Identification of Prostate Cancer Predisposition Genes on the Y Chromosome
Technical Report,21 Sep 2017,20 Sep 2018
University of Utah Salt Lake City United States
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We used various methods to perform a test for an excess of prostate cancer among males sharing the same Y chromosome. Methodology is being refined by comparing 2 competing methods and selecting the preferred model. This analysis identified a ranked list of Y chromosomes from the UPDB resource. A set of 20 samples representing the top 10 high risk and 10 low-risk Y chromosomes for genotyping with a set of 16,000 Y SNPs, and Y chromosome full genome sequencing was submitted. We used available Utah data for 1,000 Y chromosome SNPs on 80 high risk Y chromosomes and 150 low risk Y chromosomes with some Y chromosome genotype data available. The set of 1,000 SNPs was used to perform a phylogenetic analysis of the high vs low risk Y chromosomes some clustering of high risk Y chromosomes was noted. Analysis of 10 high risk Y sequence data compared to 10 low risk Y sequence data, identified 3 coding and 3 non-coding candidate genesvariants seen in excess in high-risk Y chromosomes and not observed in the low risk set. We used the ranked list of Y chromosomes from our initial analysis to select a set of 100 YIDs to submit for complete Y chromosome sequencing for analysis as cases. Complete Genomics and provided us with Y chromosome sequence data for 1,800 control men.
- Medicine and Medical Research
- Genetic Engineering and Molecular Biology