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|located_in=
|located_in=
|name=cerebral cortex
|name=cerebral cortex
|namespace=
|namespace=FANTOM
|obo_creation_date=
|obo_creation_date=
|part_of=UBERON:0000203;;UBERON:0005401
|part_of=UBERON:0000203;;UBERON:0005401

Latest revision as of 17:12, 12 September 2014

Name:cerebral cortex
Namespace:FANTOM
Definition:"The cerebral cortex is a structure within the brain that plays a key role in memory, attention, perceptual awareness, thought, language, and consciousness. It constitutes the outermost layer of the cerebrum. In preserved brains, it has a grey color, hence the name 'grey matter'. Grey matter is formed by neurons and their unmyelinated fibers, whereas the white matter below the grey matter of the cortex is formed predominantly by myelinated axons interconnecting different regions of the central nervous system. The human cerebral cortex is 2遯ｶ�4 mm (0.08遯ｶ�0.16 inches) thick. The surface of the cerebral cortex is folded in large mammals, such that more than two-thirds of the cortical surface is buried in the grooves, called 'sulci. ' The phylogenetically most recent part of the cerebral cortex, the neocortex, also called isocortex, is differentiated into six horizontal layers; the more ancient part of the cerebral cortex, the hippocampus (also called archicortex), has at most three cellular layers, and is divided into subfields. Relative variations in thickness or cell type (among other parameters) allow us to distinguish between different neocortical architectonic fields. The geometry of at least some of these fields seems to be related to the anatomy of the cortical folds, and, for example, layers in the upper part of the cortical ridges seem to be more clearly differentiated than in its deeper parts. [WP,unvetted]." [Wikipedia:Cerebral_cortex]
Xrefs:
links:

ABA:CTX
BM:Tel-Cx
BTO:0000233
EFO:0000328
EHDAA2:0000234
EHDAA:5464
EMAPA:17544
EV:0100166
FMA:61830
GAID:629
[1]
[2]
MA:0000185
MAT:0000108
MESH:A.08.186.211.730.885.213
MIAA:0000108
ncithesaurus:Cortex
NIF_GrossAnatomy:birnlex_1494
SCTID:362880003

VHOG:0000722
Synonyms: "brain cortex" RELATED [BTO:0000233]
"cortex cerebri" RELATED LATIN [Wikipedia:Cerebral_cortex]
"cortex of cerebral hemisphere" EXACT []
"pallium of the brain" RELATED [BTO:0000233]
Comments:This class was created automatically from a combination of ontologies
Alt_id: UBERON:FBbt_00003625-FMA_61830-MA_0000185-MIAA_0000108
Subset: uberon_slim

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:0010314(structure with developmental contribution from neural crest),UBERON:0016548(central nervous system gray matter layer)
part_of:UBERON:0000203(pallium),UBERON:0005401(cerebral hemisphere grey matter)



Children

derives from:FF:0011469 (mouse cortex- neonate N30 sample),FF:0011525 (cortex- adult sample)
part of:UBERON:0001950 (neocortex),UBERON:0002022 (insula),CL:0002605 (astrocyte of the cerebral cortex),CL:0002609 (neuron of cerebral cortex),UBERON:0002619 (regional part of cerebral cortex),CL:0010012 (cerebral cortex neuron),CL:1001579 (cerebral cortex glial cell)

