Difference between revisions of "Minutes 3-3-10"
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| − | '''Agenda for the POC Conference Call, | + | '''Agenda for the POC Conference Call, Weds Mar 3rd, 11am PST''' |
Agenda: We will continue with the discussions of the changes made at the Ithaca meeting Dec '09. These items have been posted on SourceForge for people to comment on. | Agenda: We will continue with the discussions of the changes made at the Ithaca meeting Dec '09. These items have been posted on SourceForge for people to comment on. | ||
| − | '''1. ''in vitro'' cultured cell, tissue and organ''' was moved out of the Plant Structure class and made a separate | + | '''1. ''in vitro'' cultured cell, tissue and organ''' was moved out of the Plant Structure class and made a separate namespace at the meeting in Ithaca. |
def: "Isolated and grown plant protoplast, cell, tissue and organ, involving, as a common factor, growth of microbe-free plant material in sterile environment, such as sterilized nutrient medium in a test tube or petri dish." | def: "Isolated and grown plant protoplast, cell, tissue and organ, involving, as a common factor, growth of microbe-free plant material in sterile environment, such as sterilized nutrient medium in a test tube or petri dish." | ||
| + | We discussed the pros and cons of whether or not the parent term "''in vitro'' cultured cell, tissue and organ" could be eliminated or made a separate namespace, as was proposed in Ithaca. It was decided to create two new parent terms directly under plant structure: | ||
| + | "''in vitro'' plant structure" and "''In vivo'' plant structure". | ||
| − | ''' | + | All the terms currently under "plant structure" will go under the new "''In vivo'' plant structure" parent. These new parent terms will be posted on the SourceForge PO tracker, so everyone can review them. Also, the changes will be made and displayed on the dev browser, so everyone can see how the new parent terms will work. |
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| + | Note: we need a definition for the new term "''In vivo'' plant structure". | ||
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| + | '''2. plant structure''' -since this is the top level term in the Ontology, we should look at it and resolve the def'n before moving on. | ||
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def: "An anatomical structure that is or was part of a plant" [Poc:curators] | def: "An anatomical structure that is or was part of a plant" [Poc:curators] | ||
comment: for anatomical structure: see CARO- part includes both proper parts and improper parts | comment: for anatomical structure: see CARO- part includes both proper parts and improper parts | ||
| + | This def'n was modified to include the in vitro cultured structures. | ||
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| + | New Def'n: An anatomical structure that is or was part of a plant, or was derived from a part of a plant. | ||
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proposed (RW): add gamete to the ontology (is_a parent, plant cell), with sperm cell and egg cell as siblings under a common parent 'gamete'. | proposed (RW): add gamete to the ontology (is_a parent, plant cell), with sperm cell and egg cell as siblings under a common parent 'gamete'. | ||
| + | New Def'n: A plant cell that has half the chromosome complement of the sporophyte and is capable of fertilization to create a zygote. | ||
| − | '''4.New parent terms proposed by Ramona:''' | + | It was decided to place 'gamete' as a child of 'plant cell' and to make it the parent term of 'egg cell' and 'sperm cell' |
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| + | '''4.New parent terms proposed by Ramona:''' Tabled for next discussion | ||
'''A. *cardinal organ part''' | '''A. *cardinal organ part''' | ||
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| + | Note: Cardinal organ part was in SF originally as "organ segment or organ part." | ||
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def: A plant structure that is a direct or immediate part of an organ that is often maximal(?) but is smaller than the organ itself. Examples include lobe, operculum, neck, petiole?, leaflet. | def: A plant structure that is a direct or immediate part of an organ that is often maximal(?) but is smaller than the organ itself. Examples include lobe, operculum, neck, petiole?, leaflet. | ||
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| − | Next conference call- Tuesday March 9th- 11am | + | Next conference call- Tuesday March 9th- 11am Seemed to work for most people. |
Latest revision as of 17:46, 4 March 2010
Agenda for the POC Conference Call, Weds Mar 3rd, 11am PST
Agenda: We will continue with the discussions of the changes made at the Ithaca meeting Dec '09. These items have been posted on SourceForge for people to comment on.
1. in vitro cultured cell, tissue and organ was moved out of the Plant Structure class and made a separate namespace at the meeting in Ithaca.
def: "Isolated and grown plant protoplast, cell, tissue and organ, involving, as a common factor, growth of microbe-free plant material in sterile environment, such as sterilized nutrient medium in a test tube or petri dish."
We discussed the pros and cons of whether or not the parent term "in vitro cultured cell, tissue and organ" could be eliminated or made a separate namespace, as was proposed in Ithaca. It was decided to create two new parent terms directly under plant structure: "in vitro plant structure" and "In vivo plant structure".
All the terms currently under "plant structure" will go under the new "In vivo plant structure" parent. These new parent terms will be posted on the SourceForge PO tracker, so everyone can review them. Also, the changes will be made and displayed on the dev browser, so everyone can see how the new parent terms will work.
Note: we need a definition for the new term "In vivo plant structure".
2. plant structure -since this is the top level term in the Ontology, we should look at it and resolve the def'n before moving on.
def: "An anatomical structure that is or was part of a plant" [Poc:curators] comment: for anatomical structure: see CARO- part includes both proper parts and improper parts This def'n was modified to include the in vitro cultured structures.
New Def'n: An anatomical structure that is or was part of a plant, or was derived from a part of a plant.
3.Term request from TAIR for "gamete"- proposed (RW): add gamete to the ontology (is_a parent, plant cell), with sperm cell and egg cell as siblings under a common parent 'gamete'.
New Def'n: A plant cell that has half the chromosome complement of the sporophyte and is capable of fertilization to create a zygote.
It was decided to place 'gamete' as a child of 'plant cell' and to make it the parent term of 'egg cell' and 'sperm cell'
4.New parent terms proposed by Ramona: Tabled for next discussion
A. *cardinal organ part
Note: Cardinal organ part was in SF originally as "organ segment or organ part."
def: A plant structure that is a direct or immediate part of an organ that is often maximal(?) but is smaller than the organ itself. Examples include lobe, operculum, neck, petiole?, leaflet.
B. * collective plant structure def: A plant structure that is composed of multiple organs but is not an organ. (Maybe something about a bona fide boundary, some way to distinguish it from whole plant). Examples: flower, perianth, inflorescence. collective structure or compound organ?
Next conference call- Tuesday March 9th- 11am Seemed to work for most people.
