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This article mainly shows you "what is the use of mirDIP database", the content is easy to understand, clear, hope to help you solve your doubts, the following let the editor lead you to study and learn "what is the use of mirDIP database" this article.

MiRNA target gene prediction is a necessary link to study the functional mechanism of miRNA. There are many related software and databases, but different software algorithms have their own advantages and disadvantages, and cross-retrieval between different databases is time-consuming and laborious, so an integrated database integrating multiple databases and software resources is needed. MirDIP is generated under this drive and integrates human-related target gene information in 30 source databases. The web address is as follows

Http://ophid.utoronto.ca/mirDIP/index.jsp

On the Statistics page, you can see the detailed source database and the corresponding data volume information, as shown below

As you can see, after removing the redundancy, it contains a total of 27667 genes, 2586 miRNA, about 1.52 million pieces of miRNA-target gene information.

MirDIP not only does a simple data collation and de-redundancy work, but also normalizes the target gene information from multiple databases. All the target genes are arranged from high to low according to the credibility, and normalized to the range from 0 to 1. 0 represents the highest credibility, 1 represents the worst, and then uses the normalized values in each database to give a total score. The formula is as follows

The product of 1 minus the normalized values in each database is divided into four ranges according to the score values corresponding to the target genes, as shown below

Sorted by score from largest to smallest, the first 1% is called Very High, followed by High, Medium, and Low.

The official website provides the following three retrieval methods, which can be selected flexibly.

1. Undirectional search

This method directly retrieves the non-redundant data sets sorted out in mirDIP, which can be retrieved according to miRNA ID or gene symbol. The retrieval results are shown below.

2. Bidirectional search

In this way, results can be filtered based on a specific source database, as shown below

3. MiRNA-gene matrix

This method displays the results of multiple miRNA or gene target genes in the form of matrix, as shown below

The number of miRNA in common is given in the last column, which can be used to analyze target genes shared by multiple miRNA.

The search results can be downloaded. In the toolbar below the search box, you can choose the download format, which supports both CSV and TAB formats, as shown below

The database can be downloaded free of charge, and provides an API service, which makes it easy to obtain data.

This database provides a good reference for the integration of miRNA target gene data, and the same idea can be used to organize the target gene database of common species such as mice, rats and so on.

The above is all the contents of the article "what is the use of mirDIP database". Thank you for reading! I believe we all have a certain understanding, hope to share the content to help you, if you want to learn more knowledge, welcome to follow the industry information channel!

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