Literature DB >> 24187447

Impact of exome sequencing in inflammatory bowel disease.

Christopher J Cardinale1, Judith R Kelsen, Robert N Baldassano, Hakon Hakonarson.   

Abstract

Approaches to understanding the genetic contribution to inflammatory bowel disease (IBD) have continuously evolved from family- and population-based epidemiology, to linkage analysis, and most recently, to genome-wide association studies (GWAS). The next stage in this evolution seems to be the sequencing of the exome, that is, the regions of the human genome which encode proteins. The GWAS approach has been very fruitful in identifying at least 163 loci as being associated with IBD, and now, exome sequencing promises to take our genetic understanding to the next level. In this review we will discuss the possible contributions that can be made by an exome sequencing approach both at the individual patient level to aid with disease diagnosis and future therapies, as well as in advancing knowledge of the pathogenesis of IBD.

Entities:  

Keywords:  Exome; Genetics; Inflammatory bowel disease; Sequencing

Mesh:

Year:  2013        PMID: 24187447      PMCID: PMC3812471          DOI: 10.3748/wjg.v19.i40.6721

Source DB:  PubMed          Journal:  World J Gastroenterol        ISSN: 1007-9327            Impact factor:   5.742


  61 in total

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Authors:  J K Pritchard
Journal:  Am J Hum Genet       Date:  2001-06-12       Impact factor: 11.025

2.  Predicting deleterious amino acid substitutions.

Authors:  P C Ng; S Henikoff
Journal:  Genome Res       Date:  2001-05       Impact factor: 9.043

3.  Exome sequencing and the genetic basis of complex traits.

Authors:  Adam Kiezun; Kiran Garimella; Ron Do; Nathan O Stitziel; Benjamin M Neale; Paul J McLaren; Namrata Gupta; Pamela Sklar; Patrick F Sullivan; Jennifer L Moran; Christina M Hultman; Paul Lichtenstein; Patrik Magnusson; Thomas Lehner; Yin Yao Shugart; Alkes L Price; Paul I W de Bakker; Shaun M Purcell; Shamil R Sunyaev
Journal:  Nat Genet       Date:  2012-05-29       Impact factor: 38.330

4.  LPS-responsive beige-like anchor (LRBA) gene mutation in a family with inflammatory bowel disease and combined immunodeficiency.

Authors:  Abdullah Alangari; Abdulrahman Alsultan; Nouran Adly; Michel J Massaad; Iram Shakir Kiani; Abdulrahman Aljebreen; Emad Raddaoui; Abdul-Kareem Almomen; Saleh Al-Muhsen; Raif S Geha; Fowzan S Alkuraya
Journal:  J Allergy Clin Immunol       Date:  2012-06-19       Impact factor: 10.793

5.  Large sample size, wide variant spectrum, and advanced machine-learning technique boost risk prediction for inflammatory bowel disease.

Authors:  Zhi Wei; Wei Wang; Jonathan Bradfield; Jin Li; Christopher Cardinale; Edward Frackelton; Cecilia Kim; Frank Mentch; Kristel Van Steen; Peter M Visscher; Robert N Baldassano; Hakon Hakonarson
Journal:  Am J Hum Genet       Date:  2013-05-23       Impact factor: 11.025

6.  Evolution and functional impact of rare coding variation from deep sequencing of human exomes.

Authors:  Jacob A Tennessen; Abigail W Bigham; Timothy D O'Connor; Wenqing Fu; Eimear E Kenny; Simon Gravel; Sean McGee; Ron Do; Xiaoming Liu; Goo Jun; Hyun Min Kang; Daniel Jordan; Suzanne M Leal; Stacey Gabriel; Mark J Rieder; Goncalo Abecasis; David Altshuler; Deborah A Nickerson; Eric Boerwinkle; Shamil Sunyaev; Carlos D Bustamante; Michael J Bamshad; Joshua M Akey
Journal:  Science       Date:  2012-05-17       Impact factor: 47.728

7.  On the allelic spectrum of human disease.

Authors:  D E Reich; E S Lander
Journal:  Trends Genet       Date:  2001-09       Impact factor: 11.639

