OncoArray: Oral and Pharynx Cancer

Genetic factors play an important role in susceptibility to head and neck cancer and could also explain differences in response to treatment and outcome. The goal of this project is to investigate genetic variation involved in oral and oropharyngeal cancer susceptibility by performing the largest GWAS on these diseases, using a novel genotyping tool specifically designed for cancer studies by the OncoArray Network. This project encompasses data from approximately 6000 oral and pharynx cancer cases and 4000 controls derived from 12 epidemiological studies most of case-control design. The genotyping was centralized at the Center for Inherited Disease Research (CIDR), and the epidemiological data harmonization and analysis were completed at the International Agency for Research on Cancer (IARC). This study was supported by National Institute of Dental and Craniofacial Research (NIDCR) with direct funding to CIDR.]]>
Cancer cases comprised the following ICD codes: oral cavity (C02.0-C02.9, C03.0-C03.9, C04.0-C04.9, C05.0-C06.9), oropharynx (C01.9, C02.4, C09.0-C10.9), hypopharynx (C13.0-C13.9), overlapping (C14 and combination of other sites), and 25 oral or pharyngeal cases with unknown ICD code (other). Controls: cancer-free controls. ]]>
This submission contains data genotyped at CIDR as part of the oral and oropharyngeal OncoArray study. Genotypes calls were made at Dartmouth College with common protocols for OncoArray Network projects. Epidemiological studies that contributed samples are listed in Table 1. Controls from Toronto and EPIC studies are shared with the Lung OncoArray Study that are not part of this dataset. These will be uploaded with the lung OncoArray. Table 1 Study Name Principal Investigator Study Design Reference Carolina Head and Neck Cancer Epidemiology (Chance) Andrew F Olshan Population-based case-control PMID:20049634 Gencapo Eloiza H. Tajara Multicenter Hospital-based case-control PMID:24474236 Alcohol-Related Cancers and Genetic susceptibility in Europe (Arcage) Paul Brennan Multicenter Hospital-based case-control PMID:18830131 IARC Central Europe Paul Brennan Multicenter Hospital-based case-control PMID:16614111 European Prospective Investigation into Cancer and Nutrition (EPIC) Paul Brennan Multicenter cohort study PMID:12639222 IARC Latin America Paul Brennan Multicenter Hospital-based case-control PMID:21607590 IARC oral cancer (ORC) Silvia Franceschi Multicenter Hospital-based case-control PMID:14652239 Maastricht Martin Lacko Wilbert Peters Hospital-based case-control PMID:21351260 University of Pittsburgh Brenda Diergaarde Hospital-based case-control PMID:23619143 Rome Stefania Boccia Hospital-based case-control PMID:20861397 Toronto Rayjean Hung Geoffrey Liu Hospital-based case-control PMID:24519853 Head and neck 5000 (HN5000) Andy Ness Multicenter HNC clinical cohort PMID:25519023 ]]>