Ontology meeting 2012-10-18: Difference between revisions
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===FOLLOW-UP: asserting/adding tag for inferred links=== | ===FOLLOW-UP: asserting/adding tag for inferred links=== | ||
Did Heiko and Chris make any progress getting Stanford to change whatever they had to change? | Did Heiko and Chris make any progress getting Stanford to change whatever they had to change so we can move forward with this? | ||
===FOLLOW-UP: logically defining single-/multi-organism processes=== | ===FOLLOW-UP: logically defining single-/multi-organism processes=== | ||
Revision as of 09:19, 17 October 2012
MINUTES: Paola
ATTENDEES:
FOLLOW-UP: ChEBI paper
Did the PIs give us any comments?
Discussion item: cell-cell junctions
Related to [1]. Basically, do cell-cell junctions have parts that belong to each of the cells they bridge, or are they part of just one of the cells?
If we say 'cell junction' has_part 'plasma membrane', is that logically the same as saying 'cell junction' has_part SOME 'plasma membrane', or 'cell junction' has_part WHOLE 'plasma membrane'? Would it better to say 'cell junction' has_part 'plasma membrane part', or is that logically equivalent to saying 'cell junction' has_part 'plasma membrane'?
FOLLOW-UP: asserting/adding tag for inferred links
Did Heiko and Chris make any progress getting Stanford to change whatever they had to change so we can move forward with this?
FOLLOW-UP: logically defining single-/multi-organism processes
We discussed last meeting defining:
cellular process = biological process has_participant exactly 1 or 2 cells multicellular organism process = biological process has_participant 2 or more cells
This won't work for cases like flocculation, which is a cellular process which involves >2 cells.
Could we say:
multicellular organism process = biological process occurs_in multicellular organism and has_participant >2 cell
but then for cp:
cellular process = biological process has_participant exactly 1 cell OR has_participant >1 cell AND occurs_in ???
I think this is the problem - how to distinguish between cellular processes that occur within a multicellular organism, and multicellular organism processes. Sorry, that's a ramble of an agenda item.
FOLLOW-UP: TermGenie template for non-template-able terms
See background here: http://wiki.geneontology.org/index.php/Ontology_meeting_2012-10-11
FOLLOW-UP: EC numbers in GO - feasibility study
Carried over from a previous meeting: see Action Items and background here: http://wiki.geneontology.org/index.php/Ontology_meeting_2012-08-08#FOLLOW-UP:_EC_numbers_in_GO_-_feasibility_study