Comprehensive analysis of ncRNA involvement in brain microglia immunology

Feng Li; Xiaoling Zhong; Ziyan Zhao; Guiyuan Tan; Fei Xue; Yu Zhang; Yuxi Zhang; Yanjun Xu; Yunpeng Zhang; Chunlong Zhang

doi:10.1016/j.clim.2022.109075

Comprehensive analysis of ncRNA involvement in brain microglia immunology

Clin Immunol. 2022 Aug:241:109075. doi: 10.1016/j.clim.2022.109075. Epub 2022 Jul 6.

Authors

Feng Li¹, Xiaoling Zhong¹, Ziyan Zhao¹, Guiyuan Tan¹, Fei Xue¹, Yu Zhang¹, Yuxi Zhang¹, Yanjun Xu², Yunpeng Zhang³, Chunlong Zhang⁴

Affiliations

¹ College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
² College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: xuyanjun@hrbmu.edu.cn.
³ College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: zhangyp@hrbmu.edu.cn.
⁴ College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: zhangchunlong@hrbmu.edu.cn.

PMID: 35809855
DOI: 10.1016/j.clim.2022.109075

Abstract

Microglia is a major class of brain-resident myeloid cells and non-coding RNAs (ncRNAs) serves as key regulators in microglia homeostasis and inflammatory process. Here, we constructed the systematical association between microglia and ncRNAs including miRNAs, lncRNAs and circRNAs from two aspects, manual retrieval and computational detection. A total of 648 experimental verified ncRNA-microglia associations were obtained from published studies, including ncRNA regulatory patterns within different experimental models. Furthermore, we extracted 9 miRNA and 1 lncRNA expression profiles from the GEO database. Also, we obtained 31 sample-match miRNA and mRNA expression profiles, containing a total of 2335 normal or disordered brain samples. Finally, we developed a platform named MG-ncRexplorer (http://bio-bigdata.hrbmu.edu.cn/MG-ncRexplorer/), exploring the associations between ncRNAs and microglia among experimental validated and computational detection. To demonstrate the usage of MG-ncRexplorer, we constructed regulatory target networks based on manual retrieval associations and identified risk glioma miRNAs among multiple high-throughput expression profiles.

Keywords: Biomarker; Brain disease; Microglia; Regulatory network; ncRNA.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Brain / metabolism
MicroRNAs* / genetics
MicroRNAs* / metabolism
Microglia / metabolism
RNA, Long Noncoding* / genetics
RNA, Long Noncoding* / metabolism
RNA, Untranslated / genetics
RNA, Untranslated / metabolism

Substances

MicroRNAs
RNA, Long Noncoding
RNA, Untranslated