Choi, Jaesung; Song, Nan; Han, Sohee; Chung, Seokang; Sung, Hyuna; Lee, Ji-young; Jung, Sunjae; Park, Sue K; Yoo, Keun-Young; Han, Wonshik; Lee, Jong Won; Noh, Dong-Young; Kang, Daehee; Choi, Ji-Yeob
PloS one
2014NA ; 9 ( 7 ) :e103593.
PMID : 25075970
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Choi, Jaesung -
Song, Nan -
Han, Sohee -
Chung, Seokang -
Sung, Hyuna -
Lee, Ji-young -
Jung, Sunjae -
Park, Sue K -
Yoo, Keun-Young -
Han, Wonshik -
Lee, Jong Won -
Noh, Dong-Young -
Kang, Daehee -
Choi, Ji-Yeob -
ABSTRACT
We investigated the role of common genetic variation in immune-related genes on breast cancer disease-free survival (DFS) in Korean women. 107 breast cancer patients of the Seoul Breast Cancer Study (SEBCS) were selected for this study. A total of 2,432 tag single nucleotide polymorphisms (SNPs) in 283 immune-related genes were genotyped with the GoldenGate Oligonucleotide pool assay (OPA). A multivariate Cox-proportional hazard model and polygenic risk score model were used to estimate the effects of SNPs on breast cancer prognosis. Harrell's C index was calculated to estimate the predictive accuracy of polygenic risk score model. Subsequently, an extended gene set enrichment analysis (GSEA-SNP) was conducted to approximate the biological pathway. In addition, to confirm our results with current evidence, previous studies were systematically reviewed. Sixty-two SNPs were statistically significant at p-value less than 0.05. The most significant SNPs were rs1952438 in SOCS4 gene (hazard ratio (HR)?=?11.99, 95% CI?=?3.62-39.72, P?=?4.84E-05), rs2289278 in TSLP gene (HR?=?4.25, 95% CI?=?2.10-8.62, P?=?5.99E-05) and rs2074724 in HGF gene (HR?=?4.63, 95% CI?=?2.18-9.87, P?=?7.04E-05). In the polygenic risk score model, the HR of women in the 3rd tertile was 6.78 (95% CI?=?1.48-31.06) compared to patients in the 1st tertile of polygenic risk score. Harrell's C index was 0.813 with total patients and 0.924 in 4-fold cross validation. In the pathway analysis, 18 pathways were significantly associated with breast cancer prognosis (P<0.1). The IL-6R, IL-8, IL-10RB, IL-12A, and IL-12B was associated with the prognosis of cancer in data of both our study and a previous study. Therefore, our results suggest that genetic polymorphisms in immune-related genes have relevance to breast cancer prognosis among Korean women.
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MESH
Breast Neoplasms/*genetics/mortality/pathology, Disease-Free Survival, Female, Genetic Association Studies, Genetic Predisposition to Disease, Humans, Interleukins/*genetics, Kaplan-Meier Estimate, Middle Aged, Polymorphism, Single Nucleotide, Prognosis, Proportional Hazards Models, Risk, Seoul
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