Experimental Factor Ontology

Last uploaded: March 18, 2024
Preferred Name

substantia nigra

Synonyms

Soemmering's substance

nucleus of basis pedunculi

SN

substancia nigra

nucleus pigmentosus subthalamo-peduncularis

substantia nigra (Soemmerringi)

Definitions

Predominantly gray matter midbrain structure lying dorsal to the crus cerebri and ventral to the midbrain tegmentum. It is divided into a dorsal, cellularly compact region known as the pars compacta and a more ventrally located, containing more loosely packed cells, the pars reticulata. The most lateral region of the reticulata is identified as the pars lateralis (MM).

ID

http://purl.obolibrary.org/obo/UBERON_0002038

database_cross_reference

CALOHA:TS-0990

neuronames:536

MESH:D013378

VHOG:0001573

BTO:0000143

EFO:0000922

BIRNLEX:789

UMLS:C1269578

EHDAA2:0004711

Wikipedia:Substantia_nigra

EMAPA:35835

UMLS:C0038590

MAT:0000504

SCTID:279286002

NCIT:C12453

BAMS:SN

DHBA:12251

EV:0100247

FMA:67947

GAID:581

HBA:9072

MA:0000210

definition

Predominantly gray matter midbrain structure lying dorsal to the crus cerebri and ventral to the midbrain tegmentum. It is divided into a dorsal, cellularly compact region known as the pars compacta and a more ventrally located, containing more loosely packed cells, the pars reticulata. The most lateral region of the reticulata is identified as the pars lateralis (MM).

depiction

https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_F_Brain.glb

http://upload.wikimedia.org/wikipedia/commons/5/5f/Midbraincrosssection.png

https://ccf-ontology.hubmapconsortium.org/objects/v1.2/Allen_M_Brain.glb

editor note

TODO - In BTO and NIF, part of basal ganglion which is part of telencephalon - but this is inconsistent with being part of midbrain, if these are spatially disjoint, as in ABA

external_definition

Subdivision of the midbrain anterior to the midbrain tegmentum which contains darkly pigmented neurons[FMA][FMA:67947].

has_broad_synonym

SN

has_exact_synonym

Soemmering's substance

nucleus of basis pedunculi

has_obo_namespace

uberon

has_related_synonym

substancia nigra

nucleus pigmentosus subthalamo-peduncularis

substantia nigra (Soemmerringi)

homology_notes

(...) the substantia nigra first appears in reptiles and is best developed in primates.[well established][VHOG]

id

UBERON:0002038

in_subset

http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas

http://purl.obolibrary.org/obo/uberon/core#efo_slim

http://purl.obolibrary.org/obo/uberon/core#pheno_slim

http://purl.obolibrary.org/obo/uberon/core#uberon_slim

label

substantia nigra

notation

UBERON:0002038

part_of

http://purl.obolibrary.org/obo/UBERON_0001891

http://purl.obolibrary.org/obo/UBERON_0002420

http://purl.obolibrary.org/obo/UBERON_0001017

http://purl.obolibrary.org/obo/UBERON_0000955

prefLabel

substantia nigra

RO_0002175

http://purl.obolibrary.org/obo/NCBITaxon_9606

treeView

http://purl.obolibrary.org/obo/UBERON_0001891

http://purl.obolibrary.org/obo/UBERON_0002420

http://purl.obolibrary.org/obo/UBERON_0001017

http://purl.obolibrary.org/obo/UBERON_0000955

subClassOf

http://purl.obolibrary.org/obo/UBERON_0000061

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Delete Mapping To Ontology Source
http://purl.obolibrary.org/obo/UBERON_0002038 UBERON SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 OBA SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 NPOKB SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 CL SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 BERO SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 HHEAR SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 OBA SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 UPHENO SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 NIFSTD SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 CCF SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 GO-PLUS SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 FNS-H SAME_URI
http://purl.obolibrary.org/obo/UBERON_0002038 UBERON LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 OBA LOOM
http://purl.obolibrary.org/obo/EHDAA2_0004711 EHDAA2 LOOM
http://purl.bioontology.org/ontology/RCD/Xa12S RCD LOOM
http://purl.obolibrary.org/obo/MAT_0000504 MAT LOOM
http://localhost/plosthes.2017-1#5795 PLOSTHES LOOM
http://uri.interlex.org/waxholm/uris/sd/labels/2 NIFSTD LOOM
http://neuromorpho.org/ontologies/vertebrateH.owl#NMOBr_160 NMOBR LOOM
http://purl.obolibrary.org/obo/EMAPA_35835 EMAPA LOOM
http://purl.obolibrary.org/obo/MA_0000210 MA LOOM
http://uri.neuinfo.org/nif/nifstd/birnlex_789 NIFSTD LOOM
http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Substantia_Nigra CSEO LOOM
http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Substantia_Nigra SYN LOOM
http://www.co-ode.org/ontologies/galen#SubstantiaNigra GALEN LOOM
http://scai.fraunhofer.de/MSOntology#Substantia_Nigra MSO LOOM
http://id.nlm.nih.gov/mesh/D013378 MDM LOOM
http://ontology.apa.org/apaonto/termsonlyOUT%20(5).owl#Substantia_Nigra APANEUROCLUSTER LOOM
http://ontology.apa.org/apaonto/termsonlyOUT%20(5).owl#Substantia_Nigra APAONTO LOOM
http://purl.obolibrary.org/obo/NCIT_C12453 BERO LOOM
http://cocomac.g-node.org/services/custom_sql_query.php?sql=SELECT%20*%20from%20BrainMaps_BrainSiteAcronyms%20where%20ID=1198 NIFSTD LOOM
http://purl.jp/bio/4/id/200906064491535118 IOBC LOOM
http://purl.bioontology.org/ontology/CSP/0479-5797 CRISP LOOM
http://sbmi.uth.tmc.edu/ontology/ochv#C0038590 OCHV LOOM
http://purl.org/sig/ont/fma/fma67947 FMA LOOM
http://purl.bioontology.org/ontology/SNMI/T-A5160 SNMI LOOM
http://radlex.org/RID/RID6540 RADLEX LOOM
http://phenomebrowser.net/ontologies/mesh/mesh.owl#A08.186.211.653.822.731 RH-MESH LOOM
http://purl.obolibrary.org/obo/OMIT_0014250 OMIT LOOM
http://purl.obolibrary.org/obo/BTO_0000143 DTO LOOM
http://purl.obolibrary.org/obo/BTO_0000143 BTO LOOM
http://purl.obolibrary.org/obo/VHOG_0001573 VHOG LOOM
http://purl.bioontology.org/ontology/MESH/D013378 MESH LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 NPOKB LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 CL LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 HHEAR LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 OBA LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 UPHENO LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 NIFSTD LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 CCF LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 GO-PLUS LOOM
http://purl.obolibrary.org/obo/UBERON_0002038 FNS-H LOOM
http://bioontology.org/projects/ontologies/birnlex#birnlex_789 BIRNLEX LOOM
http://phenomebrowser.net/ontologies/mesh/mesh.owl#A08.186.211.132.659.822.731 RH-MESH LOOM
http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C12453 NCIT LOOM
http://www.semanticweb.org/ontologies/2009/9/Ontology1255357986125.owl#Substantia_nigra BRCT LOOM
http://purl.org/obo/owlapi/fma#FMA_67947 BIOMODELS LOOM
http://phenomebrowser.net/ontologies/mesh/mesh.owl#D013378 RH-MESH LOOM