Difference between revisions of "LEGO June 1, 2015"
From GO Wiki
(→Agenda) |
|||
| Line 3: | Line 3: | ||
==Agenda== | ==Agenda== | ||
| + | |||
| + | ===LEGO Curation=== | ||
| + | ====GTPase Signaling Pathways==== | ||
| + | *Annotating GTPases to reflect their role in a signaling pathway | ||
| + | **Annotate entity as GTP-bound form (via PRO ID, for example)? | ||
| + | **We have a term, GO:0030742, GTP-dependent protein binding; what is the intended use of this term? | ||
| + | ***Definition: Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules) using energy from the hydrolysis of GTP. | ||
| + | *What experimental evidence supports use of: | ||
| + | **causally_upstream_of | ||
| + | **directly_activates | ||
| + | **has_direct_input | ||
| + | **positively_regulates | ||
| + | |||
| + | ===Annotation Issues=== | ||
| + | *MIG-2 (C. elegans RhoG) has low affinity for GTP (similar to GTP binding-defective negative control) but GTPase activity similar to other Rho GTPases, so evidence for GTP binding is weak | ||
| + | *Paper uses an engineered GTP-bound mimic to assess binding to downstream effector, ANI-1 | ||
| + | *What's the correct annotation for the binding? | ||
| + | **ANI-1: GTP-Rho binding? Rho GTPase binding? | ||
| + | *What's the correct MF annotation for MIG-2 for this signaling pathway? | ||
Revision as of 06:38, 29 May 2015
Agenda
LEGO Curation
GTPase Signaling Pathways
- Annotating GTPases to reflect their role in a signaling pathway
- Annotate entity as GTP-bound form (via PRO ID, for example)?
- We have a term, GO:0030742, GTP-dependent protein binding; what is the intended use of this term?
- Definition: Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules) using energy from the hydrolysis of GTP.
- What experimental evidence supports use of:
- causally_upstream_of
- directly_activates
- has_direct_input
- positively_regulates
Annotation Issues
- MIG-2 (C. elegans RhoG) has low affinity for GTP (similar to GTP binding-defective negative control) but GTPase activity similar to other Rho GTPases, so evidence for GTP binding is weak
- Paper uses an engineered GTP-bound mimic to assess binding to downstream effector, ANI-1
- What's the correct annotation for the binding?
- ANI-1: GTP-Rho binding? Rho GTPase binding?
- What's the correct MF annotation for MIG-2 for this signaling pathway?
