TY - JOUR
T1 - MiRTarBase update 2022
T2 - An informative resource for experimentally validated miRNA-target interactions
AU - Huang, Hsi Yuan
AU - Lin, Yang Chi Dung
AU - Cui, Shidong
AU - Huang, Yixian
AU - Tang, Yun
AU - Xu, Jiatong
AU - Bao, Jiayang
AU - Li, Yulin
AU - Wen, Jia
AU - Zuo, Huali
AU - Wang, Weijuan
AU - Li, Jing
AU - Ni, Jie
AU - Ruan, Yini
AU - Li, Liping
AU - Chen, Yidan
AU - Xie, Yueyang
AU - Zhu, Zihao
AU - Cai, Xiaoxuan
AU - Chen, Xinyi
AU - Yao, Lantian
AU - Chen, Yigang
AU - Luo, Yijun
AU - Luxu, Shupeng
AU - Luo, Mengqi
AU - Chiu, Chih Min
AU - Ma, Kun
AU - Zhu, Lizhe
AU - Cheng, Gui Juan
AU - Bai, Chen
AU - Chiang, Ying Chih
AU - Wang, Liping
AU - Wei, Fengxiang
AU - Lee, Tzong Yi
AU - Huang, Hsien Da
N1 - Publisher Copyright:
© 2022 The Author(s). Published by Oxford University Press on behalf of Nucleic Acids Research.
PY - 2022/1/7
Y1 - 2022/1/7
N2 - MicroRNAs (miRNAs) are noncoding RNAs with 18-26 nucleotides; they pair with target mRNAs to regulate gene expression and produce significant changes in various physiological and pathological processes. In recent years, the interaction between miRNAs and their target genes has become one of the mainstream directions for drug development. As a large-scale biological database that mainly provides miRNA-target interactions (MTIs) verified by biological experiments, miRTarBase has undergone five revisions and enhancements. The database has accumulated >2 200 449 verified MTIs from 13 389 manually curated articles and CLIP-seq data. An optimized scoring system is adopted to enhance this update's critical recognition of MTI-related articles and corresponding disease information. In addition, single-nucleotide polymorphisms and disease-related variants related to the binding efficiency of miRNA and target were characterized in miRNAs and gene 3′ untranslated regions. miRNA expression profiles across extracellular vesicles, blood and different tissues, including exosomal miRNAs and tissue-specific miRNAs, were integrated to explore miRNA functions and biomarkers. For the user interface, we have classified attributes, including RNA expression, specific interaction, protein expression and biological function, for various validation experiments related to the role of miRNA. We also used seed sequence information to evaluate the binding sites of miRNA. In summary, these enhancements render miRTarBase as one of the most research-amicable MTI databases that contain comprehensive and experimentally verified annotations. The newly updated version of miRTarBase is now available at https://miRTarBase.cuhk.edu.cn/.
AB - MicroRNAs (miRNAs) are noncoding RNAs with 18-26 nucleotides; they pair with target mRNAs to regulate gene expression and produce significant changes in various physiological and pathological processes. In recent years, the interaction between miRNAs and their target genes has become one of the mainstream directions for drug development. As a large-scale biological database that mainly provides miRNA-target interactions (MTIs) verified by biological experiments, miRTarBase has undergone five revisions and enhancements. The database has accumulated >2 200 449 verified MTIs from 13 389 manually curated articles and CLIP-seq data. An optimized scoring system is adopted to enhance this update's critical recognition of MTI-related articles and corresponding disease information. In addition, single-nucleotide polymorphisms and disease-related variants related to the binding efficiency of miRNA and target were characterized in miRNAs and gene 3′ untranslated regions. miRNA expression profiles across extracellular vesicles, blood and different tissues, including exosomal miRNAs and tissue-specific miRNAs, were integrated to explore miRNA functions and biomarkers. For the user interface, we have classified attributes, including RNA expression, specific interaction, protein expression and biological function, for various validation experiments related to the role of miRNA. We also used seed sequence information to evaluate the binding sites of miRNA. In summary, these enhancements render miRTarBase as one of the most research-amicable MTI databases that contain comprehensive and experimentally verified annotations. The newly updated version of miRTarBase is now available at https://miRTarBase.cuhk.edu.cn/.
UR - http://www.scopus.com/inward/record.url?scp=85123389461&partnerID=8YFLogxK
U2 - 10.1093/nar/gkab1079
DO - 10.1093/nar/gkab1079
M3 - Article
C2 - 34850920
AN - SCOPUS:85123389461
SN - 0305-1048
VL - 50
SP - D222-D230
JO - Nucleic acids research
JF - Nucleic acids research
IS - D1
ER -