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:0000956 (cerebral cortex), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
1.52e-129FFCP PHASE1:Hg19::chr10:11047712..11047726,+#_007fcf0a6f065fa9b27f875396f4e0adp@chr10:11047712..11047726, +
1.52e-129FFCP PHASE2:Hg19::chr10:11047712..11047726,+#_007fcf0a6f065fa9b27f875396f4e0adp@chr10:11047712..11047726, +
1.72e-126FFCP PHASE1:Hg19::chr8:89554929..89554960,+#_35e49b96af43010478ba93712f9d70fbp1@ENST00000518631
1.72e-126FFCP PHASE2:Hg19::chr8:89554929..89554960,+#_35e49b96af43010478ba93712f9d70fbp1@ENST00000518631
2.83e-119FFCP PHASE2:Hg19::chr10:10504250..10504278,+#_83820b7e69310930181ae90b8ee2c2c9p@chr10:10504250..10504278, +
2.83e-119FFCP PHASE1:Hg19::chr10:10504250..10504278,+#_83820b7e69310930181ae90b8ee2c2c9p@chr10:10504250..10504278, +
4.39e-119FFCP PHASE2:Hg19::chr18:70305745..70305761,-#_118853884aa0986c45424448fbd77d53p@chr18:70305745..70305761, -
4.39e-119FFCP PHASE1:Hg19::chr18:70305745..70305761,-#_118853884aa0986c45424448fbd77d53p@chr18:70305745..70305761, -
1.91e-117FFCP PHASE1:Hg19::chr18:70305621..70305634,-#_5f2b967fb1a996bbc440bf470f22d7fep@chr18:70305621..70305634, -
1.91e-117FFCP PHASE2:Hg19::chr18:70305621..70305634,-#_5f2b967fb1a996bbc440bf470f22d7fep@chr18:70305621..70305634, -
2.42e-117FFCP PHASE2:Hg19::chr22:43821065..43821115,+#_0ba31101bbea2454bbe13fbf682efad5p4@MPPED1
2.42e-117FFCP PHASE1:Hg19::chr22:43821065..43821115,+#_0ba31101bbea2454bbe13fbf682efad5p4@MPPED1
2.3e-113FFCP PHASE1:Hg19::chr10:11047746..11047768,+#_f3aee9bb15e66839fb8e3e56e0a5237bp@chr10:11047746..11047768, +
2.3e-113FFCP PHASE2:Hg19::chr10:11047746..11047768,+#_f3aee9bb15e66839fb8e3e56e0a5237bp@chr10:11047746..11047768, +
4.95e-111FFCP PHASE2:Hg19::chr19:54462560..54462571,+#_c37dc8ef1cb8370821ba6113f45fbfe8p@chr19:54462560..54462571, +
4.95e-111FFCP PHASE1:Hg19::chr19:54462560..54462571,+#_c37dc8ef1cb8370821ba6113f45fbfe8p@chr19:54462560..54462571, +
2.54e-110FFCP PHASE1:Hg19::chr10:11046599..11046616,+#_a2a6b84d54d3ef10d455bf3716a76cf9p@chr10:11046599..11046616, +
2.54e-110FFCP PHASE2:Hg19::chr10:11046599..11046616,+#_a2a6b84d54d3ef10d455bf3716a76cf9p@chr10:11046599..11046616, +
6.85e-110FFCP PHASE2:Hg19::chr8:110987986..110988010,-#_7fb3613dcf128e8214870374b6d7308bp1@KCNV1
6.85e-110FFCP PHASE1:Hg19::chr8:110987986..110988010,-#_7fb3613dcf128e8214870374b6d7308bp1@KCNV1
8.08e-110FFCP PHASE1:Hg19::chr5:17404114..17404134,+#_40da6a5d6f5e47c1297680190de499c5p1@ENST00000508677
8.08e-110FFCP PHASE2:Hg19::chr5:17404114..17404134,+#_40da6a5d6f5e47c1297680190de499c5p1@ENST00000508677
1.16e-109FFCP PHASE2:Hg19::chr11:133402367..133402378,-#_d16a512010c29fd97d12cb61785cf845p8@OPCML
