai-Young ; Byun, Sang-Soon ; Lee, Dong-Seok ; Yoo, Hyang-Sook ; Yeom, Young Il ; Seo, Sang-Beom</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c501t-17706af3e61f0900eeb806aa680cb283a22e81a8de1f93c5bd70cab49a370be3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Acetylation</topic><topic>Apoptosis</topic><topic>cDNA microarray</topic><topic>Cell Line, Tumor</topic><topic>Chromatin Assembly and Disassembly - drug effects</topic><topic>Drug Interactions</topic><topic>gastric cancer</topic><topic>Gene Expression Profiling - methods</topic><topic>Gene Expression Regulation - drug effects</topic><topic>Histone Deacetylase Inhibitors</topic><topic>Histones - metabolism</topic><topic>Humans</topic><topic>Hydroxamic Acids - pharmacology</topic><topic>Methylation</topic><topic>Methyltransferases - antagonists & inhibitors</topic><topic>Oligonucleotide Array Sequence Analysis</topic><topic>Protein Processing, Post-Translational - drug effects</topic><topic>S-adenosyl-L-homocysteine</topic><topic>S-Adenosylhomocysteine - pharmacology</topic><topic>Stomach Neoplasms - genetics</topic><topic>Stomach Neoplasms - metabolism</topic><topic>trichostatin A</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lee, Heun-Sik</creatorcontrib><creatorcontrib>Park, Mie-Hee</creatorcontrib><creatorcontrib>Yang, Suk-Jin</creatorcontrib><creatorcontrib>Jung, Hai-Young</creatorcontrib><creatorcontrib>Byun, Sang-Soon</creatorcontrib><creatorcontrib>Lee, Dong-Seok</creatorcontrib><creatorcontrib>Yoo, Hyang-Sook</creatorcontrib><creatorcontrib>Yeom, Young Il</creatorcontrib><creatorcontrib>Seo, Sang-Beom</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Neurosciences Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Biotechnology and BioEngineering Abstracts</collection><jtitle>Biological & pharmaceutical bulletin</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Lee, Heun-Sik</au><au>Park, Mie-Hee</au><au>Yang, Suk-Jin</au><au>Jung, Hai-Young</au><au>Byun, Sang-Soon</au><au>Lee, Dong-Seok</au><au>Yoo, Hyang-Sook</au><au>Yeom, Young Il</au><au>Seo, Sang-Beom</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Gene Expression Analysis in Human Gastric Cancer Cell Line Treated with Trichostatin A and S-Adenosyl-L-homocysteine Using cDNA Microarray</atitle><jtitle>Biological & pharmaceutical bulletin</jtitle><addtitle>Biol Pharm Bull</addtitle><date>2004-10-01</date><risdate>2004</risdate><volume>27</volume><issue>10</issue><spage>1497</spage><epage>1503</epage><pages>1497-1503</pages><issn>0918-6158</issn><eissn>1347-5215</eissn><abstract>Trichostatin A (TSA) and S-adenosyl-L-homocysteine (AdoHcy) have been reported to affect histone modifications. To investigate the effects of two drugs that can reportedly affect chromatin remodeling, we analyzed the gene expression profiles of TSA and AdoHcy in a gastric cancer cell line using 14 K cDNA microarray. The significant analysis of microarray (SAM) identified 98 and 43 differentially expressed genes in TSA and AdoHcy treated sets, respectively, and selected genes were functionally classified. In the gastric cancer cell line, genes related to cell communication, cell growth/maintenance, and morphogenesis were highly expressed with TSA, and genes with cell growth/maintenance, metabolism, oxidoreductase activity were upregulated with AdoHcy. Genes downregulated with TSA included those controlling the cell cycle, cell growth/proliferation, DNA binding, and metabolism, whereas genes involved in calcium signaling, cell growth/proliferation, and metabolism were downregulated with AdoHcy. Furthermore, we identified the genes commonly expressed in both drug treatments. Compared to TSA, AdoHcy did not induce apoptosis in the SNU-16 gastric cancer cell line, and RT-PCR was performed for selective genes to confirm the microarray data. This gene expression profile analysis with TSA and AdoHcy should contribute to a greater understanding of the molecular mechanism of chromatin remodeling and cancer, and provide candidate genes for further studies involving the roles of histone modifications in gastric cancer.</abstract><cop>Japan</cop><pub>The Pharmaceutical Society of Japan</pub><pmid>15467184</pmid><doi>10.1248/bpb.27.1497</doi><tpages>7</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Acetylation Apoptosis cDNA microarray Cell Line, Tumor Chromatin Assembly and Disassembly - drug effects Drug Interactions gastric cancer Gene Expression Profiling - methods Gene Expression Regulation - drug effects Histone Deacetylase Inhibitors Histones - metabolism Humans Hydroxamic Acids - pharmacology Methylation Methyltransferases - antagonists & inhibitors Oligonucleotide Array Sequence Analysis Protein Processing, Post-Translational - drug effects S-adenosyl-L-homocysteine S-Adenosylhomocysteine - pharmacology Stomach Neoplasms - genetics Stomach Neoplasms - metabolism trichostatin A |
| title | Gene Expression Analysis in Human Gastric Cancer Cell Line Treated with Trichostatin A and S-Adenosyl-L-homocysteine Using cDNA Microarray |
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