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A platform for annotating and discovering small (microRNAs, siRNAs, piRNAs…), long ncRNAs (lncRNAs) and circular RNAs (circRNAs) from next generation sequencing data. deepBase v2.0 provides a set of useful tools to decode evolution and expression patterns of diverse ncRNAs across 19 species from 5 clades and to infer their functions. We provide accurate annotations of lncRNAs from RNA-seq experiments. By combining expression profiles of protein-coding genes and functional genomic annotations, we predict the function of lncRNAs from co-expression networks derived from RNA-Seq data. deepBase v2.0 also provided an integrative, interactive and versatile web graphical interface to display multidimensional data, and facilitate transcriptomic research and the discovery of novel ncRNAs.

Restrictions to use:
deepBase version 2.0
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  • Jian-Hua Yang <yangjh7 at mail.sysu.edu.cn>


Key Laboratory of Gene Engineering of the Ministry of Education, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510275, P.R. China

  • (Zheng et al., 2015) deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data. Nucleic acids research.
    PMID: 26590255
  • (Yang and Qu, 2012) DeepBase: annotation and discovery of microRNAs and other noncoding RNAs from deep-sequencing data. Methods in molecular biology.
    PMID: 22144203
  • (Yang et al., 2010) deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic acids research.
    PMID: 19966272
  • (Akhtar et al., 2016) Bioinformatic tools for microRNA dissection. Nucleic acids research.
    PMID: 26578605

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