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For example, there are N metabolites in set A and n metabolites in set B, and there are m metabolites in set A and i metabolites in set B in a given KEGG human pathway.
Therefore, selecting only the subset of the genes annotated to KEGGs, a gene coexpression pair was considered a "true positive" when both genes of the pair were included in a common KEGG human pathway.
PID is a manually curated human pathway database contains 116 human pathways with 6180 interactions.
We selected all human pathways from the metabolism category.
Reactome is a curated resource for human pathway data related to biological processes which relies on information about single reactions grouped into pathways.
For example, if a metabolic pathway is present in both cattle and human, a gene involved in an enzymatic reaction in the human pathway is more likely present in cattle, and the cattle protein that has the highest sequence homology to the orthologous human protein is likely to mediate the reaction.
A concise description of the human pathway has been deposited by the authors of this article in the Reactome [ 12] knowledge base [ 13].
(15) recently carried out an assessment based on the available human pathway databases.
In other words, enforcement targets have created a human crisis; pathway promises have been missed.
Pathway analysis revealed seven significantly altered pathways in the WikiPathways human pathway collection.
We used the KEGG database [16] to build a set of human pathways and their corresponding known protein structures.
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