miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database
By Chih-Hung Chou, Nai-Wen Chang, S. Shrestha, Sheng-Da Hsu, Yu-Ling Lin, Wei-Hsiang Lee, Chi-Dung Yang, Hsiao-Chin Hong, Ting-Yen Wei, Siang-Jyun Tu and 17 more. Nucleic Acids Res., 2015
1,064 citations recorded by the source corpus.
MicroRNAs (miRNAs) are small non-coding RNAs of approximately 22 nucleotides, which negatively regulate the gene expression at the post-transcriptional level. This study describes an update of the miRTarBase (http://miRTarBase.mbc.nctu.edu.tw/) that provides information about experimentally validated miRNA-target interactions (MTIs). The latest update of the miRTarBase expanded it to identify systematically Argonaute-miRNA-RNA interactions from 138 crosslinking and immunoprecipitation sequencing (CLIP-seq) data sets that were generated by 21 independent studies. The database contains 4966 articles, 7439 strongly validated MTIs (using reporter assays or western blots) and 348 007 MTIs from CLIP-seq. The number of MTIs in the miRTarBase has increased around 7-fold since the 2014 miRTarBase update. The miRNA and gene expression profiles from The Cancer Genome Atlas (TCGA) are integrated to provide an effective overview of this exponential growth in the miRNA experimental data. These improvements make the miRTarBase one of the more comprehensively annotated, experimentally validated miRNA-target interactions databases and motivate additional miRNA research efforts.
Subfields: Cancer Research, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/2a2cf15cc68628128bbcaeabb6c9cdf8a12c8e59
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In Cancer Research
- Zhuhong You
- Di Xie
- Qi Zhao
- Maria D. Paraskevopoulou
- Theodore Dalamagas
- Ioannis S. Vlachos
- Thanasis Vergoulis
- Xing Chen
In Molecular Biology
- Zhuhong You
- Di Xie
- Qi Zhao
- Maria D. Paraskevopoulou
- Theodore Dalamagas
- Ioannis S. Vlachos
- Thanasis Vergoulis
- Xing Chen
Citations in the corpus
- DIANA-TarBase v8: a decade-long collection of experimentally supported miRNA–gene interactions (2017, background): “miRTarBase (11) constitutes an extensive repository, integrating ∼350 000 miRNA targets supported from low-/high-throughput experiments for several species.”
- MicroRNAs and complex diseases: from experimental results to computational models (2019, positive): “tw/) [171] Accumulating evidence shows that miRNAs play crucial important roles in disease pathology by regulating key oncogenes, tumor suppressors or protein expression and subsequently controlling cell mechanisms.”