Guo Zhiyun, Maki Miranda, Ding Ruofan, Yang Yalan, Zhang Bao, Xiong Lili
School of Life Sciences and Bioengineering, Southwest Jiaotong University, Chengdu, 610031, P.R. China.
Department of Biology, Lakehead University, Oliver Road, Thunder Bay, Ontario.
Sci Rep. 2014 Jun 3;4:5150. doi: 10.1038/srep05150.
Tissue-specific miRNAs (TS miRNA) specifically expressed in particular tissues play an important role in tissue identity, differentiation and function. However, transcription factor (TF) and TS miRNA regulatory networks across multiple tissues have not been systematically studied. Here, we manually extracted 116 TS miRNAs and systematically investigated the regulatory network of TF-TS miRNA in 12 human tissues. We identified 2,347 TF-TS miRNA regulatory relations and revealed that most TF binding sites tend to enrich close to the transcription start site of TS miRNAs. Furthermore, we found TS miRNAs were regulated widely by non-tissue specific TFs and the tissue-specific expression level of TF have a close relationship with TF-genes regulation. Finally, we describe TSmiR (http://bioeng.swjtu.edu.cn/TSmiR), a novel and web-searchable database that houses interaction maps of TF-TS miRNA in 12 tissues. Taken together, these observations provide a new suggestion to better understand the regulatory network and mechanisms of TF-TS miRNAs underlying different tissues.
在特定组织中特异性表达的组织特异性微小RNA（TS miRNA）在组织特性、分化和功能方面发挥着重要作用。然而，尚未对多个组织中的转录因子（TF）和TS miRNA调控网络进行系统研究。在此，我们手动提取了116个TS miRNA，并系统地研究了12种人体组织中TF-TS miRNA的调控网络。我们确定了2347个TF-TS miRNA调控关系，并揭示大多数TF结合位点倾向于在TS miRNA的转录起始位点附近富集。此外，我们发现TS miRNA受到非组织特异性TF的广泛调控，并且TF的组织特异性表达水平与TF-基因调控密切相关。最后，我们描述了TSmiR（http://bioeng.swjtu.edu.cn/TSmiR），这是一个新颖的、可通过网络搜索的数据库，其中包含12种组织中TF-TS miRNA的相互作用图谱。综上所述，这些观察结果为更好地理解不同组织中TF-TS miRNA的调控网络和机制提供了新的见解。
