Identification of candidate B-lymphoma genes by cross-species gene expression profiling
Comparative genome-wide expression profiling of malignant tumor counterparts across the human-mouse species barrier has a successful track record as a gene discovery tool in liver, breast, lung, prostate and other cancers, but has been largely neglected in studies on neoplasms of mature B-lymphocyte...
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| Veröffentlicht in: | PloS one 2013-10, Vol.8 (10), p.e76889-e76889 |
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| creator | Tompkins, Van S Han, Seong-Su Olivier, Alicia Syrbu, Sergei Bair, Thomas Button, Anna Jacobus, Laura Wang, Zebin Lifton, Samuel Raychaudhuri, Pradip Morse, 3rd, Herbert C Weiner, George Link, Brian Smith, Brian J Janz, Siegfried |
| description | Comparative genome-wide expression profiling of malignant tumor counterparts across the human-mouse species barrier has a successful track record as a gene discovery tool in liver, breast, lung, prostate and other cancers, but has been largely neglected in studies on neoplasms of mature B-lymphocytes such as diffuse large B cell lymphoma (DLBCL) and Burkitt lymphoma (BL). We used global gene expression profiles of DLBCL-like tumors that arose spontaneously in Myc-transgenic C57BL/6 mice as a phylogenetically conserved filter for analyzing the human DLBCL transcriptome. The human and mouse lymphomas were found to have 60 concordantly deregulated genes in common, including 8 genes that Cox hazard regression analysis associated with overall survival in a published landmark dataset of DLBCL. Genetic network analysis of the 60 genes followed by biological validation studies indicate FOXM1 as a candidate DLBCL and BL gene, supporting a number of studies contending that FOXM1 is a therapeutic target in mature B cell tumors. Our findings demonstrate the value of the "mouse filter" for genomic studies of human B-lineage neoplasms for which a vast knowledge base already exists. |
| doi_str_mv | 10.1371/journal.pone.0076889 |
| format | Article |
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We used global gene expression profiles of DLBCL-like tumors that arose spontaneously in Myc-transgenic C57BL/6 mice as a phylogenetically conserved filter for analyzing the human DLBCL transcriptome. The human and mouse lymphomas were found to have 60 concordantly deregulated genes in common, including 8 genes that Cox hazard regression analysis associated with overall survival in a published landmark dataset of DLBCL. Genetic network analysis of the 60 genes followed by biological validation studies indicate FOXM1 as a candidate DLBCL and BL gene, supporting a number of studies contending that FOXM1 is a therapeutic target in mature B cell tumors. Our findings demonstrate the value of the "mouse filter" for genomic studies of human B-lineage neoplasms for which a vast knowledge base already exists.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0076889</identifier><identifier>PMID: 24130802</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animals ; Apoptosis ; B cells ; B-cell lymphoma ; Biochemistry ; Burkitt Lymphoma - genetics ; Burkitt Lymphoma - pathology ; Burkitt's lymphoma ; Cancer ; Cell cycle ; Cell Line, Tumor ; Cell Proliferation - drug effects ; Cell Survival - drug effects ; Cytokines ; Deregulation ; Feasibility studies ; Forkhead Box Protein M1 ; Forkhead Transcription Factors - antagonists & inhibitors ; Forkhead Transcription Factors - genetics ; Gene expression ; Gene Expression Profiling ; Gene Regulatory Networks ; Genes ; Genes, Neoplasm - genetics ; Genetic analysis ; Genetic aspects ; Genetic engineering ; Genomes ; Genomics ; Humans ; Internal medicine ; Knowledge bases (artificial intelligence) ; Laboratories ; Liver ; Liver cancer ; Lungs ; Lymphocytes ; Lymphocytes B ; Lymphoma ; Lymphoma, Large B-Cell, Diffuse - genetics ; Lymphoma, Large B-Cell, Diffuse - pathology ; Medicine ; Mice ; Myc protein ; Neoplasms ; Network analysis ; Non-Hodgkin's lymphomas ; Oncology, Experimental ; Pathology ; Phylogeny ; Prostate ; Public health ; Regression analysis ; Species Specificity ; Therapeutic applications ; Thiostrepton - pharmacology ; Transgenic mice ; Tumors</subject><ispartof>PloS one, 2013-10, Vol.8 (10), p.e76889-e76889</ispartof><rights>COPYRIGHT 2013 Public Library of Science</rights><rights>2013. This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2013</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-716a3aa01eb786e9c92bdaab101865c0c13f488d761f5ae0110ff5df0d341ad73</citedby><cites>FETCH-LOGICAL-c692t-716a3aa01eb786e9c92bdaab101865c0c13f488d761f5ae0110ff5df0d341ad73</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3793908/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3793908/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24130802$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Tompkins, Van S</creatorcontrib><creatorcontrib>Han, Seong-Su</creatorcontrib><creatorcontrib>Olivier, Alicia</creatorcontrib><creatorcontrib>Syrbu, Sergei</creatorcontrib><creatorcontrib>Bair, Thomas</creatorcontrib><creatorcontrib>Button, Anna</creatorcontrib><creatorcontrib>Jacobus, Laura</creatorcontrib><creatorcontrib>Wang, Zebin</creatorcontrib><creatorcontrib>Lifton, Samuel</creatorcontrib><creatorcontrib>Raychaudhuri, Pradip</creatorcontrib><creatorcontrib>Morse, 3rd, Herbert C</creatorcontrib><creatorcontrib>Weiner, George</creatorcontrib><creatorcontrib>Link, Brian</creatorcontrib><creatorcontrib>Smith, Brian J</creatorcontrib><creatorcontrib>Janz, Siegfried</creatorcontrib><title>Identification of candidate B-lymphoma genes by cross-species gene expression profiling</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Comparative genome-wide expression profiling of malignant tumor counterparts across the human-mouse species barrier has a successful track record as a gene discovery tool in liver, breast, lung, prostate and other cancers, but has been largely neglected in studies on neoplasms of mature B-lymphocytes such as diffuse large B cell lymphoma (DLBCL) and Burkitt lymphoma (BL). We used global gene expression profiles of DLBCL-like tumors that arose spontaneously in Myc-transgenic C57BL/6 mice as a phylogenetically conserved filter for analyzing the human DLBCL transcriptome. The human and mouse lymphomas were found to have 60 concordantly deregulated genes in common, including 8 genes that Cox hazard regression analysis associated with overall survival in a published landmark dataset of DLBCL. Genetic network analysis of the 60 genes followed by biological validation studies indicate FOXM1 as a candidate DLBCL and BL gene, supporting a number of studies contending that FOXM1 is a therapeutic target in mature B cell tumors. Our findings demonstrate the value of the "mouse filter" for genomic studies of human B-lineage neoplasms for which a vast knowledge base already exists.