miRNA与mRNA结合预测 - 卖萌控的博客

miRNA是非编码调控小分子，通过抑制基因表达发挥作用，前体pri-miRNA、pre-miRNA通过核内的drosa酶作用，由核孔复合体进入至胞浆中，在通过Dicer酶的剪切，形成成熟的miRNA,AGO2可介导miRNA结合至mRNA的3’UTR，进而对基因的表达进行抑制，可在mRNA、蛋白水平发生降解作用

我们对数据的整理，通过数据库查询分类、数据库功能及用途、示例结合分析、数据库优化等这四大项，进行阐述和演示数据库的查询和使用，希望对您的实验项目有所帮助

数据库查询分类

① microRNA.org：http://www.microrna.org/microrna/home.do

② TargetScan：http://www.targetscan.org/vert_70/

③ starbase: http://starbase.sysu.edu.cn/

④ Tarbase: http://www.tarbase.com/

⑤ deepBase： http://deepbase.sysu.edu.cn/

⑥ miRanda： http://www.microrna.org/microrna/home.do

⑦ RNAhybrid：https://bibiserv.cebitec.uni-bielefeld.de/

⑧ CoGeMiR：http://cogemir.tigem.it/

数据库功能及用途（常用数据库）

1. microRNA.org：

Predicted microRNA targets & target downregulation scores. Experimentally observed expression patterns

数据库功能：

1. mirSVR predicted target site scoring method: Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites

2. microRNA target predictions: The microRNA.org resource: targets and expression.

3. miRanda application: Human MicroRNA targets.

4. miRanda algorithm: MicroRNA targets in Drosophila.

2. TargetScan：

Search for predicted microRNA targets in mammals

数据库功能：

Search for predicted microRNA targets in mammals

3. starbase：

CLIP-Seq, Pan-Cancer. Portal, Visualize, Analyze, Discover.

数据库功能：

1. starBase is designed for decoding Pan-Cancer and Interaction Networks of lncRNAs, miRNAs, competing endogenous RNAs(ceRNAs), RNA-binding proteins (RBPs) and mRNAs from large-scale CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) data and tumor samples (14 cancer types, >6000 samples).

2. starBase is also developed for deciphering Protein-RNA and miRNA-target interactions, such as protein-lncRNA, protein-sncRNA, protein-mRNA, protein-pseudogene, miRNA-lncRNA, miRNA-mRNA, miRNA-circRNA, miRNA-pseudogene, miRNA-sncRNA interactions and ceRNA networks from 108 CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) datasets.

3. starBase provides miRFunction and ceRNAFunction web tools to predict the function of ncRNAs (miRNAs, lncRNAs, pseduogenes) and protein-coding genes from the miRNA-mediated (ceRNA) regulatory networks

示例结合分析：

microRNA.org:

预测已知mRNA结合的miRNA:以H19为例

1. 打开主页面

2. 点击“target mRNA”，对话框输入h19，选择种属

3. 点击“GO”，即可获取得到预测结合的miRNA