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How to get pathways or genomes-genes from Kegg map?
  • paokmaniak September 2011
    I would like to ask how (with which method from Kegg api) i can get the genomes or the pathways participating in a specific map for example map00010.
    Thank you
  • BN_ September 2011
    Hi,

    in the Pathways Panel just choose KEGG and by right click, click "Open Pathway".
    See http://biologicalnetworks.org/qs/index.php Fig 18, 19.

    Pathway Panel is usually on the left hand side, or chose from main Menu Window->Network->Curated Pathways data explorer.

    Let us know if you have any problems with this.
  • paokmaniak September 2011
    Maybe i did not placed the question properly. I have an application and i want if the user write for example "map00010" to get all the genomes or pathways participating in the map. With which method from the Kegg api can i do it? For example with get_genes_by_pathway i get genes particiapting in a sepcific pathway how can i get genes participatin in a map? (i suppose in two steps that's why i ask first for pathways or genomes participatin in the map and then genes)
    Thank you
  • BN_ September 2011
    Hi,

    you would need to use our API, see Menu at the top of the page.
    You will need a function get_genes_by_pathway (@map00010, "homo sapiens") or function
    get_genes_by_pathway (hsa00010). Is that what you need?

    If yes, we will add these functions to our API in 1-2 days.
    Thanks.
  • paokmaniak September 2011
    Yes, but function get_genes_by_pathway (@map00010, "homo sapiens") it only functions with "path:" or with simple pathways and not for map.
    Thank you
  • BN_ October 2011
    Hi,

    we've added a number of functions to operate with KEGG pathways/maps to our API.
    Please let us know if that works for you.
    Thanks.