1. Genome-wide association scan in north Indians reveals three novel HLA-independent risk loci for ulcerative colitis
- Author
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Shalini Singh, Garima Juyal, Ramesh C. Juyal, Pushplata Prasad, Jacques Zaneveld, Suzanne van Sommeren, Rinse K. Weersma, Aditi Gupta, Jurg Ott, Sabyasachi Senapati, Sanjay Jain, B.K. Thelma, Vandana Midha, Ajit Sood, Sapna Negi, and Groningen Institute for Gastro Intestinal Genetics and Immunology (3GI)
- Subjects
Risk ,SUSCEPTIBILITY LOCI ,Population ,Genome-wide association study ,Single-nucleotide polymorphism ,Human leukocyte antigen ,Biology ,VARIANTS ,Inflammatory bowel disease ,Polymorphism, Single Nucleotide ,White People ,HLA Antigens ,NOD2/CARD15 GENE ,medicine ,Humans ,Allele ,education ,METAANALYSIS ,Genetic association ,Genetics ,education.field_of_study ,IDENTIFICATION ,JAPANESE PATIENTS ,Gastroenterology ,medicine.disease ,Ulcerative colitis ,CROHNS-DISEASE ,RHEUMATOID-ARTHRITIS ,Case-Control Studies ,MHC REGION ,Colitis, Ulcerative ,Genome-Wide Association Study ,INFLAMMATORY-BOWEL-DISEASE - Abstract
Objective Over 100 ulcerative colitis (UC) loci have been identified by genome-wide association studies (GWASs) primarily in Caucasians (CEUs). Many of them have weak effects on disease susceptibility, and the bulk of the heritability cannot be ascribed to these loci. Very little is known about the genetic background of UC in non-CEU groups. Here we report the first GWAS on UC in a genetically distinct north Indian (NI) population.Design A genome-wide scan was performed on 700 cases and 761 controls. 18 single-nucleotide polymorphisms (SNPs) (pResults Seven novel human leucocyte antigen (HLA)-independent SNPs from chromosome 6, located in 3.8-1, BAT2, MSH5, HSPA1L, SLC44A4, CFB and NOTCH4, exceeded pConclusions This study shows varying contribution of the HLA region to UC in different populations. Different environmental exposures and the characteristic genetic structure of the HLA locus across ethnic groups collectively make it amenable to the discovery of causative alleles by transethnic resequencing. This may lead to an improved understanding of the molecular mechanisms underlying UC.
- Published
- 2015