title: Protective association of tumor necrosis factor superfamily 15 (TNFSF15) polymorphic haplotype with Ulcerative Colitis and Crohn's disease in an Indian population.
abstract: BACKGROUND
  Tumor necrosis factor superfamily (TNFSF) proteins are involved in the genesis of inflammatory bowel disease (IBD). We examined the association of seven single nucleotide polymorphisms (SNP) in the TNFSF15 gene with Crohn's disease (CD) and ulcerative colitis (UC) in the Indian population.
  
  
  METHODS
  Seven SNPs in the TNFSF15 gene (rs10114470, rs3810936, rs6478108, rs4263839, rs6478109, rs7848647 and rs7869487) were genotyped in 309 CD patients, 330 UC patients and 437 healthy controls using the Sequenom iPLEX MassArray platform. Disease associations were evaluated for allelotypes and for genotypes.
  
  
  RESULTS
  The minor T alleles and the TT genotypes of rs10114470 and rs3810936 were significantly protectively associated with both CD and UC. The CC genotype of rs6478108, AA genotype of rs4263839, the AA genotype of rs6478109, the TT genotype of rs7848647 and the CC genotype of rs7869487 were all protectively associated with CD but not with UC. Two haplotype blocks could be discerned, one where SNPs rs10114470 and rs3810936 were in tight LD (D' = 0.8) and the other where rs6478108, rs4263839, rs6478109, rs7848647 and rs7869487 were in tight LD (D' 0.92-1.00). The second block of haplotypes were not associated with CD or with UC. The first block of haplotypes was very significantly associated with both CD and UC.
  
  
  CONCLUSIONS
  Strong associations exist between TNFSF15 gene polymorphisms and IBD (both CD and UC) in the Indian population.
authors.affiliation: Wellcome Trust Research Laboratory, Christian Medical College, Vellore 632 004, India.
authors.forename: Kirankumar
authors.initials: K
authors.lastname: Baskaran
authors.affiliation: Wellcome Trust Research Laboratory, Christian Medical College, Vellore 632 004, India.
authors.forename: Srinivasan
authors.initials: S
authors.lastname: Pugazhendhi
authors.affiliation: Wellcome Trust Research Laboratory, Christian Medical College, Vellore 632 004, India; SRM Institutes for Medical Science, 1 Jawaharlal Nehru Road, Vadapalani, Chennai 600 026, India.
authors.forename: Balakrishnan S
authors.initials: BS
authors.lastname: Ramakrishna
mesh_terms: D000293:Adolescent; D000328:Adult; D000368:Aged; D016022:Case-Control Studies; D002648:Child; D003093:Colitis, Ulcerative / Q000453:epidemiology / Q000235:genetics*; D003424:Crohn Disease / Q000453:epidemiology / Q000235:genetics*; D005260:Female; D020022:Genetic Predisposition to Disease / Q000235:genetics; D006239:Haplotypes; D006801:Humans; D007194:India / Q000453:epidemiology; D008297:Male; D008875:Middle Aged; D020641:Polymorphism, Single Nucleotide; D065840:Protective Factors; D053380:Tumor Necrosis Factor Ligand Superfamily Member 15 / Q000235:genetics*; D044465:White People / Q000235:genetics*; D055815:Young Adult
chemical_list: D053380:Tumor Necrosis Factor Ligand Superfamily Member 15