Difference between revisions of "OEWG 20091117"

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(Bugs)
(Bugs)
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<pre>
 
<pre>
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[Term]
 +
id: CL:0000782
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name: myeloid dendritic cell
 +
namespace: cell
 +
def: "A dendritic cell of the myeloid lineage." [GOC:add, PMID:10449155, PMID:9521319]
 +
synonym: "DC1" EXACT []
 +
synonym: "interdigitating cell" BROAD []
 +
synonym: "veiled cell" BROAD []
 +
is_a: CL:0000990 ! conventional dendritic cell
 +
relationship: develops_from CL:0000576 ! monocyte
 +
 
[Term]
 
[Term]
 
id: CL:0000840
 
id: CL:0000840

Revision as of 09:50, 17 November 2009

OBO-Edit Working Group, Tuesday November 17th, 2009 8.30 a.m. PDT

Conference call details:
US: 1-888-727-6732
Outside US: 1-719-867-3417
pin: 601425

Agenda/Chair: Amina
Minutes: Jen
Attendees:

Action items carried over

Discussion items

Bugs

I (Terry Meehan, MGI) am generating cross-product definitions in the Cell Ontology. To do this, I load the Cell ontology (CL), the three GO ontologies, PR0 and the Uberon ontology. I accidentally generated a cyclical relationship between the two terms after reasoning (see pictures). I *think* this resulted from using two related GO processes in the cross-product definition but am not sure due to some buggy issues.

  1. The "Explanation" feature both in the graph editor and in the Assert Implied links panel fail to explain reasoning. This is an issue Amina and Chris are aware of.
  2. Perhaps related... the Parent editor fails to show implied links, even when the checkbox is checked.
  3. Tree editor fails to show any relationship between the two terms.
  4. Should have the verification manager prevented this cyclical relationship from occurring? The reasoner stopped running checks due to the number of errors (>200). Most of these errors are miss-spellings in Uberon.


[Term]
id: CL:0000782
name: myeloid dendritic cell
namespace: cell
def: "A dendritic cell of the myeloid lineage." [GOC:add, PMID:10449155, PMID:9521319]
synonym: "DC1" EXACT []
synonym: "interdigitating cell" BROAD []
synonym: "veiled cell" BROAD []
is_a: CL:0000990 ! conventional dendritic cell
relationship: develops_from CL:0000576 ! monocyte

[Term]
id: CL:0000840
name: immature myeloid dendritic cell
namespace: cell
def: "An immature cell of the myeloid dendritic cell lineage, characterized by high levels of antigen uptake via endocytosis, macropinocytosis, and phagocytosis, and typically found resident in the tissues." [GOC:add, PMID:9521319]
is_a: CL:0000782 ! myeloid dendritic cell
intersection_of: CL:0000782 ! myeloid dendritic cell
intersection_of: capable_of GO:0006897 ! endocytosis
relationship: develops_from CL:0000576 ! monocyte

[Term]
id: CL:0000841
name: mature myeloid dendritic cell
namespace: cell
def: "A mature cell of the myeloid dendritic cell lineage, characterized by a high capacity for antigen presentation and typically found in a lymph node." [GOC:add, GOC:tfm, PMID:9521319]
is_a: CL:0000782 ! myeloid dendritic cell
intersection_of: CL:0000782 ! myeloid dendritic cell
intersection_of: capable_of GO:0019882 ! antigen processing and presentation
relationship: develops_from CL:0000840 ! immature myeloid dendritic cell

Features

Consortium meeting

Action Items

Links

Back to OEWG Meeting agenda and minutes List