1.16e-109FFCP PHASE1:Hg19::chr11:133402367..133402378,-#_d16a512010c29fd97d12cb61785cf845p8@OPCML
6.25e-109FFCP PHASE1:Hg19::chr14:70546905..70546935,-#_09227a5dd2b9a268130071e186cd7e18p3@SLC8A3
6.25e-109FFCP PHASE2:Hg19::chr14:70546905..70546935,-#_09227a5dd2b9a268130071e186cd7e18p3@SLC8A3
4.02e-108FFCP PHASE1:Hg19::chr16:758668..758696,+#_33471c08c3aa347b8439e6f6379590f6p@chr16:758668..758696, +
4.02e-108FFCP PHASE2:Hg19::chr16:758668..758696,+#_33471c08c3aa347b8439e6f6379590f6p@chr16:758668..758696, +
5.1e-108FFCP PHASE2:Hg19::chr5:22754690..22754720,+#_ac59030947b7630d335f004b769bf8f0p@chr5:22754690..22754720, +
5.1e-108FFCP PHASE1:Hg19::chr5:22754690..22754720,+#_ac59030947b7630d335f004b769bf8f0p@chr5:22754690..22754720, +
5.75e-108FFCP PHASE2:Hg19::chr8:67405573..67405590,+#_264b1a491f6e62376942fcbab05d7d5ep7@C8orf46
5.75e-108FFCP PHASE1:Hg19::chr8:67405573..67405590,+#_264b1a491f6e62376942fcbab05d7d5ep7@C8orf46
1.84e-107FFCP PHASE2:Hg19::chr9:10612907..10612918,-#_f819d47ef50394e159e58b825ebecc7dp17@PTPRD
1.84e-107FFCP PHASE1:Hg19::chr9:10612907..10612918,-#_f819d47ef50394e159e58b825ebecc7dp17@PTPRD
6.72e-107FFCP PHASE1:Hg19::chr12:62585176..62585196,-#_8446e86da891eab73eb25d9554f44245p14@FAM19A2
6.72e-107FFCP PHASE2:Hg19::chr12:62585176..62585196,-#_8446e86da891eab73eb25d9554f44245p14@FAM19A2
8.42e-107FFCP PHASE2:Hg19::chr18:70305699..70305738,-#_aaf7c37f0bb9b20db03994c3f14b669bp@chr18:70305699..70305738, -
8.42e-107FFCP PHASE1:Hg19::chr18:70305699..70305738,-#_aaf7c37f0bb9b20db03994c3f14b669bp@chr18:70305699..70305738, -
1.04e-106FFCP PHASE1:Hg19::chr10:11047633..11047685,+#_65b69173a7af7cac8555926a17219161p@chr10:11047633..11047685, +
1.04e-106FFCP PHASE2:Hg19::chr10:11047633..11047685,+#_65b69173a7af7cac8555926a17219161p@chr10:11047633..11047685, +
1.12e-106FFCP PHASE1:Hg19::chr6:160311995..160312034,+#_bf8ddd181529c4f55590d5e6ea9e809dp@chr6:160311995..160312034, +
1.12e-106FFCP PHASE2:Hg19::chr6:160311995..160312034,+#_bf8ddd181529c4f55590d5e6ea9e809dp@chr6:160311995..160312034, +
2.02e-106FFCP PHASE2:Hg19::chr11:133402347..133402360,-#_0bce8224783e4e610808f3a08ff709d6p6@OPCML
2.02e-106FFCP PHASE1:Hg19::chr11:133402347..133402360,-#_0bce8224783e4e610808f3a08ff709d6p6@OPCML
2.02e-106FFCP PHASE2:Hg19::chr12:87232669..87232696,-#_0bce8224783e4e610808f3a08ff709d6p6@MGAT4C
2.02e-106FFCP PHASE1:Hg19::chr12:87232669..87232696,-#_0bce8224783e4e610808f3a08ff709d6p6@MGAT4C
6.73e-106FFCP PHASE1:Hg19::chr8:110986427..110986445,-#_745105a2c5f0ecf258911bc4cde03b7fp4@KCNV1
6.73e-106FFCP PHASE2:Hg19::chr8:110986427..110986445,-#_745105a2c5f0ecf258911bc4cde03b7fp4@KCNV1
1.11e-105FFCP PHASE1:Hg19::chr20:1975321..1975338,-#_8670327f7c7ffbc54297a78df948402ep3@PDYN
