RiceNCexp : a rice non-coding RNA co-expression atlas based on massive RNA-seq and small-RNA seq data

Bibliographische Detailangaben
Veröffentlicht in:	Journal of experimental botany. - 1985. - 73(2022), 18 vom: 18. Okt., Seite 6068-6077
1. Verfasser:	Zhang, Baoyi (VerfasserIn)
Weitere Verfasser:	Fei, Yuhan, Feng, Jiejie, Zhu, Xueai, Wang, Rui, Xiao, Hanqing, Zhang, Hongsheng, Huang, Ji
Format:	Online-Aufsatz
Sprache:	English
Veröffentlicht:	2022
Zugriff auf das übergeordnete Werk:	Journal of experimental botany
Schlagworte:	Journal Article Research Support, Non-U.S. Gov't Co-expression RNA-seq database non-coding RNA rice sRNA-seq RNA, Long Noncoding RNA, Untranslated MicroRNAs

Beschreibung
Zusammenfassung:	© The Author(s) 2022. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissionsoup.com. Non-coding RNAs (ncRNAs) play important roles in regulating expression of protein-coding genes. Although gene expression databases have emerged in a timely manner, a comprehensive expression database for ncRNAs is still lacking. Herein, we constructed a rice ncRNA co-expression atlas (RiceNCexp), based on 491 RNA-seq and 274 small RNA (sRNA)-seq datasets. RiceNCexp hosts four types of ncRNAs, namely lncRNAs, PHAS genes, miRNAs, and phasiRNAs. RiceNCexp provides comprehensive expression information for rice ncRNAs in 22 tissues/organs, an efficient tau-based mining tool for tissue-specific ncRNAs, and the robust co-expression analysis among ncRNAs or between ncRNAs and protein-coding genes, based on 116 pairs of RNA-seq and sRNA-seq libraries from the same experiments. In summary, RiceNCexp is a user-friendly and comprehensive rice ncRNA co-expression atlas and can be freely accessed at https://cbi.njau.edu.cn/RiceNCexp/
Beschreibung:	Date Completed 20.10.2022 Date Revised 21.10.2022 published: Print Citation Status MEDLINE
ISSN:	1460-2431
DOI:	10.1093/jxb/erac285