[Obo-phenotype-commits] obo/ontology/phenotype mammalian_phenotype.obo, 1.146, 1.147

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Update of /cvsroot/obo/obo/ontology/phenotype
In directory sc8-pr-cvs3.sourceforge.net:/tmp/cvs-serv601/phenotype

Modified Files:
	mammalian_phenotype.obo 
Log Message:
Automated file update

Index: mammalian_phenotype.obo
===================================================================
RCS file: /cvsroot/obo/obo/ontology/phenotype/mammalian_phenotype.obo,v
retrieving revision 1.146
retrieving revision 1.147
diff -C2 -d -r1.146 -r1.147
*** mammalian_phenotype.obo	20 Jan 2008 09:07:04 -0000	1.146
--- mammalian_phenotype.obo	24 Jan 2008 08:01:27 -0000	1.147
***************
*** 1,4 ****
  format-version: 1.2
! date: 18:01:2008 16:41
  saved-by: csmith
  auto-generated-by: OBO-Edit 1.101
--- 1,4 ----
  format-version: 1.2
! date: 23:01:2008 16:41
  saved-by: csmith
  auto-generated-by: OBO-Edit 1.101
***************
*** 4777,4780 ****
--- 4777,4781 ----
  synonym: "abnormal cerebral cortex" EXACT []
  synonym: "abnormal neocortex" EXACT []
+ synonym: "abnormal pallium morphology" EXACT []
  synonym: "cerebral cortex dysplasia" EXACT []
  is_a: MP:0008540 ! abnormal cerebrum morphology
***************
*** 4936,4941 ****
  synonym: "degenerating hippocampal neurons" EXACT []
  is_a: MP:0000807 ! abnormal hippocampus morphology
- is_a: MP:0002882 ! abnormal neuron morphology
- is_a: MP:0003224 ! neuron degeneration
  
  [Term]
--- 4937,4940 ----
***************
*** 5159,5162 ****
--- 5158,5162 ----
  name: abnormal hindbrain morphology
  def: "any structural anomaly of the caudal region of the brain; includes cerebellum, pons and medulla oblongata" [ISBN:0-683-40008-8 "Stedman's Medical Dictionary, 27th edition", PMID:9362461]
+ synonym: "abnormal rhombencephalon morphology" RELATED []
  synonym: "hindbrain dysplasia" EXACT []
  is_a: MP:0002152 ! abnormal brain morphology
***************
*** 5397,5401 ****
  def: "a retrogressive impairment of function or destruction of the large neurons located at the interface of the molecular and internal granule layers of the cerebellar cortex" [J:46854]
  is_a: MP:0000877 ! abnormal Purkinje cell morphology
- is_a: MP:0003224 ! neuron degeneration
  
  [Term]
--- 5397,5400 ----
***************
*** 5776,5780 ****
  synonym: "loss of motor neurons" EXACT []
  is_a: MP:0000937 ! abnormal motor neuron morphology
- is_a: MP:0003224 ! neuron degeneration
  
  [Term]
--- 5775,5778 ----
***************
*** 27385,27389 ****
  id: MP:0004298
  name: vestibular ganglion degeneration
! def: "loss of the group of bipolar sensory nerve cell bodies concerned with equilibration that form a swelling on the vestibular part of the eighth cranial nerve in the fundus of the internal acoustic meatus " [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  synonym: "degeneration of ganglion vestibulare " EXACT []
  synonym: "degeneration of Scarpa ganglion" EXACT []
--- 27383,27387 ----
  id: MP:0004298
  name: vestibular ganglion degeneration
! def: "loss of the group of bipolar sensory nerve cell bodies concerned with equilibration that form a swelling on the vestibular part of the eighth cranial nerve in the fundus of the internal acoustic meatus" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  synonym: "degeneration of ganglion vestibulare " EXACT []
  synonym: "degeneration of Scarpa ganglion" EXACT []
***************
*** 27622,27626 ****
  id: MP:0004332
  name: utricular degeneration
! def: "degeneration or loss of the larger of the two sacs in the vestibule " [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  is_a: MP:0006090 ! abnormal utricle morphology
  
--- 27620,27624 ----
  id: MP:0004332
  name: utricular degeneration
! def: "degeneration or loss of the larger of the two sacs in the vestibule" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  is_a: MP:0006090 ! abnormal utricle morphology
  
***************
*** 27830,27834 ****
  name: cochlear hair cell degeneration
  def: "degeneration or loss of the sensory epithelial cells of the cochlea; these cells are in synaptic contact with the auditory nerve" [ISBN:0-683-40008-8 "Stedman's Medical Dictionary, 27th edition", MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
- is_a: MP:0000043 ! organ of Corti degeneration
  is_a: MP:0002622 ! abnormal cochlear hair cell morphology
  
--- 27828,27831 ----
***************
*** 28083,28087 ****
  name: cochlear inner hair cell degeneration
  def: "degeneration or loss of the single row of flask-shaped inner hair sensory cells of the organ of Corti" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
- is_a: MP:0004362 ! cochlear hair cell degeneration
  is_a: MP:0004393 ! abnormal cochlear inner hair cell morphology
  
