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Plant Long Non-Coding RNAs pp 431–437Cite as

Experimentally Validated Plant lncRNAs in EVLncRNAs Database

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1933))

Abstract

Plant long noncoding RNAs (lncRNAs) play important functional roles in various biological processes. Most databases deposit all plant lncRNA candidates produced by high-throughput experimental and/or computational techniques. There are several databases for experimentally validated lncRNAs. However, these databases are small in scale (with a few hundreds of lncRNAs only) and specific in their focuses (plants, diseases, or interactions). Thus, we established EVLncRNAs by curating lncRNAs validated by low-throughput experiments (up to May 1, 2016) and integrating specific databases (lncRNAdb, LncRANDisease, Lnc2Cancer, and PLNIncRBase) with additional functional and disease-specific information not covered previously. The current version of EVLncRNAs contains 1543 lncRNAs from 77 species, including 428 plant lncRNAs from 44 plant species. Compared to PLNIncRBase, our dataset does not contain any lncRNAs from microarray and deep sequencing. Moreover, 40% of entries contain new information (interaction and additional information from NCBI and Ensembl). The database allows users to browse, search, and download as well as to submit experimentally validated lncRNAs. The database is available at http://biophy.dzu.edu.cn/EVLncRNAs.

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Acknowledgments

The National Natural Science Foundation of China [61671107, 61271378], Taishan Scholars Program of Shandong province of China [Tshw201502045], National Health and Medical Research Council [1059775, 1083450 to Y.Z.], National Health and Medical Research Council Early Career Fellowship [1091816 to H.Z.], Projects of Science and Technology for Colleges and Universities in Shandong Province [J15LE09 to F.S.], Taishan Young Scholars Program of Shandong province of China [tsqn20161049 to F.S.], and Talent Introduction Project of Dezhou University of China [320111 to B.Z.].

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Author notes

  1. Bailing Zhou and Huiying Zhao contributed equally to this work.

Authors and Affiliations

  1. Shandong Provincial Key Laboratory of Biophysics, Institute of Biophysics, Dezhou University, Dezhou, China

    Bailing Zhou, Jiafeng Yu, Chengang Guo, Xianghua Dou, Feng Song, Guodong Hu, Zanxia Cao, Yaoqi Zhou & Jihua Wang

  2. College of Physics and Electronic Information, Dezhou University, Dezhou, China

    Bailing Zhou, Jiafeng Yu, Chengang Guo, Xianghua Dou, Feng Song, Guodong Hu, Zanxia Cao & Jihua Wang

  3. Sun Yat-sen Memorial Hospital, Sun Yat-sen University, Guangzhou, China

    Huiying Zhao

  4. Department of Surgery Beijing Tiantan Hospital, Capital Medical University, Beijing, China

    Yuanxu Qu

  5. School of Data and Computer Science, Sun Yat-sen University, Guangzhou, China

    Yuedong Yang

  6. Institute for Glycomics and School of Information and Communication Technology, Griffith University, Gold Coast, QLD, Australia

    Yaoqi Zhou

Authors
  1. Bailing Zhou
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  2. Huiying Zhao
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  3. Jiafeng Yu
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  4. Chengang Guo
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  5. Xianghua Dou
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  6. Feng Song
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  7. Guodong Hu
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  8. Zanxia Cao
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  9. Yuanxu Qu
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  10. Yuedong Yang
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  11. Yaoqi Zhou
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  12. Jihua Wang
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Corresponding author

Correspondence to Yaoqi Zhou .

Editor information

Editors and Affiliations

  1. Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, Guangxi, China

    Julia A. Chekanova  & Hsiao-Lin V. Wang  & 

  2. Department of Biology, Emory University, Atlanta, Georgia, USA

    Hsiao-Lin V. Wang

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About this protocol

Cite this protocol

Zhou, B. et al. (2019). Experimentally Validated Plant lncRNAs in EVLncRNAs Database. In: Chekanova, J.A., Wang, HL.V. (eds) Plant Long Non-Coding RNAs. Methods in Molecular Biology, vol 1933. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-9045-0_27

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  • DOI: https://doi.org/10.1007/978-1-4939-9045-0_27

  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-9044-3

  • Online ISBN: 978-1-4939-9045-0

  • eBook Packages: Springer Protocols

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