Hierarchical clustering of lung cancer cell lines using DNA methylation markers

Arvind K. Virmani, Jeffrey A. Tsou, Kimberly D. Siegmund, Linda Y C Shen, Tiffany I. Long, Peter W. Laird, Adi F. Gazdar, Ite A. Laird-Offringa

Research output: Contribution to journalArticle

98 Citations (Scopus)

Abstract

Recent analyses of global and gene-specific methylation patterns in cancer cells have suggested that cancers from different organs demonstrate distinct patterns of CpG island hypermethylation. Although certain CpG islands are frequently methylated in many different kinds of cancer, others are methylated only in specific tumor types. Because distinct patterns of CpG island hypermethylation can be seen in tumors from different organs, it seems likely that histological subtypes of cancer within a given organ may exhibit distinct methylation patterns as well. The goal of our study was to determine whether the patterns of CpG island hypermethylation could be used to distinguish between different histological subtypes of lung cancer. We analyzed the methylation status of 23 loci in 91 lung cancer cell lines using the quantitative real-time PCR method MethyLight. Genes PTGS2 (COX2), CALCA, MTHFR, ESR1, MGMT, MYOD1, and APC showed statistically significant differences in the level of CpG island methylation between small cell lung cancer (SCLC) and non-small cell lung cancer cell lines (NSCLC). Hierarchical clustering using a panel consisting of these seven loci yielded two major groups, one of which contained 78% of the SCLC lines. Within this group, a large cluster consisted almost exclusively of SCLC cell lines. Our results show that DNA methylation patterns differ between NSCLC and SCLC cell lines and suggest that these patterns could be developed into a powerful molecular marker to achieve accurate diagnosis of lung cancer.

Original languageEnglish (US)
Pages (from-to)291-297
Number of pages7
JournalCancer Epidemiology Biomarkers and Prevention
Volume11
Issue number3
StatePublished - 2002

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DNA Methylation
CpG Islands
Genetic Markers
Cluster Analysis
Lung Neoplasms
Small Cell Lung Carcinoma
Cell Line
Methylation
Neoplasms
Non-Small Cell Lung Carcinoma
Cyclooxygenase 2
Genes
Real-Time Polymerase Chain Reaction

ASJC Scopus subject areas

  • Epidemiology
  • Oncology

Cite this

Virmani, A. K., Tsou, J. A., Siegmund, K. D., Shen, L. Y. C., Long, T. I., Laird, P. W., ... Laird-Offringa, I. A. (2002). Hierarchical clustering of lung cancer cell lines using DNA methylation markers. Cancer Epidemiology Biomarkers and Prevention, 11(3), 291-297.

Hierarchical clustering of lung cancer cell lines using DNA methylation markers. / Virmani, Arvind K.; Tsou, Jeffrey A.; Siegmund, Kimberly D.; Shen, Linda Y C; Long, Tiffany I.; Laird, Peter W.; Gazdar, Adi F.; Laird-Offringa, Ite A.

In: Cancer Epidemiology Biomarkers and Prevention, Vol. 11, No. 3, 2002, p. 291-297.

Research output: Contribution to journalArticle

Virmani, AK, Tsou, JA, Siegmund, KD, Shen, LYC, Long, TI, Laird, PW, Gazdar, AF & Laird-Offringa, IA 2002, 'Hierarchical clustering of lung cancer cell lines using DNA methylation markers', Cancer Epidemiology Biomarkers and Prevention, vol. 11, no. 3, pp. 291-297.
Virmani AK, Tsou JA, Siegmund KD, Shen LYC, Long TI, Laird PW et al. Hierarchical clustering of lung cancer cell lines using DNA methylation markers. Cancer Epidemiology Biomarkers and Prevention. 2002;11(3):291-297.
Virmani, Arvind K. ; Tsou, Jeffrey A. ; Siegmund, Kimberly D. ; Shen, Linda Y C ; Long, Tiffany I. ; Laird, Peter W. ; Gazdar, Adi F. ; Laird-Offringa, Ite A. / Hierarchical clustering of lung cancer cell lines using DNA methylation markers. In: Cancer Epidemiology Biomarkers and Prevention. 2002 ; Vol. 11, No. 3. pp. 291-297.
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