Pan-cancer analysis of the DNA methylation patterns of long non-coding RNA

被引：6
|
作者：
Wang, Shijia [1 ,2 ]
Wang, Rendong [1 ,2 ]
Gao, Fang [3 ]
Huang, Jun [1 ,2 ]
Zhao, Xiaoxiao [1 ,2 ]
Li, Dongguo [1 ,2 ]
机构：
[1] Capital Med Univ, Sch Biomed Engn, 10 You An Men Wai, Beijing 100069, Peoples R China
[2] Capital Med Univ, Beijing Key Lab Fundamental Res Biomech Clin Appl, Beijing 100069, Peoples R China
[3] Binzhou Peoples Hosp, Hlth Management Ctr, Binzhou, Shandong, Peoples R China
来源：
GENOMICS | 2022年 / 114卷 / 04期
关键词：
Pan-cancer; TCGA; DNA methylation; Long non-coding RNA; Co-expression network; CELL-PROLIFERATION; GENE; HYPOMETHYLATION; EPIGENETICS; PROGRESSION; ENRICHMENT; LANDSCAPE; INSIGHTS; LNCRNA;
D O I：
10.1016/j.ygeno.2022.110377
中图分类号：
Q81 [生物工程学（生物技术）]; Q93 [微生物学];
学科分类号：
071005 ; 0836 ; 090102 ; 100705 ;
摘要：
Long non-coding RNA (lncRNA) regulated by abnormal DNA methylation (ADM-lncRNA) emerges as a biomarker for cancer diagnosis and treatment. This study comprehensively described the methylation patterns of lncRNA in pan-cancer using the cancer data set in The Cancer Genome Atlas (TCGA). Based on the cancer heterogeneity of ADM-lncRNA in pan-cancer, we constructed a co-expression network of pan-cancer ADM-lncRNA (pADMlncRNA) in 10 cancers, highlighting the combined action mode of abnormal DNA methylation, and indicating the internal connection among different cancers. Functional analysis revealed the pan-carcinogenic pathway of pADM-lncRNA and suggested potential factors for cancer heterogeneity and tumor immune microenvironment changes. Survival analysis showed the potential of pADM-lncRNA-mRNA co-expression pair as cancer biomarkers. Revealing the action mode of lncRNA and DNA methylation in cancer may help understand the key molecular mechanisms of cell carcinogenesis.
引用
收藏
页数：11
相关论文
共 50 条
  • [41] Long non-coding RNA in bladder cancer
    Cao, Yuepeng
    Tian, Tian
    Li, Weijian
    Xue, Hanzi
    Zhan, Chuanfei
    Wu, Xuhong
    Wang, Chao
    Wu, Xiaoli
    Wu, Wanke
    Zheng, Shuyun
    Xie, Kaipeng
    CLINICA CHIMICA ACTA, 2020, 503 : 113 - 121
  • [42] H19, a Long Non-coding RNA, Mediates Transcription Factors and Target Genes through Interference of MicroRNAs in Pan-Cancer
    Li, Aimin
    Mallik, Saurav
    Luo, Haidan
    Jia, Peilin
    Lee, Dung-Fang
    Zhao, Zhongming
    MOLECULAR THERAPY-NUCLEIC ACIDS, 2020, 21 : 180 - 191
  • [43] Non-Coding RNA Transcription and RNA-Directed DNA Methylation in Arabidopsis
    He, Xin-Jian
    Ma, Ze-Yang
    Liu, Zhang-Wei
    MOLECULAR PLANT, 2014, 7 (09) : 1406 - 1414
  • [44] The interaction between DNA methylation and long non-coding RNA during the onset of puberty in goats
    Yang, Chen
    Gao, Xiaoxiao
    Ye, Jing
    Ding, Jianping
    Liu, Ya
    Liu, Hongyu
    Li, Xiumei
    Zhang, Yunhai
    Zhou, Jie
    Huang, Weiping
    Fang, Fugui
    Ling, Yinghui
    REPRODUCTION IN DOMESTIC ANIMALS, 2018, 53 (06) : 1287 - 1297
  • [45] Pan-cancer patterns of DNA methylation dysregulation and copy number alteration burden
    Salas, Lucas A.
    Johnson, Kevin C.
    Christensen, Brock C.
    CANCER RESEARCH, 2016, 76
  • [46] Analysis of long non-coding RNA expression profiles in gastric cancer
    Cao, Wei-Jun
    Wu, Hai-Lu
    He, Bang-Shun
    Zhang, Yu-Shu
    Zhang, Zhen-Yu
    WORLD JOURNAL OF GASTROENTEROLOGY, 2013, 19 (23) : 3658 - 3664
  • [47] Analysis of long non-coding RNA expression profiles in ovarian cancer
    Shen, Liang
    Liu, Wei
    Cui, Jing
    Li, Juan
    Li, Changzhong
    ONCOLOGY LETTERS, 2017, 14 (02) : 1526 - 1530
  • [48] Analysis of long non-coding RNA expression profiles in gastric cancer
    Wei-Jun Cao
    Hai-Lu Wu
    Bang-Shun He
    Yu-Shu Zhang
    Zhen-Yu Zhang
    World Journal of Gastroenterology, 2013, 19 (23) : 3658 - 3664
  • [49] Pan-Cancer Analysis Reveals Long Non-coding RNA (lncRNA) Embryonic Stem Cell-Related Gene (ESRG) as a Promising Diagnostic and Prognostic Biomarker
    Fageer, Samira M.
    Alamin, Marwa F.
    Attaelmanan, Areig M.
    Alfaki, Mohamed
    CUREUS JOURNAL OF MEDICAL SCIENCE, 2024, 16 (08)
  • [50] RNA-directed DNA methylation requires stepwise binding of silencing factors to long non-coding RNA
    Boehmdorfer, Gudrun
    Rowley, M. Jordan
    Kucinski, Jan
    Zhu, Yongyou
    Amies, Ivan
    Wierzbicki, Andrzej T.
    PLANT JOURNAL, 2014, 79 (02): : 181 - 191
12345