--- 28080,28083 ----
***************
*** 28130,28134 ****
  name: cochlear outer hair cell degeneration
  def: "degeneration or loss of the columnar outer hair sensory cells of the organ of Corti" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
- is_a: MP:0004362 ! cochlear hair cell degeneration
  is_a: MP:0004399 ! abnormal cochlear outer hair cell morphology
  
--- 28126,28129 ----
***************
*** 28540,28544 ****
  def: "degeneration or loss of the highly differentiated epithelial cells with distinctive morphological features that surround all hair cells in the organ of Corti" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  synonym: "degeneration of the supporting cells of the organ of Corti" EXACT []
- is_a: MP:0000043 ! organ of Corti degeneration
  is_a: MP:0004300 ! abnormal supporting cell morphology
  
--- 28535,28538 ----
***************
*** 29382,29386 ****
  def: "degeneration or loss of the supporting cells that form the inner and outer walls of the tunnel in the organ of Corti" [MGI:anna "Anna V. Anagnostopoulos, Mouse Genome Informatics Curator"]
  is_a: MP:0003825 ! abnormal pillar cell morphology
- is_a: MP:0004465 ! degeneration of supporting cells
  
  [Term]
--- 29376,29379 ----
***************
*** 29677,29681 ****
  synonym: "phalangeal cell degeneration" EXACT []
  is_a: MP:0004302 ! abnormal Dieters cell morphology
- is_a: MP:0004465 ! degeneration of supporting cells
  
  [Term]
--- 29670,29673 ----
***************
*** 36294,36297 ****
--- 36286,36290 ----
  def: "any structural anomaly of the channel in the mesencephalon that connects the third and fourth ventricles" [MESH:A08.186.211.132.659.822.187, MGI:hdene "Howard Dene, Mouse Genome Informatics Curator"]
  synonym: "abnormal aqueduct of Sylvius" EXACT []
+ synonym: "abnormal mesencephalic duct morphology" EXACT []
  is_a: MP:0000897 ! abnormal midbrain morphology
  
***************
*** 40436,40440 ****
  name: retinal ganglion cell degeneration
  def: "degeneration or loss of ganglion neurons located in the innermost nuclear layer of the retina of that receive visual information from photoreceptors via various intermediate cells such as bipolar cells, amacrine cells, and horizontal cells; axons from these cells form the optic nerve and connect mainly to the lateral geniculate nucleus (LGN) and to the suprachiasmatic nucleus in the brain" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
- is_a: MP:0003224 ! neuron degeneration
  is_a: MP:0008056 ! abnormal retinal ganglion cell morphology
  
--- 40429,40432 ----
***************
*** 40779,40783 ****
  def: "a retrogressive impairment or destruction of one of the three types of interneurons found in the inner nuclear layer of the mature retina; they integrate, modulate, and interpose a temporal domain in the visual message presented to the retinal ganglion cells, with which they synapse in the inner plexiform layer" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
  synonym: "amacrine neuron degeneration" EXACT []
- is_a: MP:0003224 ! neuron degeneration
  is_a: MP:0005240 ! abnormal amacrine cell morphology
  
--- 40771,40774 ----
***************
*** 43672,43676 ****
  def: "a retrogressive impairment of function or destruction of one of the photoreceptor cell types in the retina, in which the photopigment is in invaginations of the cell membrane of the outer segment" [MESH:A08.663.650.650.670.100, MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
  is_a: MP:0001006 ! abnormal retinal cone cell morphology
- is_a: MP:0008450 ! retinal photoreceptor degeneration
  
  [Term]
--- 43663,43666 ----
***************
*** 43723,43727 ****
  def: "a retrogressive impairment of function or destruction of one of the photoreceptor cell types of the vertebrate retina, in which the photopigment is in stacks of membranous disks separate from the outer cell membrane" [MESH:A08.663.650.650.670.650]
  is_a: MP:0001005 ! abnormal retinal rod cell morphology
- is_a: MP:0008450 ! retinal photoreceptor degeneration
  
  [Term]
--- 43713,43716 ----
***************
*** 44434,44437 ****
--- 44423,44437 ----
  is_a: MP:0005621 ! abnormal cell physiology
  
+ [Term]
+ id: MP:0008547
+ name: abnormal neocortex morphology
+ def: "any structural anomaly of the larger part of the mammalian cerebral cortex, distinguished from the allocortex by being composed of a larger number of nerve cells arranged in six layers" [ISBN:0-683-40008-8 "Stedman's Medical Dictionary, 27th edition", MESH:A08.186.211.730.885.213.420]
+ synonym: "abnormal homotypic cortex morphology" EXACT []
+ synonym: "abnormal homotypical cortex morphology" EXACT []
+ synonym: "abnormal isocortex morphology" EXACT []
+ synonym: "abnormal neopallium morphology" EXACT []
+ synonym: "abnormal nonolfactory cortex morphology" EXACT []
+ is_a: MP:0000788 ! abnormal cerebral cortex morphology
+ 
  [Typedef]
  id: is_a