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UBERON:0000955

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Name:brain
Namespace:FANTOM
Definition:"The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals.[1] Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." [Wikipedia:Brain]
Xrefs:
links:

AAO:0010478
ABA:Brain
BILA:0000135
BTO:0000142
EFO:0000302
EHDAA2:0000183
EHDAA:2641
EHDAA:6485
EMAPA:16894
EV:0100164
FBbt:00005095
FMA:50801
GAID:571
galen:Brain
MA:0000168
MAT:0000098
MESH:A.08.186.211
MIAA:0000098
ncithesaurus:Brain
NIF_GrossAnatomy:birnlex_796
OpenCyc:Mx4rvVjT65wpEbGdrcN5Y29ycA
SCTID:258335003
TAO:0000008
VHOG:0000157
XAO:0000010

ZFA:0000008
Synonyms: "encephalon" RELATED [BTO:0000142]
"synganglion" RELATED []
Comments:include synganglion?
Alt_id: UBERON:FBbt_00003624-FBbt_00005095-FMA_50801-MA_0000168-MIAA_0000098-MIAA_0000341-WBbt_0005440-XAO_0000010-ZFA_0000008
Subset: major_organ
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:0000062(organ),UBERON:0004121(ectoderm-derived structure)
develops_from:UBERON:0006238(future brain)
part_of:UBERON:0001017(central nervous system)



