title: Application of computational methods in genetic study of inflammatory bowel disease.
abstract: Genetic factors play an important role in the etiology of inflammatory bowel disease (IBD). The launch of genome-wide association study (GWAS) represents a landmark in the genetic study of human complex disease. Concurrently, computational methods have undergone rapid development during the past a few years, which led to the identification of numerous disease susceptibility loci. IBD is one of the successful examples of GWAS and related analyses. A total of 163 genetic loci and multiple signaling pathways have been identified to be associated with IBD. Pleiotropic effects were found for many of these loci; and risk prediction models were built based on a broad spectrum of genetic variants. Important gene-gene, gene-environment interactions and key contributions of gut microbiome are being discovered. Here we will review the different types of analyses that have been applied to IBD genetic study, discuss the computational methods for each type of analysis, and summarize the discoveries made in IBD research with the application of these methods.
authors.affiliation: Jin Li, Hakon Hakonarson, Center for Applied Genomics, Abramson Research Center, Children's Hospital of Philadelphia, Philadelphia, PA 19104, United States.
authors.forename: Jin
authors.initials: J
authors.lastname: Li
authors.affiliation: Jin Li, Hakon Hakonarson, Center for Applied Genomics, Abramson Research Center, Children's Hospital of Philadelphia, Philadelphia, PA 19104, United States.
authors.forename: Zhi
authors.initials: Z
authors.lastname: Wei
authors.affiliation: Jin Li, Hakon Hakonarson, Center for Applied Genomics, Abramson Research Center, Children's Hospital of Philadelphia, Philadelphia, PA 19104, United States.
authors.forename: Hakon
authors.initials: H
authors.lastname: Hakonarson
mesh_terms: D000818:Animals; D003093:Colitis, Ulcerative / Q000235:genetics* / Q000378:metabolism / Q000382:microbiology; D003424:Crohn Disease / Q000235:genetics* / Q000378:metabolism / Q000382:microbiology; D030541:Databases, Genetic; D000069196:Gastrointestinal Microbiome; D005786:Gene Expression Regulation; D053263:Gene Regulatory Networks; D059647:Gene-Environment Interaction; D056426:Genetic Loci; D005819:Genetic Markers; D058685:Genetic Pleiotropy; D020022:Genetic Predisposition to Disease; D055106:Genome-Wide Association Study; D023281:Genomics / Q000379:methods*; D054884:Host-Pathogen Interactions; D006801:Humans; D010641:Phenotype; D018570:Risk Assessment; D012307:Risk Factors; D015398:Signal Transduction
chemical_list: D005819:Genetic Markers
keywords: Computational methods; Gene-environment interaction; Gene-gene interaction; Genome-wide association study; Inflammatory bowel disease; Pathway analysis; Pleiotropy; Risk prediction
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