8.  Association of NOD2 leucine-rich repeat variants with susceptibility to Crohn's disease.

Authors:  J P Hugot; M Chamaillard; H Zouali; S Lesage; J P Cézard; J Belaiche; S Almer; C Tysk; C A O'Morain; M Gassull; V Binder; Y Finkel; A Cortot; R Modigliani; P Laurent-Puig; C Gower-Rousseau; J Macry; J F Colombel; M Sahbatou; G Thomas
Journal:  Nature       Date:  2001-05-31       Impact factor: 49.962

9.  A frameshift mutation in NOD2 associated with susceptibility to Crohn's disease.

Authors:  Y Ogura; D K Bonen; N Inohara; D L Nicolae; F F Chen; R Ramos; H Britton; T Moran; R Karaliuskas; R H Duerr; J P Achkar; S R Brant; T M Bayless; B S Kirschner; S B Hanauer; G Nuñez; J H Cho
Journal:  Nature       Date:  2001-05-31       Impact factor: 49.962

10.  Differential confounding of rare and common variants in spatially structured populations.

Authors:  Iain Mathieson; Gil McVean
Journal:  Nat Genet       Date:  2012-02-05       Impact factor: 38.330

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  12 in total

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Review 2.  Autoimmune diseases - connecting risk alleles with molecular traits of the immune system.

Authors:  Maria Gutierrez-Arcelus; Stephen S Rich; Soumya Raychaudhuri
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3.  Creatine maintains intestinal homeostasis and protects against colitis.

Authors:  Emre Turer; William McAlpine; Kuan-Wen Wang; Tianshi Lu; Xiaohong Li; Miao Tang; Xiaoming Zhan; Tao Wang; Xiaowei Zhan; Chun-Hui Bu; Anne R Murray; Bruce Beutler
Journal:  Proc Natl Acad Sci U S A       Date:  2017-01-30       Impact factor: 11.205

Review 4.  The TNF Receptor Superfamily in Co-stimulating and Co-inhibitory Responses.

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Journal:  Immunity       Date:  2016-05-17       Impact factor: 31.745

Review 5.  Genetics of inflammatory bowel disease from multifactorial to monogenic forms.

Authors:  Anna Monica Bianco; Martina Girardelli; Alberto Tommasini
Journal:  World J Gastroenterol       Date:  2015-11-21       Impact factor: 5.742

6.  Novel ZBTB24 Mutation Associated with Immunodeficiency, Centromere Instability, and Facial Anomalies Type-2 Syndrome Identified in a Patient with Very Early Onset Inflammatory Bowel Disease.

Authors:  Máire A Conrad; Noor Dawany; Kathleen E Sullivan; Marcella Devoto; Judith R Kelsen
Journal:  Inflamm Bowel Dis       Date:  2017-12       Impact factor: 5.325

Review 7.  A review of study designs and statistical methods for genomic epidemiology studies using next generation sequencing.

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8.  Inferring Crohn's disease association from exome sequences by integrating biological knowledge.

Authors:  Chan-Seok Jeong; Dongsup Kim
Journal:  BMC Med Genomics       Date:  2016-08-12       Impact factor: 3.063

Review 9.  Very Early Onset Inflammatory Bowel Disease: A Clinical Approach With a Focus on the Role of Genetics and Underlying Immune Deficiencies.

Authors:  Jodie Ouahed; Elizabeth Spencer; Daniel Kotlarz; Dror S Shouval; Matthew Kowalik; Kaiyue Peng; Michael Field; Leslie Grushkin-Lerner; Sung-Yun Pai; Athos Bousvaros; Judy Cho; Carmen Argmann; Eric Schadt; Dermot P B Mcgovern; Michal Mokry; Edward Nieuwenhuis; Hans Clevers; Fiona Powrie; Holm Uhlig; Christoph Klein; Aleixo Muise; Marla Dubinsky; Scott B Snapper
Journal:  Inflamm Bowel Dis       Date:  2020-05-12       Impact factor: 5.325

Review 10.  The diagnostic approach to monogenic very early onset inflammatory bowel disease.

Authors:  Holm H Uhlig; Tobias Schwerd; Sibylle Koletzko; Neil Shah; Jochen Kammermeier; Abdul Elkadri; Jodie Ouahed; David C Wilson; Simon P Travis; Dan Turner; Christoph Klein; Scott B Snapper; Aleixo M Muise
Journal:  Gastroenterology       Date:  2014-07-21       Impact factor: 33.883

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