1.11e-105FFCP PHASE2:Hg19::chr20:1975321..1975338,-#_8670327f7c7ffbc54297a78df948402ep3@PDYN
1.34e-105FFCP PHASE1:Hg19::chr6:62390886..62390903,-#_c0303b7f36dcb6640b5e414d35e748b0p1@ENST00000511849
1.34e-105FFCP PHASE2:Hg19::chr6:62390886..62390903,-#_c0303b7f36dcb6640b5e414d35e748b0p1@ENST00000511849
1.34e-105FFCP PHASE1:Hg19::chr4:39064313..39064326,+#_c0303b7f36dcb6640b5e414d35e748b0p7@KLHL5
1.34e-105FFCP PHASE2:Hg19::chr4:39064313..39064326,+#_c0303b7f36dcb6640b5e414d35e748b0p7@KLHL5
2.69e-105FFCP PHASE2:Hg19::chr6:12718426..12718446,+#_b89283c07850b68ee87058a7e26f8404p24@PHACTR1
2.69e-105FFCP PHASE1:Hg19::chr6:12718426..12718446,+#_b89283c07850b68ee87058a7e26f8404p24@PHACTR1
4.19e-104FFCP PHASE2:Hg19::chr15:30231269..30231299,-#_123e121ca50f2e74e5638f326d832174p@chr15:30231269..30231299, -
4.19e-104FFCP PHASE1:Hg19::chr15:30231269..30231299,-#_123e121ca50f2e74e5638f326d832174p@chr15:30231269..30231299, -
5.28e-104FFCP PHASE2:Hg19::chr11:45564023..45564028,-#_dae9d0ab93afa38eebee4684fe1b8c0fp1@ENST00000525855, p1@ENST00000527642, p1@ENST00000533315
5.28e-104FFCP PHASE1:Hg19::chr11:45564023..45564028,-#_dae9d0ab93afa38eebee4684fe1b8c0fp1@ENST00000525855, p1@ENST00000527642, p1@ENST00000533315
1.57e-103FFCP PHASE2:Hg19::chr10:116852602..116852626,+#_b3291f9332015d616969b74ab76cdc1ap5@ATRNL1
1.57e-103FFCP PHASE1:Hg19::chr10:116852602..116852626,+#_b3291f9332015d616969b74ab76cdc1ap5@ATRNL1
2.22e-103FFCP PHASE1:Hg19::chr5:94621232..94621256,-#_f03201c3fbe0ee0b9968a78baaca9d89p@chr5:94621232..94621256, -
2.22e-103FFCP PHASE2:Hg19::chr5:94621232..94621256,-#_f03201c3fbe0ee0b9968a78baaca9d89p@chr5:94621232..94621256, -
2.73e-103FFCP PHASE1:Hg19::chr3:62359214..62359232,-#_573c910d140a255d12b8cb2ef693ce05p1@FEZF2
2.73e-103FFCP PHASE2:Hg19::chr3:62359214..62359232,-#_573c910d140a255d12b8cb2ef693ce05p1@FEZF2
3.26e-103FFCP PHASE1:Hg19::chr2:136343886..136343897,+#_a9f43fba58f1ddc771671634ceaa3dbbp4@R3HDM1
3.26e-103FFCP PHASE2:Hg19::chr2:136343886..136343897,+#_a9f43fba58f1ddc771671634ceaa3dbbp4@R3HDM1
1.5e-102FFCP PHASE1:Hg19::chr2:10508688..10508712,+#_64d8f2826862bcd6fd900f13321ea567p8@HPCAL1
1.5e-102FFCP PHASE2:Hg19::chr2:10508688..10508712,+#_64d8f2826862bcd6fd900f13321ea567p8@HPCAL1
2.05e-102FFCP PHASE2:Hg19::chr12:122794425..122794445,-#_187a23ed2a738e78779b27c93a6459d6p@chr12:122794425..122794445, -
2.05e-102FFCP PHASE1:Hg19::chr12:122794425..122794445,-#_187a23ed2a738e78779b27c93a6459d6p@chr12:122794425..122794445, -
3.64e-102FFCP PHASE1:Hg19::chr17:37764312..37764326,-#_a0d1d92de319ac0e41b97dca47f78996p2@NEUROD2
3.64e-102FFCP PHASE2:Hg19::chr17:37764312..37764326,-#_a0d1d92de319ac0e41b97dca47f78996p2@NEUROD2
4.48e-102FFCP PHASE1:Hg19::chr12:14133429..14133438,-#_a4a0bd248ab2a63d10610a38ed0198d6p3@GRIN2B
