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  • KEGG database questions

    Hello, I have some basic questions about KEGG database. As far as I know, they have three types of classification: KO functions, KEGG Pathway Categories (KO), KEGG Pathways (KO, KEGG Orthology). They also have KEGG Pathway Categories (EC), KEGG Pathways (EC).

    1> I want to the hierarchical levels. I know KO functions is lowest level. KEGG pathway and pathway categories. Which is the intermediate level. and which is highest level?

    2>Where can I find the list of KEGG Pathways (KO) and KEGG Pathways Categories (KO). They should have a list something like cabon fixation pathways, nitrogen list etc.

    3> For the EC (KEGG Pathway Categories (EC), KEGG Pathways (EC).), I think it means something about enzyme. I was wondering what is the relationship between EC and KO. Does EC database also created and maintained by Kyoto University? Why it doesn't have the level like KO functions? Whey they create two EC and KO. Weird.

    4> Also, where can I see the the list of KEGG Pathways (EC) and KEGG Pathways Categories (EC).

    Thanks.

  • #2
    Have you simply gone to http://www.genome.jp/kegg/ and looked at the information there?
    Michael Black, Ph.D.
    ScitoVation LLC. RTP, N.C.

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    • #3
      Originally posted by mbblack View Post
      Have you simply gone to http://www.genome.jp/kegg/ and looked at the information there?
      Well, they are not straight-forward. Still, there is no explanation of KEGG categories.

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