</description><subject>Animals</subject><subject>Apoptosis</subject><subject>B cells</subject><subject>B-cell lymphoma</subject><subject>Biochemistry</subject><subject>Burkitt Lymphoma - genetics</subject><subject>Burkitt Lymphoma - pathology</subject><subject>Burkitt's lymphoma</subject><subject>Cancer</subject><subject>Cell cycle</subject><subject>Cell Line, Tumor</subject><subject>Cell Proliferation - drug effects</subject><subject>Cell Survival - drug effects</subject><subject>Cytokines</subject><subject>Deregulation</subject><subject>Feasibility studies</subject><subject>Forkhead Box Protein M1</subject><subject>Forkhead Transcription Factors - antagonists & inhibitors</subject><subject>Forkhead Transcription Factors - genetics</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Regulatory Networks</subject><subject>Genes</subject><subject>Genes, Neoplasm - genetics</subject><subject>Genetic analysis</subject><subject>Genetic aspects</subject><subject>Genetic engineering</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Humans</subject><subject>Internal medicine</subject><subject>Knowledge bases (artificial intelligence)</subject><subject>Laboratories</subject><subject>Liver</subject><subject>Liver cancer</subject><subject>Lungs</subject><subject>Lymphocytes</subject><subject>Lymphocytes B</subject><subject>Lymphoma</subject><subject>Lymphoma, Large B-Cell, Diffuse - genetics</subject><subject>Lymphoma, Large B-Cell, Diffuse - pathology</subject><subject>Medicine</subject><subject>Mice</subject><subject>Myc protein</subject><subject>Neoplasms</subject><subject>Network analysis</subject><subject>Non-Hodgkin's lymphomas</subject><subject>Oncology, Experimental</subject><subject>Pathology</subject><subject>Phylogeny</subject><subject>Prostate</subject><subject>Public health</subject><subject>Regression analysis</subject><subject>Species Specificity</subject><subject>Therapeutic applications</subject><subject>Thiostrepton - pharmacology</subject><subject>Transgenic mice</subject><subject>Tumors</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2013</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNkl2L1DAYhYso7jr6D0QLguhFx6Rp0-RGWBc_BhYW_LwMb_PRydA2tWll59-bznSXqeyF9KLl7XNOkpMTRc8xWmNS4Hc7N_Yt1OvOtXqNUEEZ4w-ic8xJmtAUkYcn32fRE-93COWEUfo4OkszTBBD6Xn0a6N0O1hjJQzWtbEzsYRWWQWDjj8k9b7ptq6BuNKt9nG5j2XvvE98p6UNg2kc65uu195P8q53xta2rZ5GjwzUXj-b36vox6eP3y-_JFfXnzeXF1eJpDwdkgJTIAAI67JgVHPJ01IBlBhhRnOJJCYmY0wVFJscNMIYGZMrgxTJMKiCrKKXR9-udl7MmXiBswwxglLCA7E5EsrBTnS9baDfCwdWHAaurwT0g5W1FllqJGgqoWAqk2kKnJYm5ZwXJUoVk8Hr_bzaWDZayRBdD_XCdPmntVtRuT-CFJzwsKNV9GY26N3vUftBNNZLXdfQajce9k04JzTHAX31D3r_6WaqgnAA2xoX1pWTqbjICkZyktEppfU9VHiUbqwMBQqXppeCtwtBYAZ9M1Qwei82377-P3v9c8m-PmG3Guph6109Tt3zSzA7goe-9drchYyRmPp_m4aY-i_m_gfZi9MLuhPdFp78Bf9tANA</recordid><startdate>20131009</startdate><enddate>20131009</enddate><creator>Tompkins, Van S</creator><creator>Han, Seong-Su</creator><creator>Olivier, Alicia</creator><creator>Syrbu, Sergei</creator><creator>Bair, Thomas</creator><creator>Button, Anna</creator><creator>Jacobus, Laura</creator><creator>Wang, Zebin</creator><creator>Lifton, Samuel</creator><creator>Raychaudhuri, Pradip</creator><creator>Morse, 3rd, Herbert C</creator><creator>Weiner, George</creator><creator>Link, Brian</creator><creator>Smith, Brian J</creator><creator>Janz, Siegfried</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</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>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20131009</creationdate><title>Identification of candidate B-lymphoma genes by cross-species gene expression profiling</title><author>Tompkins, Van S ; Han, Seong-Su ; Olivier, Alicia ; Syrbu, Sergei ; Bair, Thomas ; Button, Anna ; Jacobus, Laura ; Wang, Zebin ; Lifton, Samuel ; Raychaudhuri, Pradip ; Morse, 3rd, Herbert C ; Weiner, George ; Link, Brian ; Smith, Brian J ; Janz, Siegfried</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-716a3aa01eb786e9c92bdaab101865c0c13f488d761f5ae0110ff5df0d341ad73</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2013</creationdate><topic>Animals</topic><topic>Apoptosis</topic><topic>B cells</topic><topic>B-cell lymphoma</topic><topic>Biochemistry</topic><topic>Burkitt