Example Analysis of pathway Annotation Information download in KEGG Database
Editor to share with you the KEGG database pathway annotation information download example analysis, I believe that most people do not know much about it, so share this article for your reference, I hope you will learn a lot after reading this article, let's go to know it!
KEGG Database-pathway Annotation Information download
Earlier, we introduced the first two parts of the KEGG database download:
1. Download the protein sequence in KEGG
two。 Comments related to pathway corresponding to protein
With these two parts, we can annotate and analyze the amino acid sequences of different species. If you want to visually annotate the protein on pathway, you need to download the comment file that pathway wants. There are three main categories:
1. KGML file:
This file is a file that defines pathway, and by modifying it, you can change the metabolic pathway, such as color labeling the differentially expressed information of some genes. Access the API address:
Http://rest.kegg.jp/get/ko05130/kgml
Where ko05130 is the number of pathway in KEGG.
2. Conf file
Conf files are files that associate different proteins in the metabolic pathway, like an enzyme that corresponds to different protein numbers in different species.
API address accessed:
Http://rest.kegg.jp/get/ko05130/conf
Where ko05130 is the number of pathway in KEGG.
3. Image file
This file is the picture of the metabolic pathway that we see. API address accessed:
Http://rest.kegg.jp/get/ko05130/image
Where ko05130 is the number of pathway in KEGG.
Through these three files, we can make some visual customization of pathway, such as correlating different gene information, tagging gene up and down information, and so on.
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