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. 2014 Nov;50(11):1072-80.
doi: 10.1016/j.oraloncology.2014.08.015. Epub 2014 Sep 18.

Novel DNA methylation targets in oral rinse samples predict survival of patients with oral squamous cell carcinoma

Scott M Langevin  1 , Rondi A Butler  2 , Melissa Eliot  2 , Michael Pawlita  3 , Jennifer Z J Maccani  4 , Michael D McClean  5 , Karl T Kelsey  6
Affiliations

Novel DNA methylation targets in oral rinse samples predict survival of patients with oral squamous cell carcinoma

Scott M Langevin et al. Oral Oncol. 2014 Nov.

Abstract

Objectives: The objective of this study was to identify novel survival-associated biomarkers in oral rinse samples collected from patients with oral squamous cell carcinoma (OSCC).

Materials and methods: We screened for putative survival-associated markers using publicly available methylation array data from 88 OSCC tumors. Cox models were then fit to methylation array data restricted to these putative loci in oral rinse samples of 82 OSCC patients from greater Boston. Pyrosequencing assays were designed for each locus that replicated in the oral rinse samples and applied to a validation set of oral rinse samples from another 61 OSCC patients.

Results: We identified 7 survival-associated methylation markers in oral rinse samples from OSCC patients, and have validated one, located in the body of GABBR1, by pyrosequencing.

Conclusion: The 7 CpG loci identified through this study represent novel prognostic biomarkers for patients with OSCC that can be detected using a non-invasive oral rinse collection technique.

Keywords: Epigenomics; GABBR1; Mouthwash; Oral cancer; Prognosis.

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Conflict of interest statement

DISCLOSURE STATEMENT

We have no conflicts to declare.

Figures

Figure 1
Figure 1
Schematic of study workflow for identification and validation of novel epigenetic predictors of overall survival in oral rinse samples from OSCC patients.
Figure 2
Figure 2
Distribution of percent methylation for each of seven survival-associated CpG loci (labeled on the x-axis by Infinium Array locus identification number) in oral rinse samples from oral squamous cell carcinoma (OSCC) patients for the (A) Replication set (n = 82) using the Infinium HumanMethylation450 BeadArray; and (B) Validation set (n = 61) using pyrosequencing assays.
Figure 3
Figure 3
Kaplan-Meier survival functions for the seven significant CpG loci identified in the oral rinse array Replication dataset (n = 82) compared to those from the pyrosequencing assay Validation set (n = 61).
See this image and copyright information in PMC

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