Integrative genomic analysis of aneuploidy in uveal melanoma

Justis P. Ehlers, Lori Worley, Michael D. Onken, J. William Harbour

Research output: Contribution to journalArticle

79 Citations (Scopus)

Abstract

Purpose: Aneuploidy is a hallmark of cancer and is closely linked to metastasis and poor clinical outcome. Yet, the mechanisms leading to aneuploidy and its role in tumor progression remain poorly understood. The extensive and complex karyotypic abnormalities seen in many solid tumors could hinder the identification of pathogenetically relevant chromosomal alterations. Uveal melanoma is an attractive solid tumor for studying aneuploidy because it is a relatively homogeneous cancer that is highly metastatic and has low nonspecific chromosomal instability. Experimental Design: Comparative genomic hybridization and gene expression profiling were used to analyze patterns of aneuploidy in 49 primary uveal melanomas. This analysis was supplemented by a review of cytogenetic findings in 336 published cases. Results: Three prognostically significant tumor subgroups were identified based on the status of chromosomes 3 and 6p. Discrete patterns of chromosomal alterations accumulated in these three subgroups in a nonrandom temporal sequence. Poor clinical outcome was associated with early chromosomal alterations rather than over all aneuploidy. A gene expression signature associated with aneuploidy was enriched for genes involved in cell cycle regulation, centrosome function, and DNA damage repair. One of these genes was PTEN, a tumor suppressor and genomic integrity guardian, which was down-regulated in association with increasing aneuploidy (P = 0.003). Conclusions: The relationship between aneuploidy and poor prognosis may be determined by specific, pathogenetically relevant chromosomal alterations, rather than overall aneuploidy. Such alterations can be identified using integrative genomic methods and may provide insights for novel therapeutic approaches.

Original languageEnglish
Pages (from-to)115-122
Number of pages8
JournalClinical Cancer Research
Volume14
Issue number1
DOIs
StatePublished - Jan 1 2008
Externally publishedYes

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Aneuploidy
Neoplasms
Uveal melanoma
Centrosome
Chromosomal Instability
Chromosomes, Human, Pair 3
Comparative Genomic Hybridization
Gene Expression Profiling
Transcriptome
Cytogenetics
DNA Repair
Genes
DNA Damage
Cell Cycle
Research Design
Neoplasm Metastasis

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

Cite this

Integrative genomic analysis of aneuploidy in uveal melanoma. / Ehlers, Justis P.; Worley, Lori; Onken, Michael D.; William Harbour, J.

In: Clinical Cancer Research, Vol. 14, No. 1, 01.01.2008, p. 115-122.

Research output: Contribution to journalArticle

Ehlers, Justis P. ; Worley, Lori ; Onken, Michael D. ; William Harbour, J. / Integrative genomic analysis of aneuploidy in uveal melanoma. In: Clinical Cancer Research. 2008 ; Vol. 14, No. 1. pp. 115-122.
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