How to use lncRNA and miRNA interaction database LncBase
This article shows you how to use lncRNA and miRNA interaction database LncBase, the content is concise and easy to understand, absolutely can make your eyes bright, through the detailed introduction of this article, I hope you can get something.
Many literatures have reported that lncRNA can be used as miRNA sponge, thus interacting with miRNA. LncBase is a database dedicated to recording the interaction between lncRNA and miRNA, the latest version is v2, and the URL is as follows
Http://carolina.imis.athena-innovation.gr/diana_tools/web/index.php?r=lncbasev2%2Findex
The results are divided into two parts: experimental evidence support and software prediction, which are shown below.
The interaction data supported by the experimental evidence are mainly the results obtained from the literature, including qPCR, northern blot, reporter assay, CLIP-seq and other detection methods, and the software prediction is realized by DIANA-microT. Among them, the interaction data between lncRNA and miRNA predicted by the software can be downloaded free of charge, and the data supported by experimental evidence need to be applied to the development team.
Taking the interaction data supported by experimental evidence as an example, entering the names of miRNA and lncRNA in the search box can retrieve whether there is an interaction between the two.
The search results are as follows
Click the drop-down button on the right to view the details. The first is the basic information of lncRNA and miRNA, which is shown below
The second is the relevant literature, which is illustrated as follows
Not only the link to the literature is given, but also the tissue type and cell line information of the sample are given, which can be used to screen the results so as to avoid the problem of tissue specificity. Click the drop-down menu on the right of each article to view the specific information about the interaction between lncRNA and miRNA, as shown below
The chromosome location of the interaction region and the corresponding genome region are given, and the detection method is also given.
When many search results need to be filtered, you can filter them through the menu on the left side of the page, as shown below
Through this database, we can query the information about the interaction between lncRNA and miRNA, but online search can only retrieve several lncRNA or miRNA at a time, and we need to pay attention to the format of lncRNA id, which only supports the lncRNA id given in refseq Id,ensembl id and human body map projects.
The above is how to use lncRNA and miRNA interaction database LncBase. Have you learned any knowledge or skills? If you want to learn more skills or enrich your knowledge reserve, you are welcome to follow the industry information channel.
