How to understand mirbase database
How to understand mirbase database, I believe that many inexperienced people are helpless about this, this article summarizes the causes and solutions of the problem, through this article I hope you can solve this problem.
miRbase is an online miRNA database developed by researchers at the University of Manchester. The database contains information from more than 200 species and nearly 40,000 miRNAs. It is the most comprehensive miRNA database.
http://www.mirbase.org/index.shtml
We can easily retrieve and browse the information in this database. Take human as an example. In the Browse menu, we can retrieve all miRNA precursors of hman, as shown below.
ID stands for the name of miRNA precursor, Accessibility stands for miRNA precursor number;RPM stands for Reads per million mapped, representing miRNA precursor expression quantity;Chromosome, start,end,strand stands for miRNA precursor chromosome position information, Confidence`stands for confidence.
Take hsa-let-7a-1 as an example, click on this link to view detailed information. On the details page, you can get the corresponding gene, sequence, stem loop structure and other information of this miRNA precursor.
Two mature miRNA sequences generated by this miRNA precursor and the corresponding target database can also be seen, as shown below.
miRNA target annotations can be divided into two broad categories
1. validated targets
The target results of experimental verification, corresponding database is as follows
MIRTARBASE
TARBASE
2. predicted targets
The results of software prediction, corresponding to the database as follows
DIANA-MICROT
MICRORNA.ORG
MIRDB
RNA22-HSA
TARGETMINER
The database is free to download, ftp address is as follows
ftp://mirbase.org/pub/mirbase/CURRENT/
mirbase database can also assign names to newly discovered miRNAs, preferably submitting your novel miRNA sequence online in the following format
Your new miRNA will then be named in an email format that follows the miRNA naming convention.
After reading the above, do you know how to understand mirbase database? If you still want to learn more skills or want to know more related content, welcome to pay attention to the industry information channel, thank you for reading!
