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Nucleic acids research
01 08, 2021;49 (D1): D962-D968.

LncExpDB: an expression database of human long non-coding RNAs.

Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jingfa Xiao, Zhang Zhang, Lina Ma
Author Information
  1. Zhao Li: China National Center for Bioinformation, Beijing 100101, China.
  2. Lin Liu: China National Center for Bioinformation, Beijing 100101, China.
  3. Shuai Jiang: China National Center for Bioinformation, Beijing 100101, China.
  4. Qianpeng Li: China National Center for Bioinformation, Beijing 100101, China.
  5. Changrui Feng: China National Center for Bioinformation, Beijing 100101, China.
  6. Qiang Du: China National Center for Bioinformation, Beijing 100101, China.
  7. Dong Zou: China National Center for Bioinformation, Beijing 100101, China.
  8. Jingfa Xiao: China National Center for Bioinformation, Beijing 100101, China.
  9. Zhang Zhang: China National Center for Bioinformation, Beijing 100101, China.
  10. Lina Ma: China National Center for Bioinformation, Beijing 100101, China.
PMID: 33045751 DOI: 10.1093/nar/gkaa850

Abstract

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.

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MeSH Term

Computational Biology
Data Curation
Data Mining
Databases, Nucleic Acid
Gene Expression Profiling
Gene Expression Regulation
Humans
Internet
Molecular Sequence Annotation
RNA, Long Noncoding

Chemicals

RNA, Long Noncoding
Journal Article Research Support, Non-U.S. Gov't

Links to CNCB-NGDC Resources

Database Commons: DBC006941 (LncExpDB)

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