medRxiv preprint doi: https://doi.org/10.1101/2020.11.13.20231654; this version posted November 16, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license . Pleiotropy method identifies genetic overlap between orofacial clefts at multiple loci from GWAS of multi-ethnic trios Debashree Ray1;2;B, Sowmya Venkataraghavan1, Wanying Zhang1, Elizabeth J. Leslie3, Jacqueline B. Hetmanski1, Mary L Marazita4;5;6, Ingo Ruczinski2, Margaret A. Taub2 and Terri H. Beaty1;2;B 1Department of Epidemiology, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD, USA. 2Department of Biostatistics, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD, USA. 3Department of Human Genetics, School of Medicine, Emory University, Atlanta, GA, USA. 4Department of Oral Biology, School of Dental Medicine, University of Pittsburgh, PA, USA. 5Department of Human Genetics, Graduate School of Public Health, University of Pittsburgh, PA, USA. 6Center for Craniofacial and Dental Genetics, University of Pittsburgh, PA, USA. BEmail:
[email protected];
[email protected] Based on epidemiologic and embryologic patterns, nonsyndromic orofacial clefts are commonly categorized into cleft lip with or without cleft palate (CL/P) and cleft palate alone (CP). While nearly forty risk genes have been identified for CL/P, few risk genes are known for CP. We used a new statistical method, PLACO, to identify genetic variants influencing risk of both CL/P and CP. In a combined multi-ethnic genome-wide study of 2,771 CL/P and 611 CP case-parent trios, we discovered 6 new loci of genetic overlap between CL/P and CP; 3 new loci between pairwise OFC subtypes; and 4 loci not previously implicated in OFCs.