Shulou(Shulou.com)06/01 Report--

This article mainly shows you "what is the use of MINT 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 MINT database" this article.

MINT, whose full name is molecular interaction Database, is a database of protein-protein interactions. All the protein-protein interactions in this database are supported by experimental evidence reviewed by experts. At present, the database covers 117001 protein-protein interactions in 607 species. The web address is as follows

Https://mint.bio.uniroma2.it/

At present, the data in this database has been integrated into the intact database, so the download function is only available on the official website, as shown below

You can download all the contents of the entire database at once, or you can download only the data of common species. The downloaded file format is called MITAB format, which is a\ t-delimited plain text file specifically used to describe the interaction between two proteins.

For protein An and protein B, if there is an interaction between protein An and protein B, it is said that there is an interaction, and protein An and B are called interactors. In the MITAB format file, in addition to recording interaction, many attributes of interactors are also recorded. The file has a large number of columns. The first 15 columns of information are described below.

1. Column1

The information recorded in the first column is Unique identifier for interactor A, which represents the unique identifier of protein A. in the MINT database, the protein number in the uniprot database is used, such as uniprotkb:Q4ZGA4

2. Column2

The information recorded in the second column is Unique identifier for interactor B, which is similar to that in the first column and is used to record the unique identifier of protein B.

3. Column3

The information recorded in the third column is Alternative identifier for interactor A, which represents other identifiers of protein A, such as protein number intact:EBI-9675545 in intact database, protein number intact:MINT-1525738 in MINT database, or aliases in uniprot database, such as uniprotkb:A0SDZ7. Multiple identifiers are connected with |

4. Column4

The fourth column records the information Alternative identifier for interactor B, which is similar to the third column and is used to record other identifiers of protein B.

5. Column5

The information recorded in the fifth column is Aliases for A, which represents the names in other databases in the format of databaseName:name (alias type), such as the corresponding gene name uniprotkb:HBZ (gene name), which is used by multiple individual names | connection

6. Column6

The sixth column records the information Aliases for B, which is similar to the fifth column and is used to record the alias of protein B.

7. Column7

The seventh column records the information as Interaction detection methods, which represents the method of protein-protein interaction detection in the format of databaseName:identifier (methodName), such as psi-mi: "MI:0096" (pull down).

8. Column8

The information recorded in the eighth column is First author, which represents the first author of the literature recording the interaction between the protein

9. Column9

The information recorded in column 9 is Identifier of the publication, which represents the identifier of the corresponding document, such as pubmed:22458338

10. Column10

The information recorded in the tenth column is NCBI Taxonomy identifier for interactor A, which represents the taxid of the corresponding species of protein A, for example, human is taxid:9606 (human) | taxid:9606 (Homo sapiens)

11. Column11

The eleventh column records the information NCBI Taxonomy identifier for interactor B, which is similar to the tenth column, and is used to record the species corresponding to protein B.

12. Column12

The information recorded in column 12 is Interaction types, which represents the type of interaction in the format dataBaseName:identifier (interactionType), such as psi-mi: "MI:0915" (physical association)

13. Column13

The information recorded in column 13 is Source databases, which represents the database of the source of the interaction, such as psi-mi: "MI:0471" (MINT)

14. Column14

The information recorded in the fourteenth column is Interaction identifiers, which represents the identifier of the interaction, such as the identifier intact:EBI-7355797 in the intac database, the identifier mint:MINT-68665 in the MINT database, and the identifier in multiple databases using | connection.

15. Column15

The information recorded in the fifteenth column is Confidence score, which represents the score of the interaction result, such as intact-miscore:0.52. The intensity of different experimental evidence is different, and the reliability of the interaction is measured by scoring.

In addition, this file can also contain a lot of other column information, the specific explanation can refer to the following link

Https://psicquic.github.io/MITAB28Format.html

The study of protein-protein interactions is very important, so there is a special team to study and develop a specific file format on how to express and store information about protein-protein interactions. it also defines the proper nouns corresponding to various identification methods and interaction types. For more information, please see the link below.

Https://www.ebi.ac.uk/ols/ontologies/mi

The above is all the contents of the article "what is the use of MINT 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!

Welcome to subscribe "Shulou Technology Information " to get latest news, interesting things and hot topics in the IT industry, and controls the hottest and latest Internet news, technology news and IT industry trends.