title: Prognostic DNA methylation biomarkers in ovarian cancer.
abstract: OBJECTIVE
  Aberrant DNA methylation, now recognized as a contributing factor to neoplasia, often shows definitive gene/sequence preferences unique to specific cancer types. Correspondingly, distinct combinations of methylated loci can function as biomarkers for numerous clinical correlates of ovarian and other cancers.
  
  
  METHODS
  We used a microarray approach to identify methylated loci prognostic for reduced progression-free survival (PFS) in advanced ovarian cancer patients. Two data set classification algorithms, Significance Analysis of Microarray and Prediction Analysis of Microarray, successfully identified 220 candidate PFS-discriminatory methylated loci. Of those, 112 were found capable of predicting PFS with 95% accuracy, by Prediction Analysis of Microarray, using an independent set of 40 advanced ovarian tumors (from 20 short-PFS and 20 long-PFS patients, respectively). Additionally, we showed the use of these predictive loci using two bioinformatics machine-learning algorithms, Support Vector Machine and Multilayer Perceptron.
  
  
  CONCLUSIONS
  In this report, we show that highly prognostic DNA methylation biomarkers can be successfully identified and characterized, using previously unused, rigorous classifying algorithms. Such ovarian cancer biomarkers represent a promising approach for the assessment and management of this devastating disease.
authors: Human Cancer Genetics Program, Department of Molecular Virology, Immunology, and Medical Genetics, Comprehensive Cancer Center, The Ohio State University, Columbus, Ohio, USA.
authors: Susan H
authors: SH
authors: Wei
authors: Curtis
authors: C
authors: Balch
authors: Henry H
authors: HH
authors: Paik
authors: Yoo-Sung
authors: YS
authors: Kim
authors: Rae Lynn
authors: RL
authors: Baldwin
authors: Sandya
authors: S
authors: Liyanarachchi
authors: Lang
authors: L
authors: Li
authors: Zailong
authors: Z
authors: Wang
authors: Joseph C
authors: JC
authors: Wan
authors: Ramana V
authors: RV
authors: Davuluri
authors: Beth Y
authors: BY
authors: Karlan
authors: Gillian
authors: G
authors: Gifford
authors: Robert
authors: R
authors: Brown
authors: Sun
authors: S
authors: Kim
authors: Tim H-M
authors: TH
authors: Huang
authors: Kenneth P
authors: KP
authors: Nephew