Genome-Wide Association Study Identifies Risk Variants for Lichen Planus in Patients With Hepatitis C Virus Infection Yumiko Nagao, Nao Nishida, Licht.

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Presentation transcript:

Genome-Wide Association Study Identifies Risk Variants for Lichen Planus in Patients With Hepatitis C Virus Infection Yumiko Nagao, Nao Nishida, Licht Toyo-oka, Atsushi Kawaguchi, Antonio Amoroso, Marco Carrozzo, Michio Sata, Masashi Mizokami, Katsushi Tokunaga, Yasuhito Tanaka Clinical Gastroenterology and Hepatology Volume 15, Issue 6, Pages 937-944.e5 (June 2017) DOI: 10.1016/j.cgh.2016.12.029 Copyright © 2017 AGA Institute Terms and Conditions

Figure 1 Clinical presentations of lichen planus. (A) Lower lip, (B and D) left buccal mucosa, (C) tongue. Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions

Figure 2 Genome-wide view of the single-point association data based on allele frequencies in a comparison of 71 HCV Japanese patients with LP and 190 patients with HCV without OLP. P values were calculated using the chi-square test for allele frequencies among 629,553 SNPs. Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions

Supplementary Figure 1 Principal component analysis of 261 studied samples together with HapMap samples (including 43 JPT, 40 CHB, 91 YRI, and 91 CEU samples). Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions

Supplementary Figure 2 Quantile-Quantile plot of the allele-based Chi-square test statistics for the GWAS results. The dots represent the P values of each SNP that passed the quality control filters. The inflation factor λ was estimated to be 1.027 for all the tested. Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions

Supplementary Figure 3 Regional Manhattan plot of the HLA class II region (Chr6: 32,256,456 - 33,258,648, GRCh37 hg19) in the GWAS. Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions

Supplementary Figure 4 High density association mapping based on genotype imputation around (A) rs884000, and (B) rs538399. Clinical Gastroenterology and Hepatology 2017 15, 937-944.e5DOI: (10.1016/j.cgh.2016.12.029) Copyright © 2017 AGA Institute Terms and Conditions