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Hypermethylation of PDX1, EN2, and MSX1 predicts the prognosis of colorectal cancer

Authors
 Yeongun Lee  ;  So Hee Dho  ;  Jiyeon Lee  ;  Ji-Hyun Hwang  ;  Minjung Kim  ;  Won-Young Choi  ;  Jin-Young Lee  ;  Jongwon Lee  ;  Woochul Chang  ;  Min Young Lee  ;  Jungmin Choi  ;  Tae-You Kim  ;  Lark Kyun Kim 
Citation
 EXPERIMENTAL AND MOLECULAR MEDICINE, Vol.54(2) : 156-168, 2022-02 
Journal Title
EXPERIMENTAL AND MOLECULAR MEDICINE
ISSN
 1226-3613 
Issue Date
2022-02
Abstract
Despite numerous observations regarding the relationship between DNA methylation changes and cancer progression, only a few genes have been verified as diagnostic biomarkers of colorectal cancer (CRC). To more practically detect methylation changes, we performed targeted bisulfite sequencing. Through co-analysis of RNA-seq, we identified cohort-specific DNA methylation markers: CpG islands of the intragenic regions of PDX1, EN2, and MSX1. We validated that these genes have oncogenic features in CRC and that their expression levels are increased in correlation with the hypermethylation of intragenic regions. The reliable depth of the targeted bisulfite sequencing data enabled us to design highly optimized quantitative methylation-specific PCR primer sets that can successfully detect subtle changes in the methylation levels of candidate regions. Furthermore, these methylation levels can divide CRC patients into two groups denoting good and poor prognoses. In this study, we present a streamlined workflow for screening clinically significant differentially methylated regions. Our discovery of methylation markers in the PDX1, EN2, and MSX1 genes suggests their promising performance as prognostic markers and their clinical application in CRC patients.
Files in This Item:
T202200640.pdf Download
DOI
10.1038/s12276-022-00731-1
Appears in Collections:
1. College of Medicine (의과대학) > BioMedical Science Institute (의생명과학부) > 1. Journal Papers
Yonsei Authors
Kim, Lark Kyun(김락균) ORCID logo https://orcid.org/0000-0001-5983-4470
Dho, So Hee(도소희) ORCID logo https://orcid.org/0000-0001-7343-713X
URI
https://ir.ymlib.yonsei.ac.kr/handle/22282913/188107
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