Array-based DNA methylation profiling in follicular lymphoma

C. O'Riain, D. M. O'Shea, Y. Yang, R. Le Dieu, J. G. Gribben, K. Summers, J. Yeboah-Afari, L. Bhaw-Rosun, C. Fleischmann, C. A. Mein, T. Crook, P. Smith, G. Kelly, A. Rosenwald, G. Ott, E. Campo, Lisa Rimsza, E. B. Smeland, W. C. Chan, N. JohnsonR. D. Gascoyne, S. Reimer, R. M. Braziel, G. W. Wright, L. M. Staudt, T. A. Lister, J. Fitzgibbon

Research output: Contribution to journalArticle

55 Citations (Scopus)

Abstract

Quantitative methylation profiling was performed using the Illumina GoldenGate Assay in untreated follicular lymphoma (FL) (164), paired pre- and post-transformation FL (20), benign haematopoietic (24) samples and purified B and T cells from two FL cases. Methylation values allowed separation of untreated FL samples from controls with one exception, based primarily on tumour-specific gains of methylation typically occurring within CpG islands. Genes that are targets for epigenetic repression in stem cells by Polycomb Repressor Complex 2 were significantly over-represented among hypermethylated genes. Methylation profiles were conserved in sequential FL and t-FL biopsies, suggesting that widespread methylation represents an early event in lymphomagenesis and may not contribute substantially to transformation. A significant (P<0.05) correlation between FL methylation values and reduced gene expression was shown for up to 28% of loci. Methylation changes occurred predominantly in B cells with variability in the amount of non-malignant tissue between samples preventing conclusive correlation with survival. This represents an important caveat in attributing prognostic relevance to methylation and future studies in cancer will optimally require purified tumour populations to address the impact of methylation on clinical outcome.

Original languageEnglish (US)
Pages (from-to)1858-1866
Number of pages9
JournalLeukemia
Volume23
Issue number10
DOIs
StatePublished - 2009
Externally publishedYes

Fingerprint

Follicular Lymphoma
DNA Fingerprinting
DNA Methylation
Methylation
Epigenetic Repression
B-Lymphocytes
Neoplasms
CpG Islands
Genes
Stem Cells
T-Lymphocytes
Biopsy
Gene Expression

ASJC Scopus subject areas

  • Hematology
  • Cancer Research
  • Anesthesiology and Pain Medicine

Cite this

O'Riain, C., O'Shea, D. M., Yang, Y., Le Dieu, R., Gribben, J. G., Summers, K., ... Fitzgibbon, J. (2009). Array-based DNA methylation profiling in follicular lymphoma. Leukemia, 23(10), 1858-1866. https://doi.org/10.1038/leu.2009.114

Array-based DNA methylation profiling in follicular lymphoma. / O'Riain, C.; O'Shea, D. M.; Yang, Y.; Le Dieu, R.; Gribben, J. G.; Summers, K.; Yeboah-Afari, J.; Bhaw-Rosun, L.; Fleischmann, C.; Mein, C. A.; Crook, T.; Smith, P.; Kelly, G.; Rosenwald, A.; Ott, G.; Campo, E.; Rimsza, Lisa; Smeland, E. B.; Chan, W. C.; Johnson, N.; Gascoyne, R. D.; Reimer, S.; Braziel, R. M.; Wright, G. W.; Staudt, L. M.; Lister, T. A.; Fitzgibbon, J.

In: Leukemia, Vol. 23, No. 10, 2009, p. 1858-1866.

Research output: Contribution to journalArticle

O'Riain, C, O'Shea, DM, Yang, Y, Le Dieu, R, Gribben, JG, Summers, K, Yeboah-Afari, J, Bhaw-Rosun, L, Fleischmann, C, Mein, CA, Crook, T, Smith, P, Kelly, G, Rosenwald, A, Ott, G, Campo, E, Rimsza, L, Smeland, EB, Chan, WC, Johnson, N, Gascoyne, RD, Reimer, S, Braziel, RM, Wright, GW, Staudt, LM, Lister, TA & Fitzgibbon, J 2009, 'Array-based DNA methylation profiling in follicular lymphoma', Leukemia, vol. 23, no. 10, pp. 1858-1866. https://doi.org/10.1038/leu.2009.114
O'Riain C, O'Shea DM, Yang Y, Le Dieu R, Gribben JG, Summers K et al. Array-based DNA methylation profiling in follicular lymphoma. Leukemia. 2009;23(10):1858-1866. https://doi.org/10.1038/leu.2009.114
O'Riain, C. ; O'Shea, D. M. ; Yang, Y. ; Le Dieu, R. ; Gribben, J. G. ; Summers, K. ; Yeboah-Afari, J. ; Bhaw-Rosun, L. ; Fleischmann, C. ; Mein, C. A. ; Crook, T. ; Smith, P. ; Kelly, G. ; Rosenwald, A. ; Ott, G. ; Campo, E. ; Rimsza, Lisa ; Smeland, E. B. ; Chan, W. C. ; Johnson, N. ; Gascoyne, R. D. ; Reimer, S. ; Braziel, R. M. ; Wright, G. W. ; Staudt, L. M. ; Lister, T. A. ; Fitzgibbon, J. / Array-based DNA methylation profiling in follicular lymphoma. In: Leukemia. 2009 ; Vol. 23, No. 10. pp. 1858-1866.
@article{b5003acd53c642579c1ad30ede8c810a,
title = "Array-based DNA methylation profiling in follicular lymphoma",
abstract = "Quantitative methylation profiling was performed using the Illumina GoldenGate Assay in untreated follicular lymphoma (FL) (164), paired pre- and post-transformation FL (20), benign haematopoietic (24) samples and purified B and T cells from two FL cases. Methylation values allowed separation of untreated FL samples from controls with one exception, based primarily on tumour-specific gains of methylation typically occurring within CpG islands. Genes that are targets for epigenetic repression in stem cells by Polycomb Repressor Complex 2 were significantly over-represented among hypermethylated genes. Methylation profiles were conserved in sequential FL and t-FL biopsies, suggesting that widespread methylation represents an early event in lymphomagenesis and may not contribute substantially to transformation. A significant (P<0.05) correlation between FL methylation values and reduced gene expression was shown for up to 28{\%} of loci. Methylation changes occurred predominantly in B cells with variability in the amount of non-malignant tissue between samples preventing conclusive correlation with survival. This represents an important caveat in attributing prognostic relevance to methylation and future studies in cancer will optimally require purified tumour populations to address the impact of methylation on clinical outcome.",
author = "C. O'Riain and O'Shea, {D. M.} and Y. Yang and {Le Dieu}, R. and Gribben, {J. G.} and K. Summers and J. Yeboah-Afari and L. Bhaw-Rosun and C. Fleischmann and Mein, {C. A.} and T. Crook and P. Smith and G. Kelly and A. Rosenwald and G. Ott and E. Campo and Lisa Rimsza and Smeland, {E. B.} and Chan, {W. C.} and N. Johnson and Gascoyne, {R. D.} and S. Reimer and Braziel, {R. M.} and Wright, {G. W.} and Staudt, {L. M.} and Lister, {T. A.} and J. Fitzgibbon",
year = "2009",
doi = "10.1038/leu.2009.114",
language = "English (US)",
volume = "23",
pages = "1858--1866",
journal = "Leukemia",
issn = "0887-6924",
publisher = "Nature Publishing Group",
number = "10",

