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Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell via Transcriptome Sequencing Analysis.
Int J Mol Sci. 2018 Feb 27; 19(3)IJ

Abstract

Hepatic fibrosis is the main pathological basis for chronic cirrhosis, and activated hepatic stellate cells (HSCs) are the primary cells involved in liver fibrosis. Our study analyzed anti-fibrosis long noncoding RNAs (lncRNAs) in activated human HSCs (hHSCs). We performed RNA sequencing (RNA-seq) and bioinformatics analysis to determine whether lncRNA expression profile changes between hHSCs activation and quiescence. Eight differentially expressed (DE) lncRNAs and three pairs of co-expression lncRNAs-mRNAs were verified by quantitative Real-Time Polymerase Chain Reaction (qRT-PCR). A total of 34146 DE lncRNAs were identified in this study. Via gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses, we found several DE lncRNAs regulated hHSC activation by participating in DNA bending/packaging complex, growth factor binding and the Hippo signaling pathway (p < 0.05). With lncRNA-mRNA co-expression analysis, three lncRNAs were identified to be associated with connective tissue growth factor (CTGF), fibroblast growth factor 2 (FGF2) and netrin-4 (NTN4). The quantitative Real-Time Polymerase Chain Reaction (qRT-PCR) results of the eight DE lncRNAs and three pairs of co-expression lncRNAs-mRNAs were consistent with the RNA-seq data and previous reports. Several lncRNAs may serve as potential targets to reverse the progression of liver fibrosis. This study provides a first insight into lncRNA expression profile changes associated with activated human HSCs.

Authors+Show Affiliations

The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. lxianqian0507@gmail.com.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. rzhenxing2016@gmail.com.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. a15813359410@gmail.com.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. tannyhy@gmail.com.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. zitong531@gmail.com.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. tianran531@gmail.com.School of Chinese Materia Medical, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. zhangfengxue@gzucm.edu.cn.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. zhangfengxue@gzucm.edu.cn.The Research Center for Integrative Medicine, School of Fundamental Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou 510006, China. tannyhy@gzucm.edu.cn.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

29495545

Citation

Li, Xian-Qian, et al. "Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell Via Transcriptome Sequencing Analysis." International Journal of Molecular Sciences, vol. 19, no. 3, 2018.
Li XQ, Ren ZX, Li K, et al. Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell via Transcriptome Sequencing Analysis. Int J Mol Sci. 2018;19(3).
Li, X. Q., Ren, Z. X., Li, K., Huang, J. J., Huang, Z. T., Zhou, T. R., Cao, H. Y., Zhang, F. X., & Tan, B. (2018). Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell via Transcriptome Sequencing Analysis. International Journal of Molecular Sciences, 19(3). https://doi.org/10.3390/ijms19030675
Li XQ, et al. Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell Via Transcriptome Sequencing Analysis. Int J Mol Sci. 2018 Feb 27;19(3) PubMed PMID: 29495545.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Key Anti-Fibrosis Associated Long Noncoding RNAs Identified in Human Hepatic Stellate Cell via Transcriptome Sequencing Analysis. AU - Li,Xian-Qian, AU - Ren,Zhen-Xing, AU - Li,Ke, AU - Huang,Jing-Jing, AU - Huang,Zi-Tong, AU - Zhou,Tian-Ran, AU - Cao,Hong-Ying, AU - Zhang,Feng-Xue, AU - Tan,Bo, Y1 - 2018/02/27/ PY - 2017/12/11/received PY - 2018/01/23/revised PY - 2018/02/24/accepted PY - 2018/3/3/entrez PY - 2018/3/3/pubmed PY - 2018/8/28/medline KW - RNA-sequencing KW - fibroblast growth factor 2 (FGF2) KW - hepatic fibrosis KW - human hepatic stellate cell KW - lncRNA KW - netrin-4 (NTN4) JF - International journal of molecular sciences JO - Int J Mol Sci VL - 19 IS - 3 N2 - Hepatic fibrosis is the main pathological basis for chronic cirrhosis, and activated hepatic stellate cells (HSCs) are the primary cells involved in liver fibrosis. Our study analyzed anti-fibrosis long noncoding RNAs (lncRNAs) in activated human HSCs (hHSCs). We performed RNA sequencing (RNA-seq) and bioinformatics analysis to determine whether lncRNA expression profile changes between hHSCs activation and quiescence. Eight differentially expressed (DE) lncRNAs and three pairs of co-expression lncRNAs-mRNAs were verified by quantitative Real-Time Polymerase Chain Reaction (qRT-PCR). A total of 34146 DE lncRNAs were identified in this study. Via gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses, we found several DE lncRNAs regulated hHSC activation by participating in DNA bending/packaging complex, growth factor binding and the Hippo signaling pathway (p < 0.05). With lncRNA-mRNA co-expression analysis, three lncRNAs were identified to be associated with connective tissue growth factor (CTGF), fibroblast growth factor 2 (FGF2) and netrin-4 (NTN4). The quantitative Real-Time Polymerase Chain Reaction (qRT-PCR) results of the eight DE lncRNAs and three pairs of co-expression lncRNAs-mRNAs were consistent with the RNA-seq data and previous reports. Several lncRNAs may serve as potential targets to reverse the progression of liver fibrosis. This study provides a first insight into lncRNA expression profile changes associated with activated human HSCs. SN - 1422-0067 UR - https://www.unboundmedicine.com/medline/citation/29495545/Key_Anti_Fibrosis_Associated_Long_Noncoding_RNAs_Identified_in_Human_Hepatic_Stellate_Cell_via_Transcriptome_Sequencing_Analysis_ L2 - http://www.mdpi.com/resolver?pii=ijms19030675 DB - PRIME DP - Unbound Medicine ER -