Database Commons

a catalog of biological databases

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

Database information

Co-LncRNA

General information

Description: Co-LncRNA is a web-based computational tool that allows users to identify GO annotations and KEGG pathways that may be affected by co-expressed protein-coding genes of a single or multiple lncRNAs.
Year founded: 2015
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: Harbin Medical University
Address: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China
City: Harbin
Province/State:
Country/Region: China
Contact name (PI/Team): Xia Li
Contact email (PI/Helpdesk): lixia@hrbmu.edu.cn

Related Database

Record metadata

Created on: 2020-01-15
Curated by:
Lina Ma [2020-01-15]

Ranking

All databases:
1089/4549 (76.083%)
Gene genome and annotation:
348/1212 (71.37%)
Expression:
195/799 (75.72%)
Interaction:
169/671 (74.963%)
1089
Total Rank
30
Citations
6
z-index

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Publications

26363020
Co-LncRNA: investigating the lncRNA combinatorial effects in GO annotations and KEGG pathways based on human RNA-Seq data. [PMID: 26363020]
Zhao Z, Bai J, Wu A, Wang Y, Zhang J, Wang Z, Li Y, Xu J, Li X.

Long non-coding RNAs (lncRNAs) are emerging as key regulators of diverse biological processes and diseases. However, the combinatorial effects of these molecules in a specific biological function are poorly understood. Identifying co-expressed protein-coding genes of lncRNAs would provide ample insight into lncRNA functions. To facilitate such an effort, we have developed Co-LncRNA, which is a web-based computational tool that allows users to identify GO annotations and KEGG pathways that may be affected by co-expressed protein-coding genes of a single or multiple lncRNAs. LncRNA co-expressed protein-coding genes were first identified in publicly available human RNA-Seq datasets, including 241 datasets across 6560 total individuals representing 28 tissue types/cell lines. Then, the lncRNA combinatorial effects in a given GO annotations or KEGG pathways are taken into account by the simultaneous analysis of multiple lncRNAs in user-selected individual or multiple datasets, which is realized by enrichment analysis. In addition, this software provides a graphical overview of pathways that are modulated by lncRNAs, as well as a specific tool to display the relevant networks between lncRNAs and their co-expressed protein-coding genes. Co-LncRNA also supports users in uploading their own lncRNA and protein-coding gene expression profiles to investigate the lncRNA combinatorial effects. It will be continuously updated with more human RNA-Seq datasets on an annual basis. Taken together, Co-LncRNA provides a web-based application for investigating lncRNA combinatorial effects, which could shed light on their biological roles and could be a valuable resource for this community. Database URL: http://www.bio-bigdata.com/Co-LncRNA/.

Database (Oxford). 2015:2015() | 30 Citations (from Europe PMC, 2020-05-30)