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Large-Scale Profiling of Archival Lymph Nodes Reveals Pervasive Remodeling of the Follicular Lymphoma Methylome
Emerging technologies allow broad profiling of the cancer genome for differential DNA methylation relative to benign cells. Herein, bisulfite-modified DNA from lymph nodes with either reactive hyperplasia or follicular lymphoma (FL) were analyzed using a commercial C/UpG genotyping assay. Two hundre...
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| Published in: | Cancer research (Chicago, Ill.) Ill.), 2009-02, Vol.69 (3), p.758-764 |
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| cites | cdi_FETCH-LOGICAL-c471t-188824c0e6e9ccc8fdd2b7c82429f43a2bf7f1309ee590564a479491641c2c473 |
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| container_title | Cancer research (Chicago, Ill.) |
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| creator | KEITH KILLIAN, J BILKE, Sven CORNELISON, Robert SMITH, William I BIBIKOVA, Marina FAN, Jian-Bing EMMERT-BUCK, Michael R JAFFE, Elaine S MELTZER, Paul S DAVIS, Sean WALKER, Robert L KILLIAN, M. Scott JAEGER, Erich B YIDONG CHEN HIPP, Jason PITTALUGA, Stefania RAFFELD, Mark |
| description | Emerging technologies allow broad profiling of the cancer genome for differential DNA methylation relative to benign cells. Herein, bisulfite-modified DNA from lymph nodes with either reactive hyperplasia or follicular lymphoma (FL) were analyzed using a commercial C/UpG genotyping assay. Two hundred fifty-nine differentially methylated targets (DMT) distributed among 183 unique genes were identified in FL. Comparison of matched formalin-fixed, paraffin-embedded and frozen surgical pathology replicates showed the complete preservation of the cancer methylome among differently archived tissue specimens. Analysis of the DMT profile is consistent with a pervasive epigenomic remodeling process in FL that affects predominantly nonlymphoid genes. |
| doi_str_mv | 10.1158/0008-5472.CAN-08-2984 |
| format | article |
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Comparison of matched formalin-fixed, paraffin-embedded and frozen surgical pathology replicates showed the complete preservation of the cancer methylome among differently archived tissue specimens. Analysis of the DMT profile is consistent with a pervasive epigenomic remodeling process in FL that affects predominantly nonlymphoid genes.</description><identifier>ISSN: 0008-5472</identifier><identifier>EISSN: 1538-7445</identifier><identifier>DOI: 10.1158/0008-5472.CAN-08-2984</identifier><identifier>PMID: 19155300</identifier><identifier>CODEN: CNREA8</identifier><language>eng</language><publisher>Philadelphia, PA: American Association for Cancer Research</publisher><subject>Antineoplastic agents ; Biological and medical sciences ; CpG Islands ; DNA Methylation ; DNA, Neoplasm - genetics ; DNA, Neoplasm - isolation & purification ; Formaldehyde ; Gene Expression Profiling ; Gene Expression Regulation, Neoplastic ; Hematologic and hematopoietic diseases ; Humans ; Leukemias. Malignant lymphomas. Malignant reticulosis. Myelofibrosis ; Lymph Nodes - pathology ; Lymphoma, Follicular - genetics ; Lymphoma, Follicular - pathology ; Medical sciences ; Paraffin Embedding ; Pharmacology. Drug treatments ; Reproducibility of Results ; Tissue Fixation ; Tumors</subject><ispartof>Cancer research (Chicago, Ill.), 2009-02, Vol.69 (3), p.758-764</ispartof><rights>2009 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c471t-188824c0e6e9ccc8fdd2b7c82429f43a2bf7f1309ee590564a479491641c2c473</citedby><cites>FETCH-LOGICAL-c471t-188824c0e6e9ccc8fdd2b7c82429f43a2bf7f1309ee590564a479491641c2c473</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,780,784,885,27924,27925</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=21653449$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/19155300$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>KEITH KILLIAN, J</creatorcontrib><creatorcontrib>BILKE, Sven</creatorcontrib><creatorcontrib>CORNELISON, Robert</creatorcontrib><creatorcontrib>SMITH, William I</creatorcontrib><creatorcontrib>BIBIKOVA, Marina</creatorcontrib><creatorcontrib>FAN, Jian-Bing</creatorcontrib><creatorcontrib>EMMERT-BUCK, Michael R</creatorcontrib><creatorcontrib>JAFFE, Elaine S</creatorcontrib><creatorcontrib>MELTZER, Paul S</creatorcontrib><creatorcontrib>DAVIS, Sean</creatorcontrib><creatorcontrib>WALKER, Robert L</creatorcontrib><creatorcontrib>KILLIAN, M. Scott</creatorcontrib><creatorcontrib>JAEGER, Erich B</creatorcontrib><creatorcontrib>YIDONG CHEN</creatorcontrib><creatorcontrib>HIPP, Jason</creatorcontrib><creatorcontrib>PITTALUGA, Stefania</creatorcontrib><creatorcontrib>RAFFELD, Mark</creatorcontrib><title>Large-Scale Profiling of Archival Lymph Nodes Reveals Pervasive Remodeling of the Follicular Lymphoma Methylome</title><title>Cancer research (Chicago, Ill.)