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
  • [31] Long non-coding RNA HOXD-AS1 in cancer
    Li, Lianlian
    Wang, Yong
    Zhang, Xiaoyu
    Huang, Qiwei
    Diao, Yutao
    Yin, Haipeng
    Liu, Hongyan
    CLINICA CHIMICA ACTA, 2018, 487 : 197 - 201
  • [32] DMAK: A curated pan-cancer DNA methylation annotation knowledgebase
    Tang, Binhua
    BIOENGINEERED, 2017, 8 (02) : 182 - 190
  • [33] Long non-coding RNA CRNDE suppressing cell proliferation is regulated by DNA methylation in chronic lymphocytic leukemia
    Ni, Jing
    Hong, Jian
    Li, Qingsheng
    Zeng, Qingshu
    Xia, Ruixiang
    LEUKEMIA RESEARCH, 2021, 105
  • [34] Prediction of overall survival time in patients with colon adenocarcinoma using DNA methylation profiling of long non-coding RNAs
    Zhang, Qiongying
    Lin, Zhuo
    Zhang, Haiyan
    Bao, Xiaodong
    Zhang, Huxiang
    ONCOLOGY LETTERS, 2020, 19 (02) : 1496 - 1504
  • [35] Pan-cancer analysis of non-coding transcripts reveals the prognostic onco-lncRNA HOXA10-AS in gliomas
    Isaev, Keren
    Jiang, Lingyan
    Wu, Shuai
    Lee, Christian A.
    Watters, Valerie
    Fort, Victoire
    Tsai, Ricky
    Coutinho, Fiona J.
    Hussein, Samer M., I
    Zhang, Jie
    Wu, Jinsong
    Dirks, Peter B.
    Schramek, Daniel
    Reimand, Juri
    CELL REPORTS, 2021, 37 (03):
  • [36] DNA Methylation of a Group of Long Non-Coding RNA Genes at Different Stages of Ovarian Cancer Dissemination
    Burdennyy, A. M.
    Filippova, E. A.
    Lukina, S. S.
    Ivanova, N. A.
    Pronina, I. V.
    Loginov, V. I.
    Kazubskaya, T. P.
    Kushlinskii, N. E.
    Braga, E. A.
    BULLETIN OF EXPERIMENTAL BIOLOGY AND MEDICINE, 2024, 176 (04) : 495 - 500
  • [37] DNA Methylation of a Group of Long Non-Coding RNA Genes at Different Stages of Ovarian Cancer Dissemination
    A. M. Burdennyy
    E. A. Filippova
    S. S. Lukina
    N. A. Ivanova
    I. V. Pronina
    V. I. Loginov
    T. P. Kazubskaya
    N. E. Kushlinskii
    E. A. Braga
    Bulletin of Experimental Biology and Medicine, 2024, 176 : 495 - 500
  • [38] Long non-coding RNA functions in lung cancer
    Sang, Haiwei
    Liu, Haihong
    Xiong, Peng
    Zhu, Min
    TUMOR BIOLOGY, 2015, 36 (06) : 4027 - 4037
  • [39] Integrative analysis identifies potential DNA methylation biomarkers for pan-cancer diagnosis and prognosis
    Ding, Wubin
    Chen, Geng
    Shi, Tieliu
    EPIGENETICS, 2019, 14 (01) : 67 - 80
  • [40] Emerging roles of long non-coding RNA in cancer
    Calle, Anna Sanchez
    Kawamura, Yumi
    Yamamoto, Yusuke
    Takeshita, Fumitaka
    Ochiya, Takahiro
    CANCER SCIENCE, 2018, 109 (07) : 2093 - 2100
12345