Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome

J. Keith Killian; Sven Bilke; Sean Davis; Robert L. Walker; M. Scott Killian; Erich B. Jaeger; Yidong Chen; Jason Hipp; Stefania Pittaluga; Mark Raffeld; Robert Cornelison; William I. Smith; Marina Bibikova; Jian Bing Fan; Michael R. Emmert-Buck; Elaine S. Jaffe; Paul S. Meltzer

doi:10.1158/0008-5472.CAN-08-2984

Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome

J. Keith Killian, Sven Bilke, Sean Davis, Robert L. Walker, M. Scott Killian, Erich B. Jaeger, Yidong Chen, Jason Hipp, Stefania Pittaluga, Mark Raffeld, Robert Cornelison, William I. Smith, Marina Bibikova, Jian Bing Fan, Michael R. Emmert-Buck, Elaine S. Jaffe, Paul S. Meltzer

Research output: Contribution to journal › Article › peer-review

45 Scopus citations

Abstract

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 FLthat affects predominantly nonlymphoid genes.

Original language	English (US)
Pages (from-to)	758-764
Number of pages	7
Journal	Cancer Research
Volume	69
Issue number	3
DOIs	https://doi.org/10.1158/0008-5472.CAN-08-2984
State	Published - Feb 1 2009
Externally published	Yes

ASJC Scopus subject areas

Oncology
Cancer Research

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10.1158/0008-5472.CAN-08-2984

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Killian, J. K., Bilke, S., Davis, S., Walker, R. L., Killian, M. S., Jaeger, E. B., Chen, Y., Hipp, J., Pittaluga, S., Raffeld, M., Cornelison, R., Smith, W. I., Bibikova, M., Fan, J. B., Emmert-Buck, M. R., Jaffe, E. S., & Meltzer, P. S. (2009). Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome. Cancer Research, 69(3), 758-764. https://doi.org/10.1158/0008-5472.CAN-08-2984

Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome. / Killian, J. Keith; Bilke, Sven; Davis, Sean; Walker, Robert L.; Killian, M. Scott; Jaeger, Erich B.; Chen, Yidong; Hipp, Jason; Pittaluga, Stefania; Raffeld, Mark; Cornelison, Robert; Smith, William I.; Bibikova, Marina; Fan, Jian Bing; Emmert-Buck, Michael R.; Jaffe, Elaine S.; Meltzer, Paul S.

In: Cancer Research, Vol. 69, No. 3, 01.02.2009, p. 758-764.

Research output: Contribution to journal › Article › peer-review

Killian, JK, Bilke, S, Davis, S, Walker, RL, Killian, MS, Jaeger, EB, Chen, Y, Hipp, J, Pittaluga, S, Raffeld, M, Cornelison, R, Smith, WI, Bibikova, M, Fan, JB, Emmert-Buck, MR, Jaffe, ES & Meltzer, PS 2009, 'Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome', Cancer Research, vol. 69, no. 3, pp. 758-764. https://doi.org/10.1158/0008-5472.CAN-08-2984

Killian, J. Keith ; Bilke, Sven ; Davis, Sean ; Walker, Robert L. ; Killian, M. Scott ; Jaeger, Erich B. ; Chen, Yidong ; Hipp, Jason ; Pittaluga, Stefania ; Raffeld, Mark ; Cornelison, Robert ; Smith, William I. ; Bibikova, Marina ; Fan, Jian Bing ; Emmert-Buck, Michael R. ; Jaffe, Elaine S. ; Meltzer, Paul S. / Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome. In: Cancer Research. 2009 ; Vol. 69, No. 3. pp. 758-764.

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abstract = "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 FLthat affects predominantly nonlymphoid genes.",

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AB - 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 FLthat affects predominantly nonlymphoid genes.

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Large-scale profiling of archival lymph nodes reveals pervasive remodeling of the follicular lymphoma methylome

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