Difference between revisions of "Extensions2GO-CAM"

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(Created page with "Category:GO-CAM =Simple conversions= These are relations that are essentially identical in extensions and GO-CAM *If the aspect is F (column A) **No more than one occurs_i...")
 
(Simple conversions)
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**No more than one has_input/has_direct_input(geneID or ChEBI)
 
**No more than one has_input/has_direct_input(geneID or ChEBI)
 
**No more than one part_of(BP)
 
**No more than one part_of(BP)
 +
=has_regulation_target=
 +
*GP-A [regulation of molecular function Z] has_regulation_target GP-B
 +
**can be expressed as [GP-A]<-enabled_by-[ GO:0003674]-regulates->[molecular function Z]-enabled_by->[GP-B]
 +
**The variations on this are all children of the term “regulation of molecular function” (GO:0065009).  Variations are “positive regulation of MF Z”, which would be expressed with the positively_regulates relation instead; “negative regulation of MF Z”.  **Note that MF Z should appear in the logical definition of the term “regulation of MF Z”, so you can get the GO ID from that.
 +
*GP-A [regulation of transcription] has_regulation_target GP-B
 +
**can be expressed as [GP-A]<-enabled_by-[GO:0003674]-regulates->[transcription]-has_input->[GP-B]
 +
**These are all children of “regulation of transcription, DNA templated” (GO:0006351).  Similarly to above, there are positive/negative variations, and you can get the specific GO ID for [transcription] from the logical definition.

Revision as of 11:45, 23 August 2018

Simple conversions

These are relations that are essentially identical in extensions and GO-CAM

  • If the aspect is F (column A)
    • No more than one occurs_in(CC)
    • No more than one occurs_in(CL)
    • No more than one occurs_in(UBERON or EMAPA)
    • No more than one has_input/has_direct_input(geneID or ChEBI)
    • No more than one happens_during(BP)
    • No more than one part_of(BP)
    • No more than one has_regulation_target(geneID)
    • No more than one activated_by(ChEBI)
    • No more than one inhibited_by(ChEBI)
  • If the aspect is C
    • No more than one occurs_in(CC)
    • No more than one occurs_in(CL)
    • No more than one occurs_in(UBERON or EMAPA)
  • If the aspect is P
    • No more than one occurs_in(CC)
    • No more than one occurs_in(CL)
    • No more than one occurs_in(UBERON or EMAPA)
    • No more than one has_input/has_direct_input(geneID or ChEBI)
    • No more than one part_of(BP)

has_regulation_target

  • GP-A [regulation of molecular function Z] has_regulation_target GP-B
    • can be expressed as [GP-A]<-enabled_by-[ GO:0003674]-regulates->[molecular function Z]-enabled_by->[GP-B]
    • The variations on this are all children of the term “regulation of molecular function” (GO:0065009). Variations are “positive regulation of MF Z”, which would be expressed with the positively_regulates relation instead; “negative regulation of MF Z”. **Note that MF Z should appear in the logical definition of the term “regulation of MF Z”, so you can get the GO ID from that.
  • GP-A [regulation of transcription] has_regulation_target GP-B
    • can be expressed as [GP-A]<-enabled_by-[GO:0003674]-regulates->[transcription]-has_input->[GP-B]
    • These are all children of “regulation of transcription, DNA templated” (GO:0006351). Similarly to above, there are positive/negative variations, and you can get the specific GO ID for [transcription] from the logical definition.