Carcinogenesis Advance Access published online on June 14, 2006
Carcinogenesis, doi:10.1093/carcin/bgl092
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
1 Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, Missouri 65203
* To whom correspondence should be addressed. Non-Hodgkin's lymphoma (NHL) is a group of malignancies with heterogeneous genetic and epigenetic alterations. Discovery of molecular markers that better define NHL should improve diagnosis, prognosis, and understanding of the biology. We developed a CpG island DNA microarray for discovery of aberrant methylation targets in cancer, and now apply this method to examine NHL cell lines and primary tumors. This methylation profiling revealed differential patterns in 6 cell lines originating from different sub-types of NHL. We identified 30 hypermethylated genes in these cell lines and independently confirmed 10 of them. Methylation of 6 of these genes was then further examined in 75 primary NHL specimens comprised of four subtypes representing different stages of maturation. Each gene (DLC-1, PCDHGB7, CYP27B1, EFNA5, CCND1 and RAR
Received January 6, 2006
Revised May 18, 2006
Accepted May 19, 2006
CANCER BIOLOGY
Discovery of novel epigenetic markers in non-Hodgkin's lymphoma
Huidong Shi 1,
Juyuan Guo 1,
Deiter J. Duff 1,
Farahnaz Rahmatpanah 1,
Rebecca Chitima-Matsiga 1,
Mufadhal Al-Kuhlani 1,
Kristen H. Taylor 1,
Ozy Sjahputera 1,
Melinda Andreski 2,
James E. Wooldridge 2,
and
Charles W. Caldwell 1 *
2 Department of Internal Medicine, Holden Comprehensive Cancer Center at University of Iowa, Iowa City, Iowa, 52242
Charles W. Caldwell, E-mail: caldwellc{at}health.missouri.edu
Abstract 
2) was frequently hypermethylated in these NHLs (87 %, 78%, 61%, 53%, 40%, and 38% respectively), but not in benign follicular hyperplasia. While some genes such as DLC-1 and PCDHGB7 were methylated in the vast majority of NHLs, others were differentially methylated in specific subtypes. The methylation of the candidate tumor suppressor gene DLC-1 was detected in a high proportion of primary tumor and plasma DNA samples by using quantitative methylation specific PCR analysis. This promoter hypermethylation inversely correlated with DLC-1 gene expression in primary NHL samples. Thus, this CpG island microarray is a powerful discovery tool to identify novel methylated genes for further studies of their relevant molecular pathways in NHLs and identification of potential epigenetic biomarkers of disease.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  K. H. Taylor, R. S. Kramer, J. W. Davis, J. Guo, D. J. Duff, D. Xu, C. W. Caldwell, and H. Shi Ultradeep Bisulfite Sequencing Analysis of DNA Methylation Patterns in Multiple Gene Promoters by 454 Sequencing Cancer Res., September 15, 2007; 67(18): 8511 - 8518. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 X. Qian, G. Li, H. K. Asmussen, L. Asnaghi, W. C. Vass, R. Braverman, K. M. Yamada, N. C. Popescu, A. G. Papageorge, and D. R. Lowy Oncogenic inhibition by a deleted in liver cancer gene requires cooperation between tensin binding and Rho-specific GTPase-activating protein activities PNAS, May 22, 2007; 104(21): 9012 - 9017. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. H. Taylor, K. E. Pena-Hernandez, J. W. Davis, G. L. Arthur, D. J. Duff, H. Shi, F. B. Rahmatpanah, O. Sjahputera, and C. W. Caldwell Large-Scale CpG Methylation Analysis Identifies Novel Candidate Genes and Reveals Methylation Hotspots in Acute Lymphoblastic Leukemia Cancer Res., March 15, 2007; 67(6): 2617 - 2625. [Abstract] [Full Text] [PDF]
|
|