4.48e-102FFCP PHASE2:Hg19::chr12:14133429..14133438,-#_a4a0bd248ab2a63d10610a38ed0198d6p3@GRIN2B
1.95e-101FFCP PHASE2:Hg19::chr16:758701..758727,+#_e47e7dc7876671124dd9feeff69fd47fp@chr16:758701..758727, +
1.95e-101FFCP PHASE1:Hg19::chr16:758701..758727,+#_e47e7dc7876671124dd9feeff69fd47fp@chr16:758701..758727, +
5.99e-101FFCP PHASE1:Hg19::chr1:177134348..177134360,-#_09aafd927007e0f32674923a45cc260ep10@ASTN1
5.99e-101FFCP PHASE2:Hg19::chr1:177134348..177134360,-#_09aafd927007e0f32674923a45cc260ep10@ASTN1
6.35e-101FFCP PHASE2:Hg19::chr5:80255907..80255942,+#_7e51d68eae0281203465e5410025bf75p@chr5:80255907..80255942, +
6.35e-101FFCP PHASE1:Hg19::chr5:80255907..80255942,+#_7e51d68eae0281203465e5410025bf75p@chr5:80255907..80255942, +
8.54e-101FFCP PHASE1:Hg19::chr11:84431459..84431498,-#_0c346de9256863a02a356f0aeffe19ffp@chr11:84431459..84431498, -
8.54e-101FFCP PHASE2:Hg19::chr11:84431459..84431498,-#_0c346de9256863a02a356f0aeffe19ffp@chr11:84431459..84431498, -
1.54e-100FFCP PHASE1:Hg19::chr17:36757284..36757327,+#_30fed1a1bb921e1c097cc76888449390p@chr17:36757284..36757327, +
1.54e-100FFCP PHASE2:Hg19::chr17:36757284..36757327,+#_30fed1a1bb921e1c097cc76888449390p@chr17:36757284..36757327, +
1.94e-100FFCP PHASE1:Hg19::chr4:6474536..6474563,-#_7a1c6a84d34764f659214c211b43228dp9@PPP2R2C
1.94e-100FFCP PHASE2:Hg19::chr4:6474536..6474563,-#_7a1c6a84d34764f659214c211b43228dp9@PPP2R2C
5.35e-100FFCP PHASE2:Hg19::chr1:50575292..50575326,+#_ad64726cafa7830aed518f1bd3a02872p8@ELAVL4
5.35e-100FFCP PHASE1:Hg19::chr1:50575292..50575326,+#_ad64726cafa7830aed518f1bd3a02872p8@ELAVL4
5.71e-100FFCP PHASE1:Hg19::chr10:14372834..14372846,-#_f61db5ee99a971e621c07c1c41c50662p12@FRMD4A
5.71e-100FFCP PHASE2:Hg19::chr10:14372834..14372846,-#_f61db5ee99a971e621c07c1c41c50662p12@FRMD4A
7.95e-100FFCP PHASE2:Hg19::chr5:56910048..56910074,+#_5c7ef5b83c337e6e3dcffb1422687d5fp1@ENST00000509844
7.95e-100FFCP PHASE1:Hg19::chr5:56910048..56910074,+#_5c7ef5b83c337e6e3dcffb1422687d5fp1@ENST00000509844
9.35e-100FFCP PHASE2:Hg19::chr6:53976259..53976270,+#_59bb9274500a85ae43eb25399e402f57p5@MLIP
9.35e-100FFCP PHASE1:Hg19::chr6:53976259..53976270,+#_59bb9274500a85ae43eb25399e402f57p5@MLIP
1.13e-99FFCP PHASE2:Hg19::chr6:98264571..98264591,+#_7b2a3aad6fb9c0956025c3f7e431c3d8p@chr6:98264571..98264591, +
1.13e-99FFCP PHASE1:Hg19::chr6:98264571..98264591,+#_7b2a3aad6fb9c0956025c3f7e431c3d8p@chr6:98264571..98264591, +
2.26e-99FFCP PHASE2:Hg19::chr5:63256975..63257005,-#_83830d5fad20583908823eba4dd5a0ecp1@HTR1A
2.26e-99FFCP PHASE1:Hg19::chr5:63256975..63257005,-#_83830d5fad20583908823eba4dd5a0ecp1@HTR1A

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