Format

Send to

Choose Destination
Cancer Epidemiol Biomarkers Prev. 2014 Oct;23(10):2192-5. doi: 10.1158/1055-9965.EPI-14-0276. Epub 2014 Jul 21.

Single-nucleotide polymorphism data support the general unrelatedness of the males in the agricultural health study.

Author information

1
Department of Statistics, Bioinformatics Research Center, Center for Human Health and the Environment, Center for Comparative Medicine and Translational Research, North Carolina State University, Raleigh, North Carolina. jrjack@ncsu.edu.
2
Department of Statistics, Bioinformatics Research Center, Center for Human Health and the Environment, Center for Comparative Medicine and Translational Research, North Carolina State University, Raleigh, North Carolina.
3
Occupational and Environmental Epidemiology Branch, Division of Cancer Epidemiology and Genetics, Department of Health and Human Services, National Cancer Institute, NIH, Bethesda, Maryland.
4
Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina.

Abstract

BACKGROUND:

Farming is often a family and multigenerational business. Relatedness among farmers could bias gene-environment interaction analysis. To evaluate the potential relatedness of farmers, we used data from a nested case-control study of prostate cancer conducted in the Agricultural Health Study (AHS), a prospective study of farmers in Iowa and North Carolina.

METHODS:

We analyzed the genetic data for 25,009 SNPs (single-nucleotide polymorphisms) from 2,220 White participants to test for cryptic relatedness among these farmers. We used two software packages: (i) PLINK, to calculate inbreeding coefficients and identity-by-descent (IBD) statistics and (ii) EIGENSOFT, to perform a principal component analysis on the genetic data.

RESULTS:

Inbreeding coefficients estimates and IBD statistics show that the subjects are overwhelmingly unrelated, with little potential for cryptic relatedness in these data.

CONCLUSIONS:

Our analysis rejects the hypothesis that individuals in the case-control study exhibit cryptic relatedness.

IMPACT:

These findings are important for all subsequent analyses of gene-environment interactions in the AHS.

PMID:
25047895
DOI:
10.1158/1055-9965.EPI-14-0276
[Indexed for MEDLINE]
Free full text

Supplemental Content

Full text links

Icon for HighWire
Loading ...
Support Center