No prognostic value added by vitamin D pathway SNPs to current prognostic system for melanoma survival

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  • Luo, Li
    • Other Affiliation: Department of Internal Medicine; University of New Mexico
  • Orlow, Irene
    • Other Affiliation: Department of Epidemiology and Biostatistics; Epidemiology Service; Memorial Sloan Kettering Cancer Center
  • Kanetsky, Peter A.
    • Other Affiliation: Department of Cancer Epidemiology; H. Lee Moffitt Cancer Center Annd Research Institute
  • Thomas, Nancy E.
    • Affiliation: School of Medicine, Department of Dermatology
  • Fang, Shenying
    • Other Affiliation: Department of Surgical Oncology; University of Texas MD Anderson Cancer Center
  • Lee, Jeffrey E.
    • Other Affiliation: Department of Surgical Oncology; University of Texas MD Anderson Cancer Center
  • Berwick, Marianne
    • Other Affiliation: Department of Internal Medicine; University of New Mexico
  • Lee, Ji-Hyun
    • Other Affiliation: Department of Internal Medicine; University of New Mexico
Abstract
  • The prognostic improvement attributed to genetic markers over current prognostic system has not been well studied for melanoma. The goal of this study is to evaluate the added prognostic value of Vitamin D Pathway (VitD) SNPs to currently known clinical and demographic factors such as age, sex, Breslow thickness, mitosis and ulceration (CDF). We utilized two large independent well-characterized melanoma studies: the Genes, Environment, and Melanoma (GEM) and MD Anderson studies, and performed variable selection of VitD pathway SNPs and CDF using Random Survival Forest (RSF) method in addition to Cox proportional hazards models. The Harrell’s C-index was used to compare the performance of model predictability. The population-based GEM study enrolled 3,578 incident cases of cutaneous melanoma (CM), and the hospital-based MD Anderson study consisted of 1,804 CM patients. Including both VitD SNPs and CDF yielded C-index of 0.85, which provided slight but not significant improvement by CDF alone (C-index = 0.83) in the GEM study. Similar results were observed in the independent MD Anderson study (C-index = 0.84 and 0.83, respectively). The Cox model identified no significant associations after adjusting for multiplicity. Our results do not support clinically significant prognostic improvements attributable to VitD pathway SNPs over current prognostic system for melanoma survival.
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  • Article
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  • In Copyright
Journal title
  • PloS One
Journal volume
  • 12
Journal issue
  • 3
Page start
  • e0174234
Language
  • English
ISSN
  • 1932-6203

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