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Research Article

Post genome-wide gene-environment interaction study using random survival forest: insulin resistance, lifestyle factors, and colorectal cancer risk

Su Yon Jung, Jeanette C Papp, Eric M. Sobel and Zuo-Feng Zhang
Su Yon Jung
Translational Sciences Section, Jonsson Comprehensive Cancer Center, School of Nursing, University of California Los Angeles
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  • For correspondence: sjung@sonnet.ucla.edu
Jeanette C Papp
Human Genetics, David Geffen School of Medicine, University of California Los Angeles
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Eric M. Sobel
Human Genetics and Computational Medicine, David Geffen School of Medicine, University of California Los Angeles
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  • ORCID record for Eric M. Sobel
Zuo-Feng Zhang
Department of Epidemiology, Fielding School of Public Health, University of California Los Angeles
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DOI: 10.1158/1940-6207.CAPR-19-0278
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Abstract

Molecular and genetic pathways of insulin resistance (IR) connecting colorectal cancer (CRC) and obesity factors in postmenopausal women remain inconclusive. We examined the IR pathways on both genetic and phenotypic perspectives at the genome-wide level. We further constructed CRC risk profiles with the most predictive IR single-nucleotide polymorphisms (SNPs) and lifestyle factors. In our earlier genome-wide association gene-environmental interaction study, we used data from a large cohort of postmenopausal women in the Women's Health Initiative Database for Genotypes and Phenotypes Study and identified 58 SNPs in relation to IR phenotypes. In this study, we evaluated the identified IR SNPs and selected 34 lifestyles for their association with CRC risk in a total of 11,078 women (including 736 women with CRC) using a 2-stage multimodal random survival forest analysis. In overall and subgroup (defined via body mass index, exercise, and dietary-fat intake) analyses, we identified 2 SNPs (LINC00460 rs1725459 and MTRR rs722025) and lifetime cumulative exposure to estrogen (oral contraceptive use) and cigarette smoking as the most common and strongest predictive markers for CRC risk across the analyses. The combinations of genetic and lifestyle factors had much greater impact on CRC risk than any individual risk factors, and a possible synergism existed to increase CRC risk in a gene-behavior dose-dependent manner. Our findings may inform research on the role of IR in the etiology of CRC and contribute to more accurate prediction of CRC risk, suggesting potential intervention strategies for women with specific genotypes and lifestyles to reduce their CRC risk.

  • Received June 2, 2019.
  • Revision received August 28, 2019.
  • Accepted September 20, 2019.
  • Copyright ©2019, American Association for Cancer Research.

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Published OnlineFirst September 25, 2019
doi: 10.1158/1940-6207.CAPR-19-0278

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Post genome-wide gene-environment interaction study using random survival forest: insulin resistance, lifestyle factors, and colorectal cancer risk
Su Yon Jung, Jeanette C Papp, Eric M. Sobel and Zuo-Feng Zhang
Cancer Prev Res September 25 2019 DOI: 10.1158/1940-6207.CAPR-19-0278

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Post genome-wide gene-environment interaction study using random survival forest: insulin resistance, lifestyle factors, and colorectal cancer risk
Su Yon Jung, Jeanette C Papp, Eric M. Sobel and Zuo-Feng Zhang
Cancer Prev Res September 25 2019 DOI: 10.1158/1940-6207.CAPR-19-0278
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Cancer Prevention Research
eISSN: 1940-6215
ISSN: 1940-6207

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