</title><addtitle>Cancer Res</addtitle><description>Emerging technologies allow broad profiling of the cancer genome for differential DNA methylation relative to benign cells. Herein, bisulfite-modified DNA from lymph nodes with either reactive hyperplasia or follicular lymphoma (FL) were analyzed using a commercial C/UpG genotyping assay. Two hundred fifty-nine differentially methylated targets (DMT) distributed among 183 unique genes were identified in FL. Comparison of matched formalin-fixed, paraffin-embedded and frozen surgical pathology replicates showed the complete preservation of the cancer methylome among differently archived tissue specimens. Analysis of the DMT profile is consistent with a pervasive epigenomic remodeling process in FL that affects predominantly nonlymphoid genes.</description><subject>Antineoplastic agents</subject><subject>Biological and medical sciences</subject><subject>CpG Islands</subject><subject>DNA Methylation</subject><subject>DNA, Neoplasm - genetics</subject><subject>DNA, Neoplasm - isolation & purification</subject><subject>Formaldehyde</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation, Neoplastic</subject><subject>Hematologic and hematopoietic diseases</subject><subject>Humans</subject><subject>Leukemias. Malignant lymphomas. Malignant reticulosis. Myelofibrosis</subject><subject>Lymph Nodes - pathology</subject><subject>Lymphoma, Follicular - genetics</subject><subject>Lymphoma, Follicular - pathology</subject><subject>Medical sciences</subject><subject>Paraffin Embedding</subject><subject>Pharmacology. Drug treatments</subject><subject>Reproducibility of Results</subject><subject>Tissue Fixation</subject><subject>Tumors</subject><issn>0008-5472</issn><issn>1538-7445</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</creationdate><recordtype>article</recordtype><recordid>eNpVkUtvEzEUhS0EomnLTwB5A7tp_ZzxbJCiiFKktFQF1pbjXGeMPONgT0bKv8dRQoDVfZ1zbOlD6C0lN5RKdUsIUZUUDbtZzB-r0rNWiRdoRiVXVSOEfIlmZ80Fusz5ZxklJfI1uqAtlZITMkNxadIGqm_WBMBPKTof_LDB0eF5sp2fTMDLfb_t8GNcQ8bPMIEJGT9Bmkz2E5RNXy5_TGMH-C6G4O0umHS0xt7gBxi7fYg9XKNXrgTAm1O9Qj_uPn1f3FfLr5-_LObLyoqGjhVVSjFhCdTQWmuVW6_ZqrFlx1onuGEr1zjKSQsgWyJrYUTTipbWglpWIvgV-njM3e5WPawtDGMyQW-T703a62i8_v8y-E5v4qQbRnlT8xLw4RSQ4q8d5FH3PlsIwQwQd1nXtao5UaQI5VFoU8w5gTs_Qok-oNIHDPqAQRdUuvQHVMX37t8f_nWd2BTB-5PA5ILHJTNYn886RmvJhWj5b7FhnjI</recordid><startdate>20090201</startdate><enddate>20090201</enddate><creator>KEITH KILLIAN, J</creator><creator>BILKE, Sven</creator><creator>CORNELISON, Robert</creator><creator>SMITH, William I</creator><creator>BIBIKOVA, Marina</creator><creator>FAN, Jian-Bing</creator><creator>EMMERT-BUCK, Michael R</creator><creator>JAFFE, Elaine S</creator><creator>MELTZER, Paul S</creator><creator>DAVIS, Sean</creator><creator>WALKER, Robert L</creator><creator>KILLIAN, M. 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| ispartof | Cancer research (Chicago, Ill.), 2009-02, Vol.69 (3), p.758-764 |
| issn | 0008-5472 1538-7445 |
| language | eng |
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| source | EZB Electronic Journals Library |
| subjects | Antineoplastic agents Biological and medical sciences CpG Islands DNA Methylation DNA, Neoplasm - genetics DNA, Neoplasm - isolation & purification Formaldehyde Gene Expression Profiling Gene Expression Regulation, Neoplastic Hematologic and hematopoietic diseases Humans Leukemias. Malignant lymphomas. Malignant reticulosis. Myelofibrosis Lymph Nodes - pathology Lymphoma, Follicular - genetics Lymphoma, Follicular - pathology Medical sciences Paraffin Embedding Pharmacology. Drug treatments Reproducibility of Results Tissue Fixation Tumors |
| title | Large-Scale Profiling of Archival Lymph Nodes Reveals Pervasive Remodeling of the Follicular Lymphoma Methylome |
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