Is Whole Exome Sequencing Clinically Practical in the Management of Pediatric Crohn's Disease?.
- Author:
Seak Hee OH
1
;
Jiwon BAEK
;
Kyung Mo KIM
;
Eun Ju LEE
;
Yusun JUNG
;
Yeoun Joo LEE
;
Hyun Seung JIN
;
Byong Duk YE
;
Suk Kyun YANG
;
Jong Keuk LEE
;
Eul Ju SEO
;
Hyun Taek LIM
;
Inchul LEE
;
Kyuyoung SONG
Author Information
- Publication Type:Original Article ; Research Support, Non-U.S. Gov't
- Keywords: Exome sequencing; Crohn disease; Rare variant; Primary immunodeficiency; Child
- MeSH: Asian Continental Ancestry Group/genetics; Carrier Proteins/genetics; Child; Child, Preschool; Crohn Disease/*genetics; *Exome; Female; Genetic Predisposition to Disease; *Genetic Variation; Humans; Immunologic Deficiency Syndromes/genetics; Infant; Male; Phenotype; Receptors, Interleukin-17/genetics; Republic of Korea; Sequence Analysis, DNA/*methods; X-Linked Inhibitor of Apoptosis Protein/genetics
- From:Gut and Liver 2015;9(6):767-775
- CountryRepublic of Korea
- Language:English
- Abstract: BACKGROUND/AIMS: The aim of this study was to identify the profile of rare variants associated with Crohn's disease (CD) using whole exome sequencing (WES) analysis of Korean children with CD and to evaluate whether genetic profiles could provide information during medical decision making. METHODS: DNA samples from 18 control individuals and 22 patients with infantile, very-early and early onset CD of severe phenotype were used for WES. Genes were filtered using panels of inflammatory bowel disease (IBD)-associated genes and genes of primary immunodeficiency (PID) and monogenic IBD. RESULTS: Eighty-one IBD-associated variants and 35 variants in PID genes were revealed by WES. The most frequently occurring variants were carried by nine (41%) and four (18.2%) CD probands and were ATG16L2 (rs11235604) and IL17REL (rs142430606), respectively. Twenty-four IBD-associated variants and 10 PID variants were predicted to be deleterious and were identified in the heterozygous state. However, their functions were unknown with the exception of a novel p.Q111X variant in XIAP (X chromosome) of a male proband. CONCLUSIONS: The presence of many rare variants of unknown significance limits the clinical applicability of WES for individual CD patients. However, WES in children may be beneficial for distinguishing CD secondary to PID.