Lymphoma - genetics</topic><topic>Burkitt Lymphoma - pathology</topic><topic>Burkitt's lymphoma</topic><topic>Cancer</topic><topic>Cell cycle</topic><topic>Cell Line, Tumor</topic><topic>Cell Proliferation - drug effects</topic><topic>Cell Survival - drug effects</topic><topic>Cytokines</topic><topic>Deregulation</topic><topic>Feasibility studies</topic><topic>Forkhead Box Protein M1</topic><topic>Forkhead Transcription Factors - antagonists & inhibitors</topic><topic>Forkhead Transcription Factors - genetics</topic><topic>Gene expression</topic><topic>Gene Expression Profiling</topic><topic>Gene Regulatory Networks</topic><topic>Genes</topic><topic>Genes, Neoplasm - genetics</topic><topic>Genetic analysis</topic><topic>Genetic aspects</topic><topic>Genetic engineering</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Humans</topic><topic>Internal medicine</topic><topic>Knowledge bases (artificial intelligence)</topic><topic>Laboratories</topic><topic>Liver</topic><topic>Liver cancer</topic><topic>Lungs</topic><topic>Lymphocytes</topic><topic>Lymphocytes B</topic><topic>Lymphoma</topic><topic>Lymphoma, Large B-Cell, Diffuse - 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We used global gene expression profiles of DLBCL-like tumors that arose spontaneously in Myc-transgenic C57BL/6 mice as a phylogenetically conserved filter for analyzing the human DLBCL transcriptome. The human and mouse lymphomas were found to have 60 concordantly deregulated genes in common, including 8 genes that Cox hazard regression analysis associated with overall survival in a published landmark dataset of DLBCL. Genetic network analysis of the 60 genes followed by biological validation studies indicate FOXM1 as a candidate DLBCL and BL gene, supporting a number of studies contending that FOXM1 is a therapeutic target in mature B cell tumors. Our findings demonstrate the value of the "mouse filter" for genomic studies of human B-lineage neoplasms for which a vast knowledge base already exists.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>24130802</pmid><doi>10.1371/journal.pone.0076889</doi><tpages>e76889</tpages><oa>free_for_read</oa></addata></record> |
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| language | eng |
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| source | Open Access: PubMed Central; PLoS; MEDLINE; Full-Text Journals in Chemistry (Open access); Directory of Open Access Journals; EZB Electronic Journals Library |
| subjects | Animals Apoptosis B cells B-cell lymphoma Biochemistry Burkitt Lymphoma - genetics Burkitt Lymphoma - pathology Burkitt's lymphoma Cancer Cell cycle Cell Line, Tumor Cell Proliferation - drug effects Cell Survival - drug effects Cytokines Deregulation Feasibility studies Forkhead Box Protein M1 Forkhead Transcription Factors - antagonists & inhibitors Forkhead Transcription Factors - genetics Gene expression Gene Expression Profiling Gene Regulatory Networks Genes Genes, Neoplasm - genetics Genetic analysis Genetic aspects Genetic engineering Genomes Genomics Humans Internal medicine Knowledge bases (artificial intelligence) Laboratories Liver Liver cancer Lungs Lymphocytes Lymphocytes B Lymphoma Lymphoma, Large B-Cell, Diffuse - genetics Lymphoma, Large B-Cell, Diffuse - pathology Medicine Mice Myc protein Neoplasms Network analysis Non-Hodgkin's lymphomas Oncology, Experimental Pathology Phylogeny Prostate Public health Regression analysis Species Specificity Therapeutic applications Thiostrepton - pharmacology Transgenic mice Tumors |
| title | Identification of candidate B-lymphoma genes by cross-species gene expression profiling |
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