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pretectum - where is it? #361

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cmungall opened this issue Oct 21, 2013 · 5 comments
Closed

pretectum - where is it? #361

cmungall opened this issue Oct 21, 2013 · 5 comments

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@cmungall
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screen shot 2013-10-21 at 3 00 53 pm
@cmungall
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part of diencephalon in ZFA:

[Term]
id: ZFA:0000418
name: pretectum
namespace: zebrafish_anatomy
def: "Multi-tissue structure that is the dorsal part of the diencephalon, caudal to the telencephalon, rostral to the midbrain optic tectum; the major sensory input to the pretectum is visual. From The Laboratory Fish." [ISBN:0125296509, ZFA:curator]
xref: TAO:0000418
xref: ZFIN:ZDB-ANAT-011113-344
is_a: ZFA:0001488  ! multi-tissue structure
relationship: end ZFS:0000044 ! Adult
relationship: part_of ZFA:0000101 ! diencephalon
relationship: start ZFS:0000000 ! Unknown

@cmungall
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Butler and Hodos:

"the caudal part of the diencephalon contains a dorsal area called the pretectum and..."

This is in the introductiory/general section, no implications of taxonomic variance

@cmungall
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More details in ch20:

http://books.google.com/books?id=6kGARvykJKMC&pg=PA373#v=onepage&q&f=false

A lot of material here. Would be good to capture a lot of this variation. For now we just want to avoid unsatisfiable classes (and hopefully keep the spatial disjointness axiom between forebrain and midbrain)

@cmungall
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NIFSTD, FMA and MA all place it in the midbrain

@cmungall cmungall reopened this Oct 21, 2013
@cmungall
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Awaiting comments from @mellybelly

cmungall added a commit that referenced this issue Oct 22, 2013
@cmungall
releases/2013-10-21
e2085ab 
     * fixed EVOC xrefs to be 1:1
     * Def for late embryo. Thanks to Ann N. Fixes issue #355
     * Fix for #365
       * Defined ambiens using Kardong, added axioms
       * NT: iliotibialis muscle. Thanks to Ann N.
       * added musclle origin for sartorius.
     * NTs for distalmost epiphyses of distalmost digits. Addresses issue #358 - are the tuberosities extensions or parts of the distal epiphyses?
     * Spatial disjointness fixes
       * putting some spatial disjointness axioms into pending. Adding equivalence axioms to bone and cartilage further to PATO call with Georg, Jim and David OS
       * This release incorporates the full spatial disjointness axioms as part of the build, not just checks
       * removed part_of between alar central lobule and central lobule - fixes spatial disjointness violation
       * weakened part_of for pretectum to taxon GCI. Fixes #361 for now
     * adding tentorial synonyms. MAH.
     * NT: inferior orbital fissure; made superior a subclass of generic orbital fissure
     * changed def for optical pit to align with MP
     * stages
       * new subclasses of larval stage. Addresses #353
       * fixed xrefs for neonates. Fixes issue #350
     * Heart fixes for issue #351 and #347
       * NTs for subclasses of leaflet of mitral valve
       * Added equivalence axioms for various leaflets/cusps of heart
       * fixed exact synonym sharing of BV groove and IV groove. Still need to adequately connect these. Relevant to #347
       * def for BV Groove (ANiknejad). Addresses issue #347
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