Ontology meeting 2021-08-16: Difference between revisions

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=Agenda=
=Agenda=
==Documentation==
* Review new term creation documentation: [[Guidelines_for_new_Molecular_Functions]] and [[Principles_for_creating_a_GO_term]]
* Review cross-reference documentation: [[Guidelines_for_'database_cross_references'_and_'definition_database_cross_references']] 
* Review protein binding term documentation http://wiki.geneontology.org/index.php/Guidelines_for_new_Binding_terms
* NAD/NADP: do we keep a grouping term even if all annotations can be classified to NAD or NADP-dependent? for eg [https://github.com/geneontology/go-ontology/issues/21915 GO:0003845 11-beta-hydroxysteroid dehydrogenase [NAD(P)] activity] - all known enzymes have known specificity, see [https://github.com/geneontology/go-annotation/issues/3869 review ticket]
** added 'do not annotate'


==IDPO terms==
==IDPO terms==
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* '''entropic chain:''' Functions directly associated with the disordered state of proteins that stems from their ability to shift between conformational states without becoming structured. Includes entropic bristles, clocks and springs. Source: PMID:24773235 https://europepmc.org/abstract/MED/10585425  
* '''entropic chain:''' Functions directly associated with the disordered state of proteins that stems from their ability to shift between conformational states without becoming structured. Includes entropic bristles, clocks and springs. Source: PMID:24773235 https://europepmc.org/abstract/MED/10585425  
* '''flexible linker/spacer:''' Unstructured region connecting, providing separation and permitting movement between adjacent functional regions, e.g. structured domains or disordered motifs.Source: PMID:24773235 https://europepmc.org/abstract/MED/29739942  
* '''flexible linker/spacer:''' Unstructured region connecting, providing separation and permitting movement between adjacent functional regions, e.g. structured domains or disordered motifs.Source: PMID:24773235 https://europepmc.org/abstract/MED/29739942  
==Ontology editors documentation==
* Review new term creation documentation: [[Guidelines_for_new_Molecular_Functions]] and [[Principles_for_creating_a_GO_term]]
* Review cross-reference documentation: [[Guidelines_for_'database_cross_references'_and_'definition_database_cross_references']]
* Review protein binding term documentation http://wiki.geneontology.org/index.php/Guidelines_for_new_Binding_terms
* NAD/NADP: do we keep a grouping term even if all annotations can be classified to NAD or NADP-dependent? for eg [https://github.com/geneontology/go-ontology/issues/21915 GO:0003845 11-beta-hydroxysteroid dehydrogenase [NAD(P)] activity] - all known enzymes have known specificity, see [https://github.com/geneontology/go-annotation/issues/3869 review ticket]
** added 'do not annotate'
   
   
==Check for synonym scope==
==Check for synonym scope==
https://github.com/geneontology/go-ontology/issues/21610
https://github.com/geneontology/go-ontology/issues/21610

Revision as of 17:19, 12 August 2021

  • Group members: Pascale, Karen, Harold, Raymond, Peter, Jim, Tanya, Kimberly, David, Chris, Paul
  • Present:
  • Regrets:


Agenda

IDPO terms

https://docs.google.com/spreadsheets/d/1IKKC9uShylCtf_lcBs6miI8PoqVL3L9S0rR6hz1mXxc/edit#gid=0

Outstanding:

  • self-inhibitor: Protein interactions in cis that auto-inhibit the protein function. Source: PMID: 27135163
  • self-activator: Protein interactions in cis that auto-activate the protein function. Source: PMID: 27135163
  • liquid-liquid phase separation: Reversible process by which a solution of biopolymers separates into two coexisting phases: a condensate phase with liquid-like properties, and a dilute phase. Source: PMID:29602697 https://europepmc.org/abstract/MED/26455390
  • entropic chain: Functions directly associated with the disordered state of proteins that stems from their ability to shift between conformational states without becoming structured. Includes entropic bristles, clocks and springs. Source: PMID:24773235 https://europepmc.org/abstract/MED/10585425
  • flexible linker/spacer: Unstructured region connecting, providing separation and permitting movement between adjacent functional regions, e.g. structured domains or disordered motifs.Source: PMID:24773235 https://europepmc.org/abstract/MED/29739942

Ontology editors documentation


Check for synonym scope

https://github.com/geneontology/go-ontology/issues/21610

Other Business

https://github.com/geneontology/go-ontology/projects/1