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UBERON:0002298

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Name:brainstem
Namespace:FANTOM
Definition:"Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted]." [ISBN10:0471888893, Wikipedia:Brainstem, ZFA:0001707]
Xrefs:
links:

ABA:BS
BTO:0000146
EFO:0001962
EV:0100241
FMA:79876
[ Gray719.png Gray719.png]
[ 200px-Gray719.png 200px-Gray719.png]
MA:0000169
MESH:A.08.186.211.132
ncithesaurus:Brain_Stem
NIF_GrossAnatomy:birnlex_1565
SCTID:180925009
TAO:0002156
VHOG:0001457

ZFA:0001707
Synonyms: "brain stem" EXACT [ABA:BS]
"truncus encephali" EXACT LATIN [Wikipedia:Brainstem]
"truncus encephalicus" RELATED [BTO:0000146]
Comments:'brainstem' is a loose term that sometimes refers to the ventral parts o the brain except for any part of the telencephalon - sometimes it includes the diencephalon or subpallial telencephalon structures (ISBN10:0471888893). Here we use it in a more restriced sense, to include only the medulla oblongata, pons (when present) and the midbrain tegmentum (following the ZFA definitions).
Alt_id: UBERON:FMA_79876-MA_0000169
Subset: loose_concept
uberon_slim
vertebrate_core

Ontology association<br>Each term has an is_a parent in the Uberon Ontology, which has a linkage to an another entity and FANTOM5 samples.Libraries were grouped into mutually exclusive facets according to the FANTOM5 sample ontology mapping to UBERON ontologies.<br><br>link to ontology dataset<br>data


Parents

is_a:UBERON:0002616(regional part of brain),UBERON:0010314(structure with developmental contribution from neural crest)
part_of:UBERON:0000955(brain)



Children

part of:UBERON:0000988 (pons),UBERON:0001896 (medulla oblongata),UBERON:0002275 (reticular formation),UBERON:0006331 (brainstem nucleus),UBERON:0015827 (brainstem reticular formation)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>It includes FANTOM5 samples that overlay the Uberon ontology


Human (Homo sapiens)

... further results Mouse (Mus musculus)

... further results


Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0002298 (brainstem), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data











Property "Property value" (as page type) with input value "UBPROP:0000001 "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.