obi-bot
commented
14 years ago - priority: 5 --> 9
- assigned_to: nobody --> jzheng24
Original comment by: zhengj2007
Closed obi-bot closed 7 years ago
obi-bot
commented
14 years ago Original comment by: zhengj2007
obi-bot
commented
14 years ago Current OBI version polyacrylamide gel is asserted as a processed material. Suggest to change to: material entity is_specified_output_of some polymerization has_part acrylamide (or has grain acrylamide?)
The textual definition of polyacrylamide gel is the definition of 'agarose gel'. Suggest change to: a processed material resulting from the polymerization of acrylamide with TEMED in some buffer solution
Do we need to change textual definition of agarose gel to: a processed material resulting from the polymerization of agarose after heating agarose suspended in some buffer solution
Original comment by: zhengj2007
obi-bot
commented
14 years ago Discussed on April 26 dev call. Definitions have been modified and committed on revision 2925
Original comment by: zhengj2007
obi-bot
commented
14 years ago Original comment by: zhengj2007
Olga Ximena Giraldo
Polyacrylamide gel is classified as a material entity whereas agarose gel is a processed material. This is probably wrong. According to the definition for material entities:
"Definition: An independent continuant [snap:IndependentContinuant] that is spatially extended whose identity is independent of that of other entities and can be maintained through time. Note: Material entity [snap:MaterialEntity] subsumes object [snap:Object], fiat object part [snap:FiatObjectPart], and object aggregate [snap:ObjectAggregate], which assume a three level theory of granularity, which is inadequate for some domains, such as biology. "
by the same token, processed material "Is a material entity that is created or changed during material processing".
Shouldn't both fall straight under processed material? Both are material entities under processed material -according to the definitions given.
In addition, the definition available for "Polyacrylamide gel" is also wrong, from Bioportal:
"agarose gel is a material entity resulting from the polymerization of agarose after heating agarose suspended in some buffer solution"
This is the same definition as that given to "agarose gel".
I am taking the definitions, and using OBI from Bioportal. According to Bioportal this is "Version 2009-11-06 Philly (aka version 1.0) Release Candidate".
Reported by: zhengj2007
Original Ticket: obi/obi-terms/561