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A comprehensive overview of lncRNA annotation resources
Jinyuan Xu1, Jing Bai1, Xinxin Zhang1
1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.
Briefings in Bioinformatics
|March 6, 2016
Summary
This study reviews 24 long noncoding RNA (lncRNA) annotation resources, revealing significant differences in their properties. Integrating multiple lncRNA resources is crucial for a comprehensive understanding of their roles in human disease.
Area of Science:
- Genomics
- Molecular Biology
- Bioinformatics
Background:
- Long noncoding RNAs (lncRNAs) are key regulators in biological functions and diseases.
- Next-generation sequencing has identified numerous lncRNAs, creating many annotation resources.
- A comprehensive overview of existing lncRNA annotation resources is currently lacking.
Purpose of the Study:
- To conduct a comprehensive review and characterization of available lncRNA annotation resources.
- To identify distinct properties and variations among different lncRNA annotation datasets.
- To develop a centralized database for exploring and integrating lncRNA annotations.
Main Methods:
- Reviewed 24 lncRNA annotation resources covering over 205,000 lncRNAs.
- Characterized resources based on exon structure, expression, histone modification, and function.
- Developed the 'LNCat' database for visualization, comparison, and integration of lncRNA data.
Main Results:
- Annotation resources exhibit diverse properties, including chromatin signatures, tissue/cell-type specificity, and functional roles.
- Significant variations were observed across different lncRNA annotation datasets.
- Current annotations are incomplete and complementary, highlighting the need for integration.
Conclusions:
- Integration of multiple lncRNA annotation resources is essential for comprehensive characterization.
- The 'LNCat' database facilitates exploration, comparison, and integration of lncRNA annotations.
- This work aids in understanding lncRNA functions and their involvement in human diseases.
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