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NPInter v5.0: ncRNA interaction database in a new era

文献类型：期刊论文

作者Zheng, Yu3,4; Luo, Huaxia4; Teng, Xueyi4; Hao, Xinpei2,4; Yan, Xiaoyu2,4; Tang, Yiheng4; Zhang, Wanyu4; Wang, Yuanxin2,4; Zhang, Peng4; Li, Yanyan4
刊名NUCLEIC ACIDS RESEARCH
出版日期2022-11-14
页码8
ISSN号0305-1048
DOI10.1093/nar/gkac1002
英文摘要Noncoding RNAs (ncRNAs) play key regulatory roles in biological processes by interacting with other biomolecules. With the development of high-throughput sequencing and experimental technologies, extensive ncRNA interactions have been accumulated. Therefore, we updated the NPInter database to a fifth version to document these interactions. ncRNA interaction entries were doubled from 1 100 618 to 2 596 695 by manual literature mining and high-throughput data processing. We integrated global RNA-DNA interactions from iMARGI, ChAR-seq and GRID-seq, greatly expanding the number of RNA-DNA interactions (from 888 915 to 8 329 382). In addition, we collected different types of RNA interaction between SARS-CoV-2 virus and its host from recently published studies. Long noncoding RNA (lncRNA) expression specificity in different cell types from tumor single cell RNA-seq (scRNA-seq) data were also integrated to provide a cell-type level view of interactions. A new module named RBP was built to display the interactions of RNA-binding proteins with annotations of localization, binding domains and functions. In conclusion, NPInter v5.0 (http://bigdata.ibp.ac.cn/npinter5/) provides informative and valuable ncRNA interactions for biological researchers.
资助项目Center for Big Data Research in Health, Institute of Biophysics, Chinese Academy of Sciences
WOS研究方向Biochemistry & Molecular Biology
语种英语
出版者OXFORD UNIV PRESS
WOS记录号WOS:000886006100001
源URL[http://119.78.100.204/handle/2XEOYT63/19829]  
专题中国科学院计算技术研究所期刊论文
通讯作者Chen, Runsheng; He, Shunmin
作者单位1.Chinese Acad Sci, Inst Comp Technol, Adv Comp Res Ctr, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
3.Univ Chinese Acad Sci, Coll Life Sci, Beijing 100049, Peoples R China
4.Chinese Acad Sci, Inst Biophys, Ctr Big Data Res Hlth, Key Lab RNA Biol, Beijing 100101, Peoples R China
推荐引用方式
GB/T 7714		 Zheng, Yu,Luo, Huaxia,Teng, Xueyi,et al. NPInter v5.0: ncRNA interaction database in a new era[J]. NUCLEIC ACIDS RESEARCH,2022:8.
APA Zheng, Yu.,Luo, Huaxia.,Teng, Xueyi.,Hao, Xinpei.,Yan, Xiaoyu.,...&He, Shunmin.(2022).NPInter v5.0: ncRNA interaction database in a new era.NUCLEIC ACIDS RESEARCH,8.
MLA Zheng, Yu,et al."NPInter v5.0: ncRNA interaction database in a new era".NUCLEIC ACIDS RESEARCH (2022):8.

入库方式： OAI收割

来源：计算技术研究所

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