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GECCO is extending the search for colorectal cancer risk loci to less-frequent and rare variants by conducting whole genome sequencing (~6x coverage) on a subset of samples (~4,000 samples). We aim to identify novel variants across the genome (aim 1) and to investigate gene-environment interactions (aim 2), while focusing on variants with a minor allele frequency of 0.01-5.0%. We will run both individual variant tests and aggregated variant tests. The sequence data will be used as a reference panel to impute the remaining GWAS data in GECCO, strengthening sample size and power to detect new loci.

Figure 1. Sequencing Grant Aims

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