Indirectly negatively regulates: Difference between revisions

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** Indirectness indicates that there are intervening activities, e.g. general transcription factor activities or endoribonucleases, between the two activities connected with this relation.  Since the intervening activities may be part of a larger coordinated process of gene expression, it is not necessary for curators to model the entire coordinated process in their GO-CAM.
** Indirectness indicates that there are intervening activities, e.g. general transcription factor activities or endoribonucleases, between the two activities connected with this relation.  Since the intervening activities may be part of a larger coordinated process of gene expression, it is not necessary for curators to model the entire coordinated process in their GO-CAM.
== Example ==
== Example ==
*** C. elegans msi-1 encodes a member of the Musashi family of RNA-binding proteins that, in response to signaling via an AMPA-type glutamate receptor, binds to mRNA 3'UTRs encoding members of the Arp2/3 complex to repress their translation and alter actin cytoskeleton organization in the context of regulation of memory loss. In a GO-CAM, this indirect regulation is modeled as: mRNA base-pairing translational repressor activity enabled by MSI-1 indirectly negatively regulates actin binding activity enabled by ARX-2.
C. elegans msi-1 encodes a member of the Musashi family of RNA-binding proteins that, in response to signaling via an AMPA-type glutamate receptor, binds to mRNA 3'UTRs encoding members of the Arp2/3 complex to repress their translation and alter actin cytoskeleton organization in the context of regulation of memory loss. In a GO-CAM, this indirect regulation is modeled as: mRNA base-pairing translational repressor activity enabled by MSI-1 indirectly negatively regulates actin binding activity enabled by ARX-2.


== Relations Ontology ==
== Relations Ontology ==

Revision as of 12:20, 7 February 2023

Overview and Scope of Use

  • The 'indirectly negatively regulates' relation is used to relate GO Molecular Functions (MF) when:
    • The upstream activity occurs before the downstream activity, but there are intervening activities between them (indirect)
    • The mechanism that relates the upstream activity to the downstream activity is understood
    • The upstream activity reduces execution of the downstream activity (negative)
    • Execution of the upstream activity is conditional (regulation)

Annotation Usage Guidelines

  • What to capture
    • This relation is typically used for MFs that are part of activity-regulating BPs, e.g. regulation of gene expression and its children, that reduce expression and thus, activity, of the downstream target.
  • What to capture
    • Indirectness indicates that there are intervening activities, e.g. general transcription factor activities or endoribonucleases, between the two activities connected with this relation. Since the intervening activities may be part of a larger coordinated process of gene expression, it is not necessary for curators to model the entire coordinated process in their GO-CAM.

Example

C. elegans msi-1 encodes a member of the Musashi family of RNA-binding proteins that, in response to signaling via an AMPA-type glutamate receptor, binds to mRNA 3'UTRs encoding members of the Arp2/3 complex to repress their translation and alter actin cytoskeleton organization in the context of regulation of memory loss. In a GO-CAM, this indirect regulation is modeled as: mRNA base-pairing translational repressor activity enabled by MSI-1 indirectly negatively regulates actin binding activity enabled by ARX-2.

Relations Ontology

indirectly negatively regulates

Review Status

Last reviewed: January 31, 2023


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