Database Commons

a catalog of biological databases

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

Database Profile

General information

URL: https://bigd.big.ac.cn/lncexpdb/
Full name: Expression Database of Human Long non-coding RNAs
Description: a comprehensive database for lncRNA expression. It covers expression profiles of lncRNA genes across various biological contexts, predicts potential functional lncRNAs and their interacting partners, and thus provides essential guidance on experimental design.
Year founded: 2020
Last update: 2020-09
Version: v1
Accessibility:
Manual:
Accessible
Real time : Checking...
Country/Region: China
Data type:
DNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address: National Genomics Data Center China National Center for Bioinformation / Beijing Institute of Genomics, Chinese Academy of Sciences No.1 Beichen West Road, Chaoyang District, Beijing 100101, China
City: Beijing
Province/State: Beijing
Country/Region: China
Contact name (PI/Team): The LncExpDB Team
Contact email (PI/Helpdesk): lncwiki@big.ac.cn

Publications

33045751
LncExpDB: an expression database of human long non-coding RNAs. [PMID: 33045751]
Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jingfa Xiao, Zhang Zhang, Lina Ma

Expression profiles of long non-coding RNAs (lncRNAs) across diverse biological conditions provide significant insights into their biological functions, interacting targets as well as transcriptional reliability. However, there lacks a comprehensive resource that systematically characterizes the expression landscape of human lncRNAs by integrating their expression profiles across a wide range of biological conditions. Here, we present LncExpDB (https://bigd.big.ac.cn/lncexpdb), an expression database of human lncRNAs that is devoted to providing comprehensive expression profiles of lncRNA genes, exploring their expression features and capacities, identifying featured genes with potentially important functions, and building interactions with protein-coding genes across various biological contexts/conditions. Based on comprehensive integration and stringent curation, LncExpDB currently houses expression profiles of 101 293 high-quality human lncRNA genes derived from 1977 samples of 337 biological conditions across nine biological contexts. Consequently, LncExpDB estimates lncRNA genes' expression reliability and capacities, identifies 25 191 featured genes, and further obtains 28 443 865 lncRNA-mRNA interactions. Moreover, user-friendly web interfaces enable interactive visualization of expression profiles across various conditions and easy exploration of featured lncRNAs and their interacting partners in specific contexts. Collectively, LncExpDB features comprehensive integration and curation of lncRNA expression profiles and thus will serve as a fundamental resource for functional studies on human lncRNAs.

Nucleic Acids Res. 2020:() | 3 Citations (from Europe PMC, 2021-05-15)
33175170
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. [PMID: 33175170]
CNCB-NGDC Members and Partners .

The National Genomics Data Center (NGDC), part of the China National Center for Bioinformation (CNCB), provides a suite of database resources to support worldwide research activities in both academia and industry. With the explosive growth of multi-omics data, CNCB-NGDC is continually expanding, updating and enriching its core database resources through big data deposition, integration and translation. In the past year, considerable efforts have been devoted to 2019nCoVR, a newly established resource providing a global landscape of SARS-CoV-2 genomic sequences, variants, and haplotypes, as well as Aging Atlas, BrainBase, GTDB (Glycosyltransferases Database), LncExpDB, and TransCirc (Translation potential for circular RNAs). Meanwhile, a series of resources have been updated and improved, including BioProject, BioSample, GWH (Genome Warehouse), GVM (Genome Variation Map), GEN (Gene Expression Nebulas) as well as several biodiversity and plant resources. Particularly, BIG Search, a scalable, one-stop, cross-database search engine, has been significantly updated by providing easy access to a large number of internal and external biological resources from CNCB-NGDC, our partners, EBI and NCBI. All of these resources along with their services are publicly accessible at https://bigd.big.ac.cn.

Nucleic Acids Res. 2020:() | 9 Citations (from Europe PMC, 2021-05-15)

Ranking

All databases:
693/5039 (86.267%)
Expression:
117/915 (87.322%)
Modification:
28/227 (88.106%)
693
Total Rank
12
Citations
12
z-index

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Record metadata

Created on: 2020-09-06
Curated by:
Zhao Li [2020-11-25]
Xiaonan Liu [2020-11-24]
Dong Zou [2020-09-06]