The Genetics and Epidemiology of Colorectal Cancer (GECCO) is an NCI funded consortium of international collaborators that aims to identify genetic susceptibility loci associated with colorectal cancer risk, and to investigate interactions between genetic and environmental risk factors. We are utilizing a custom panel design to run high coverage targeted sequencing on ~4,000 colorectal tum12or samples to better determine CRC tumor subtypes (including point mutations, copy number alternations (CNA), and microsatellite instability status (MSI)). We will utilize this subtype information in analyses to better characterize and identify novel associations with germline DNA and epidemiologic risk factors. Additionally, there will be opportunities for several other analyses unrelated to grant aims (e.g., relating tumor data to clinical outcomes, etc.).
The candidate will work with coordinating center staff, the PI, and the sequencing lab (Ontario Institute for Cancer Research, OICR) to assess performance of the panel design, assist with data quality control analyses, call CNA and MSI status, run CNA analyses, and assist with other types of analyses (e.g., point mutation calling, definition of appropriate pathways for pathway driven analyses, etc.). S/he will take the lead working with available TCGA data to incorporate into our planned tumor marker analyses, as well as other types of analyses within the consortium (e.g., GWAS, eQTL, etc.). Additionally, S/he will work with other types of high dimensional data (e.g., gene expression, methylation, etc) to contribute to developing functional annotations to inform single variant and aggregate GWAS and WGS analyses.
Additionally, the candidate will help access, manage, and analyze datasets, and contribute to manuscript preparation, as required. S/he should have a high degree of familiarity with relevant analytic software, maintain user interface programs and software tools to analyze data sets, and maintain current knowledge of publicly available data and associated software tools. The candidate will perform other responsibilities, as required.