Improve Research Reproducibility A Bio-protocol resource
Concise Method
tooltip

Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathway Analysis

LK Lei Kan
QL Qicong Liao
ZC Zhipeng Chen
SW Shuyu Wang
YM Yifei Ma
ZS Zhiyao Su
LZ Lu Zhang
request Request a Protocol
ask Ask a question
Favorite

The Kyoto Encyclopedia of Genes and Genomes (KEGG, https://www.kegg.jp/kegg/) is the major public pathway-related database that links genomic or transcriptomic contents of genes to chemical structures of endogenous molecules (Kanehisa et al., 2008), thus providing a method to perform integration analysis of genes and metabolites. All the differentially expressed genes and metabolites in the study were mapped to the KEGG pathway database, and KOBAS 2.0 with hypergeometric tests was used to perform the KEGG enrichment analysis (Xie et al., 2011). The significance of KEGG pathway enrichment was determined with FDR q ≤ 0.05. Pathways meeting this condition were defined as significantly enriched in DEGs or DAMs.

Copyright and License information:  ©2021 Kan, Liao, Chen, Wang, Ma, Su and Zhang.
This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

Do you have any questions about this protocol?

Post your question to gather feedback from the community. We will also invite the authors of this article to respond.

0/150

tip Tips for asking effective questions

+ Description

Write a detailed description. Include all information that will help others answer your question including experimental processes, conditions, and relevant images.

post Post a Question
0 Q&A