title: Profiling age-related epigenetic markers of stomach adenocarcinoma in young and old subjects.
abstract: The purpose of our study is to identify epigenetic markers that are differently expressed in the stomach adenocarcinoma (STAD) condition. Based on data from The Cancer Genome Atlas (TCGA), we were able to detect an age-related difference in methylation patterns and changes in gene and miRNA expression levels in young (n = 14) and old (n = 70) STAD subjects. Our analysis identified 323 upregulated and 653 downregulated genes in old STAD subjects. We also found 76 miRNAs with age-related expression patterns and 113 differentially methylated genes (DMGs), respectively. Our further analysis revealed that significant upregulated genes (n = 35) were assigned to the cell cycle, while the muscle system process (n = 27) and cell adhesion-related genes (n = 57) were downregulated. In addition, by comparing gene and miRNA expression with methylation change, we identified that three upregulated genes (ELF3, IL1β, and MMP13) known to be involved in inflammatory responses and cell growth were significantly hypomethylated in the promoter region. We further detected target candidates for age-related, downregulated miRNAs (hsa-mir-124-3, hsa-mir-204, and hsa-mir-125b-2) in old STAD subjects. This is the first report of the results from a study exploring age-related epigenetic biomarkers of STAD using high-throughput data and provides evidence for a complex clinicopathological condition expressed by the age-related STAD progression.
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Byoung-Chul
authors.initials: BC
authors.lastname: Kim
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Hyoung Oh
authors.initials: HO
authors.lastname: Jeong
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Daeui
authors.initials: D
authors.lastname: Park
authors.affiliation: Genomictree Inc., Yuseong-gu, Daejeon, Republic of Korea.
authors.forename: Chul-Hong
authors.initials: CH
authors.lastname: Kim
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea.
authors.forename: Eun Kyeong
authors.initials: EK
authors.lastname: Lee
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea.
authors.forename: Dae Hyun
authors.initials: DH
authors.lastname: Kim
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Eunok
authors.initials: E
authors.lastname: Im
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Nam Deuk
authors.initials: ND
authors.lastname: Kim
authors.affiliation: Personal Genomics Institute, Genome Research Foundation, Suwon, Republic of Korea. ; BioMedical Engineering, UNIST, Ulsan, Republic of Korea.
authors.forename: Sunghoon
authors.initials: S
authors.lastname: Lee
authors.affiliation: Department of Physiology, University of Texas Health Science Center at San Antonio, San Antonio, TX, USA.
authors.forename: Byung Pal
authors.initials: BP
authors.lastname: Yu
authors.affiliation: Personal Genomics Institute, Genome Research Foundation, Suwon, Republic of Korea. ; BioMedical Engineering, UNIST, Ulsan, Republic of Korea.
authors.forename: Jong
authors.initials: J
authors.lastname: Bhak
authors.affiliation: Molecular Inflammation Research Center for Aging Intervention, Pusan National University, Busan, Republic of Korea. ; Interdisciplinary Research Program of Bioinformatics and Longevity Science, Pusan National University, Busan, Republic of Korea.
authors.forename: Hae Young
authors.initials: HY
authors.lastname: Chung
keywords: DNA methylation; RNAseq; TCGA; age; miRNA; stomach adenocarcinoma