LncTarD 2.0: an updated comprehensive database for experimentally-supported functional lncRNA–target regulations in human diseases. Issue Volume 51:Issue D1(2023) (2nd November 2022)

• Record Type: Journal Article
• Authors: Zhao, Hongying; Yin, Xiangzhe; Xu, Haotian; Liu, Kailai; Liu, Wangyang; Wang, Lixia; Zhang, Caiyu; Bo, Lin; Lan, Xicheng; Lin, Shihua; Feng, Ke; Ning, Shangwei; Zhang, Yunpeng; Wang, Li
• Is Part Of: Nucleic acids research. Volume 51:Issue D1(2023)
• Page Start: D199
• Page End: D207
• Publication Date: 2022-11-02
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkac984
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: An updated LncTarD 2.0 database provides a comprehensive resource on key lncRNA–target regulations, their influenced functions and lncRNA-mediated regulatory mechanisms in human diseases. LncTarD 2.0 is freely available at (http://bio-bigdata.hrbmu.edu.cn/LncTarD or https://lnctard.bio-database.com/ ). LncTarD 2.0 was updated with several new features, including (i) an increased number of disease-associated lncRNA entries, where the current release provides 8360 key lncRNA–target regulations, with 419 disease subtypes and 1355 lncRNAs; (ii) predicted 3312 out of 8360 lncRNA–target regulations as potential diagnostic or therapeutic biomarkers in circulating tumor cells (CTCs); (iii) addition of 536 new, experimentally supported lncRNA–target regulations that modulate properties of cancer stem cells; (iv) addition of an experimentally supported clinical application section of 2894 lncRNA–target regulations for potential clinical application. Importantly, LncTarD 2.0 provides RNA-seq/microarray and single-cell web tools for customizable analysis and visualization of lncRNA–target regulations in diseases. RNA-seq/microarray web tool was used to mining lncRNA–target regulations in both disease tissue samples and CTCs blood samples. The single-cell web tools provide single-cell lncRNA–target annotation from the perspectives of pan-cancer analysis and cancer-specific analysis at the single-cell level. LncTarD 2.0 will be a useful resource and mining tool for the investigation of the functions and mechanisms of lncRNA deregulation in human disease.