XP:biological process xp cellular component: Difference between revisions

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XPs defining biological processes in terms of cellular components; example:
XPs defining biological processes in terms of cellular components; example:


  [Term]
<pre>
  id: GO:0000054 ! ribosome export from nucleus
[Term]
  intersection_of: GO:0051168 {namespace=biological_process_xp_cellular_component} ! nuclear export
id: GO:0010020 ! chloroplast fission
  intersection_of: OBO_REL:results_in_transport_of GO:0005840 {namespace=biological_process_xp_cellular_component} ! ribosome
intersection_of: GO:0048285  ! organelle fission
intersection_of: OBO_REL:results_in_division_of GO:0009507 ! chloroplast
</pre>


i.e. ribosome export from nucleus = nuclear export THAT results_in_transport_of ribosome
i.e. '''chloroplast fission''' <sub>=def</sub> '''organelle fission''' THAT [[results_in_division_of]] '''chloroplast'''


(Experimenting with the use of namespace tags as an easy way to separate out xp content from main GO)
== Availability ==


See the [http://www.geneontology.org/scratch/xps/ go/scratch/xps] directory
See the [http://www.geneontology.org/scratch/xps/ go/scratch/xps] directory
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* [http://www.berkeleybop.org/ontologies/obo-all/bp_xp_cellular_component/bp_xp_cellular_component.xp.html HTML]
* [http://www.berkeleybop.org/ontologies/obo-all/bp_xp_cellular_component/bp_xp_cellular_component.xp.html HTML]


Missing Link Reports:
== Methods ==
 
=== mitochondrial X ===
 
Terms of the form "mitochondrial ''X''" are typically defined as
 
* An ''X'' that [[unfolds_in]] a '''mitochondrion'''
 
Here ''unfolds_in'' is a relation between a process and the location of the participants throughout the process
 
E.g.
 
<pre>
[Term]
id: GO:0000963 ! mitochondrial RNA processing
intersection_of: GO:0006396 ! RNA processing
intersection_of: OBO_REL:unfolds_in GO:0005739 ! mitochondrion
</pre>
 
See [https://sourceforge.net/tracker/?func=detail&atid=440764&aid=2020664&group_id=36855 this sf item] for clarification on RNA processing terms
 
== Results ==
 
=== Missing Parentage Reports ===


* http://sourceforge.net/tracker/index.php?func=detail&aid=1939817&group_id=36855&atid=440764
* http://sourceforge.net/tracker/index.php?func=detail&aid=1939817&group_id=36855&atid=440764

Revision as of 14:51, 17 July 2008

XPs defining biological processes in terms of cellular components; example: 

[Term]
id: GO:0010020 ! chloroplast fission
intersection_of: GO:0048285  ! organelle fission
intersection_of: OBO_REL:results_in_division_of GO:0009507 ! chloroplast

i.e. chloroplast fission =def organelle fission THAT results_in_division_of chloroplast

Availability

See the go/scratch/xps directory

This xp file has been registered in the OBO xps metadata so it is available here:

Methods

mitochondrial X

Terms of the form "mitochondrial X" are typically defined as 

* An X that unfolds_in a mitochondrion

Here unfolds_in is a relation between a process and the location of the participants throughout the process

E.g. 

[Term]
id: GO:0000963 ! mitochondrial RNA processing
intersection_of: GO:0006396 ! RNA processing
intersection_of: OBO_REL:unfolds_in GO:0005739 ! mitochondrion

See this sf item for clarification on RNA processing terms

Results

Missing Parentage Reports

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