}

TY - JOUR

T1 - Array-based DNA methylation profiling in follicular lymphoma

AU - O'Riain, C.

AU - O'Shea, D. M.

AU - Yang, Y.

AU - Le Dieu, R.

AU - Gribben, J. G.

AU - Summers, K.

AU - Yeboah-Afari, J.

AU - Bhaw-Rosun, L.

AU - Fleischmann, C.

AU - Mein, C. A.

AU - Crook, T.

AU - Smith, P.

AU - Kelly, G.

AU - Rosenwald, A.

AU - Ott, G.

AU - Campo, E.

AU - Rimsza, Lisa

AU - Smeland, E. B.

AU - Chan, W. C.

AU - Johnson, N.

AU - Gascoyne, R. D.

AU - Reimer, S.

AU - Braziel, R. M.

AU - Wright, G. W.

AU - Staudt, L. M.

AU - Lister, T. A.

AU - Fitzgibbon, J.

PY - 2009

Y1 - 2009

N2 - Quantitative methylation profiling was performed using the Illumina GoldenGate Assay in untreated follicular lymphoma (FL) (164), paired pre- and post-transformation FL (20), benign haematopoietic (24) samples and purified B and T cells from two FL cases. Methylation values allowed separation of untreated FL samples from controls with one exception, based primarily on tumour-specific gains of methylation typically occurring within CpG islands. Genes that are targets for epigenetic repression in stem cells by Polycomb Repressor Complex 2 were significantly over-represented among hypermethylated genes. Methylation profiles were conserved in sequential FL and t-FL biopsies, suggesting that widespread methylation represents an early event in lymphomagenesis and may not contribute substantially to transformation. A significant (P<0.05) correlation between FL methylation values and reduced gene expression was shown for up to 28% of loci. Methylation changes occurred predominantly in B cells with variability in the amount of non-malignant tissue between samples preventing conclusive correlation with survival. This represents an important caveat in attributing prognostic relevance to methylation and future studies in cancer will optimally require purified tumour populations to address the impact of methylation on clinical outcome.

AB - Quantitative methylation profiling was performed using the Illumina GoldenGate Assay in untreated follicular lymphoma (FL) (164), paired pre- and post-transformation FL (20), benign haematopoietic (24) samples and purified B and T cells from two FL cases. Methylation values allowed separation of untreated FL samples from controls with one exception, based primarily on tumour-specific gains of methylation typically occurring within CpG islands. Genes that are targets for epigenetic repression in stem cells by Polycomb Repressor Complex 2 were significantly over-represented among hypermethylated genes. Methylation profiles were conserved in sequential FL and t-FL biopsies, suggesting that widespread methylation represents an early event in lymphomagenesis and may not contribute substantially to transformation. A significant (P<0.05) correlation between FL methylation values and reduced gene expression was shown for up to 28% of loci. Methylation changes occurred predominantly in B cells with variability in the amount of non-malignant tissue between samples preventing conclusive correlation with survival. This represents an important caveat in attributing prognostic relevance to methylation and future studies in cancer will optimally require purified tumour populations to address the impact of methylation on clinical outcome.

UR - http://www.scopus.com/inward/record.url?scp=70350103292&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=70350103292&partnerID=8YFLogxK

U2 - 10.1038/leu.2009.114

DO - 10.1038/leu.2009.114

M3 - Article

C2 - 19587707

AN - SCOPUS:70350103292

VL - 23

SP - 1858

EP - 1866

JO - Leukemia

JF - Leukemia

SN - 0887-6924

IS - 10

ER -