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What is the use of TarBase database

2025-01-29 Update From: SLTechnology News&Howtos shulou NAV: SLTechnology News&Howtos > Internet Technology >

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This article mainly introduces the use of the TarBase database, has a certain reference value, interested friends can refer to, I hope you can learn a lot after reading this article, the following let the editor take you to understand it.

TarBase is a miRNA target gene database supported by experimental evidence. The latest version is v8. It has been collected and collated for about 10 years.

Http://carolina.imis.athena-innovation.gr/diana_tools/web/index.php?r=tarbasev8%2Findex

The database contains miRNA target gene information of several species, and the related information of each species is summarized as follows.

It can be seen that the target gene information of humans and mice accounts for more than 90%.

For each target gene, the relevant literature, organization type, test method and other data are given. The amount of data of each information in the database is summarized as follows.

The database can be retrieved through the search box shown below

You can output both miRNA and gene, or you can enter only one of them for retrieval. The miRNA name entered needs to match the format of the miRNA name in the mirBase database. For gene, both gene symbol and ensembl gene ID formats are supported.

Search results can be divided into the following three levels

1. Target info

The first level is the miRNA target gene information. Each line represents the interaction between a miRNA and the target gene, as shown below.

For each target gene, a corresponding method is given to support the evidence. Low represents some traditional experimental methods, low flux, and high represents the results of high-throughput sequencing.

2. Methods

There is a drop-down arrow at the end of each line, and after clicking on it, the result of the second level is shown below

3. Binding sites

After the drop-down list at the second level is expanded, you can see the specific binding area information, as shown below

Filtering is also provided on the left side of the page, as shown below

At present, the database only provides the retrieval function, if you want to download the corresponding content, you need to apply to the development team.

In TarBase, the experimental evidence is divided into low and high. Low represents the traditional experimental methods. Compared with the analysis results of high-throughput sequencing, this result is more reliable. We can get a high-quality miRNA target gene data set by screening the miRNA target gene information supported by low method.

Thank you for reading this article carefully. I hope the article "what's the use of TarBase database" shared by the editor will be helpful to you? at the same time, I also hope you will support us and pay attention to the industry information channel. More related knowledge is waiting for you to learn!

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