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

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

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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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AU - Killian, M. Scott

AU - Jaeger, Erich B.

AU - Chen, Yidong

AU - Hipp, Jason

AU - Pittaluga, Stefania

AU - Raffeld, Mark

AU - Cornelison, Robert

AU - Smith, William I.

AU - Bibikova, Marina

AU - Fan, Jian Bing

AU - Emmert-Buck, Michael R.

AU - Jaffe, Elaine S.

AU - Meltzer, Paul S.

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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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