Difference between revisions of "XP:biological process xp cellular component"

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(biogenesis, organization etc)
(Missing Parentage Reports)
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* [http://sourceforge.net/tracker/index.php?func=detail&aid=1939817&group_id=36855&atid=440764 missing links] 14 added. closed.
 
* [http://sourceforge.net/tracker/index.php?func=detail&aid=1939817&group_id=36855&atid=440764 missing links] 14 added. closed.
 
* http://sourceforge.net/tracker/index.php?func=detail&aid=2015221&group_id=36855&atid=440764 -- made after it was clarified CCs are anatomical structures. See also [[Cellular_component_processes]]. Open
 
* http://sourceforge.net/tracker/index.php?func=detail&aid=2015221&group_id=36855&atid=440764 -- made after it was clarified CCs are anatomical structures. See also [[Cellular_component_processes]]. Open
* [http://sourceforge.net/tracker/index.php?func=detail&aid=2016121&group_id=36855&atid=440764 cellular processes]
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* [http://sourceforge.net/tracker/index.php?func=detail&aid=2016121&group_id=36855&atid=440764 various] closed
  
  

Revision as of 11:46, 3 October 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

[Term]
id: GO:0043572 ! plastid fission
intersection_of: GO:0048285  ! organelle fission
intersection_of: OBO_REL:results_in_division_of GO:0009536 ! plastid

i.e.

This allows a reasoner to compute the is_a relation between the two BP terms (based on the definition and the is_a relation between the CCs)

Availability

See the go/scratch/xps directory

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

Methods

An initial parse was made using Obol. The results were then manually vetted by cjm, and new xp defs manually added

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

biogenesis, organization etc

Awaiting clarification. See: Cellular_component_processes

Existing xp defs may be changed once this is resolved

The current plan is to get replace "organization and biogenesis" with "organization". See above page for details.

export terms

Examples:

[Term]
id: GO:0000056 ! ribosomal small subunit export from nucleus
intersection_of: GO:0051168 ! nuclear export
intersection_of: OBO_REL:results_in_transport_of GO:0015935 ! small ribosomal subunit

[Term]
id: GO:0006608 ! snRNP protein import into nucleus
intersection_of: GO:0006606 ! protein import into nucleus
intersection_of: OBO_REL:results_in_transport_of GO:0030532 ! small nuclear ribonucleoprotein complex

[Term]
id: GO:0006626 ! protein targeting to mitochondrion
intersection_of: GO:0006605 ! protein targeting
intersection_of: OBO_REL:results_in_transport_to GO:0005739 ! mitochondrion

Results

Missing Parentage Reports