Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

General information

URL: http://bioinformatics.xidian.edu.cn/
Full name: integrated platform for lncRNA subcellular localization
Description: lncSLdb is an integrated platform for lncRNA subcellular localization. We collects subcellular localization information of lncRNAs by manually curating the literatures.The current release contains subcellular location information of more than 11000 lncRNA transcripts or genes, mainly from 3 species (human, mouse, and fruitfly). Based on the accumulated region of lncRNAs, we classify transcripts into 3 basic localization types (nucleus, cytoplasm, and nucleus/cytoplasm).
Year founded: 2018
Last update:
Version:
Accessibility:
Manual:
Accessible
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Country/Region: China
Data type:
RNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Xidian University
Address: School of Computer Science and Technology, Xidian University. No. 2 South Taibai Road, Xi'an, Shaanxi, PRC
City: Xi'an
Province/State: Shanxi
Country/Region: China
Contact name (PI/Team): Gao Lin
Contact email (PI/Helpdesk): lgao@xidian.edu.cn

Publications

30219837
lncSLdb: a resource for long non-coding RNA subcellular localization. [PMID: 30219837]
Wen X, Gao L, Guo X, Li X, Huang X, Wang Y, Xu H, He R, Jia C, Liang F.

While long non-coding RNAs (lncRNAs) may play important roles in cellular function and biological process, we still know little about them. Growing evidences indicate that subcellular localization of lncRNAs may provide clues to their functionality. To facilitate researchers functionally characterize thousands of lncRNAs, we developed a database-driven application, lncSLdb, which stores and manages user-collected qualitative and quantitative subcellular localization information of lncRNAs from literature mining. The current release contains >11 000 transcripts from three species. Based on the accumulated region of lncRNAs, we classify transcripts into three basic localization types (nucleus, cytoplasm and nucleus/cytoplasm). In some conditions, the nucleus and cytoplasm types can be divided into three more accurate subtypes (chromosome, nucleoplasm and ribosome). Besides browsing and downloading data in lncSLdb, our system provides a set of comprehensive tools to search by gene symbols, genome coordinates or sequence similarity. We hope that lncSLdb will provide a convenient platform for researchers to investigate the functions and the molecular mechanisms of lncRNAs in the view of subcellular localization.

Database (Oxford). 2018:2018() | 3 Citations (from Europe PMC, 2021-05-01)

Ranking

All databases:
3754/5030 (25.388%)
Modification:
196/227 (14.097%)
Literature:
284/378 (25.132%)
3754
Total Rank
3
Citations
1
z-index

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Created on: 2021-04-28
Curated by:
Dong Zou [2021-04-28]