Indirectly negatively regulates: Difference between revisions
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== Review Status == | == Review Status == | ||
Last reviewed: January | Last reviewed: January 31, 2023 | ||
Revision as of 11:19, 31 January 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
- Standard Annotation (TBD - curators could use this to relate MF to MF, but will they want to? Do we need this?)
- Guidelines
- What to capture
- What not to capture
- Examples
- Guidelines
- GO-CAM
- 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 not 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.
- What to capture
- 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.
- Guidelines
Quality Control Checks
- Annotations can be validated using a Shape Expressions (ShEx) representation of allowed relations between ontology terms.
Child Terms
Relations Ontology
indirectly negatively regulates
Review Status
Last reviewed: January 31, 2023