Children

derives from:FF:0010012 (human brain - adult sample),FF:0010085 (human brain - fetal sample),FF:0100255 (brain cell line sample)
part of:UBERON:0001890 (forebrain),UBERON:0001891 (midbrain),UBERON:0002028 (hindbrain),UBERON:0002298 (brainstem),UBERON:0002308 (nucleus of brain),UBERON:0002616 (regional part of brain),UBERON:0003528 (brain grey matter),UBERON:0003544 (brain white matter),UBERON:0003947 (brain ventricle/choroid plexus),UBERON:0005282 (ventricular system of brain),UBERON:0005284 (brain vasculature),UBERON:0005408 (circumventricular organ),UBERON:0005970 (brain commissure),UBERON:0007702 (tract of brain),CL:2000005 (brain macroglial 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:0000955 (brain), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
1.26e-114FFCP PHASE1:Hg19::chr12:106976678..106976708,+#_36c426f369a151943d5b0393d7e74796p2@RFX4
1.26e-114FFCP PHASE2:Hg19::chr12:106976678..106976708,+#_36c426f369a151943d5b0393d7e74796p2@RFX4
2.46e-114FFCP PHASE1:Hg19::chr4:46126063..46126087,-#_a139bac0ef5932dea4c8e04a247a15d2p2@GABRG1
2.46e-114FFCP PHASE2:Hg19::chr4:46126063..46126087,-#_a139bac0ef5932dea4c8e04a247a15d2p2@GABRG1
2.74e-114FFCP PHASE1:Hg19::chr5:11588907..11588967,-#_ca6b2e45ee56d892e2abc70b179492e7p3@CTNND2
2.74e-114FFCP PHASE2:Hg19::chr5:11588907..11588967,-#_ca6b2e45ee56d892e2abc70b179492e7p3@CTNND2
5.46e-112FFCP PHASE2:Hg19::chr17:68101117..68101162,+#_0a59b556af5729b5b2254a094e31a614p2@KCNJ16
5.46e-112FFCP PHASE1:Hg19::chr17:68101117..68101162,+#_0a59b556af5729b5b2254a094e31a614p2@KCNJ16
2.24e-111FFCP PHASE1:Hg19::chr1:110082487..110082535,+#_849d46406a96478531ab221dc56426fap1@GPR61
2.24e-111FFCP PHASE2:Hg19::chr1:110082487..110082535,+#_849d46406a96478531ab221dc56426fap1@GPR61
2.54e-111FFCP PHASE2:Hg19::chr18:55019840..55019850,+#_8326bc7c64a095073603e52dc20e637fp5@ST8SIA3
2.54e-111FFCP PHASE1:Hg19::chr18:55019840..55019850,+#_8326bc7c64a095073603e52dc20e637fp5@ST8SIA3
1.06e-110FFCP PHASE1:Hg19::chr2:74612644..74612670,+#_47e27e8896802f38755dd86ab2e7cf96p1@ENST00000412957
1.06e-110FFCP PHASE2:Hg19::chr2:74612644..74612670,+#_47e27e8896802f38755dd86ab2e7cf96p1@ENST00000412957
1.37e-110FFCP PHASE2:Hg19::chr12:106976774..106976788,+#_77573903a1849030b6d2b5f8991c2b37p1@RFX4
1.37e-110FFCP PHASE1:Hg19::chr12:106976774..106976788,+#_77573903a1849030b6d2b5f8991c2b37p1@RFX4
2.94e-110FFCP PHASE2:Hg19::chr9:87283501..87283520,+#_df2b745124435c4cce576e15462a3708p17@NTRK2
2.94e-110FFCP PHASE1:Hg19::chr9:87283501..87283520,+#_df2b745124435c4cce576e15462a3708p17@NTRK2
7.73e-110FFCP PHASE2:Hg19::chr12:106976656..106976672,+#_0fde7b3a875067296a7bce0822465e1fp4@RFX4
7.73e-110FFCP PHASE1:Hg19::chr12:106976656..106976672,+#_0fde7b3a875067296a7bce0822465e1fp4@RFX4
1.08e-109FFCP PHASE1:Hg19::chr14:24047772..24047790,-#_01d603d9d01659178b9abb4834ed7409p6@JPH4
1.08e-109FFCP PHASE2:Hg19::chr14:24047772..24047790,-#_01d603d9d01659178b9abb4834ed7409p6@JPH4
1.56e-109FFCP PHASE1:Hg19::chr2:50201220..50201261,-#_9ad4e17ad757c44fb62fc5e3adbf3ba8p3@NRXN1
1.56e-109FFCP PHASE2:Hg19::chr2:50201220..50201261,-#_9ad4e17ad757c44fb62fc5e3adbf3ba8p3@NRXN1
3.69e-109FFCP PHASE1:Hg19::chr8:145560111..145560165,-#_28ec7ae590f1b872cf90b0cbbc641eadp2@SCRT1
3.69e-109FFCP PHASE2:Hg19::chr8:145560111..145560165,-#_28ec7ae590f1b872cf90b0cbbc641eadp2@SCRT1
7.38e-109FFCP PHASE2:Hg19::chr2:74612614..74612643,+#_6a2e1c940a88064934bbf057636da70ap1@ENST00000418990, p1@ENST00000426715, p1@ENST00000427343
7.38e-109FFCP PHASE1:Hg19::chr2:74612614..74612643,+#_6a2e1c940a88064934bbf057636da70ap1@ENST00000418990, p1@ENST00000426715, p1@ENST00000427343
9.84e-109FFCP PHASE1:Hg19::chr5:161275118..161275138,+#_d460285e3b44a61a64d410d34958a03ap3@GABRA1
9.84e-109FFCP PHASE2:Hg19::chr5:161275118..161275138,+#_d460285e3b44a61a64d410d34958a03ap3@GABRA1
1.63e-108FFCP PHASE2:Hg19::chr2:73286253..73286279,-#_9109a9e22889dfbd34b48458296245e4p3@SFXN5
1.63e-108FFCP PHASE1:Hg19::chr2:73286253..73286279,-#_9109a9e22889dfbd34b48458296245e4p3@SFXN5
2.13e-108FFCP PHASE1:Hg19::chr11:83984302..83984330,-#_2eec7915e509d7ca0fba9e8019f2a62cp2@DLG2
2.13e-108FFCP PHASE2:Hg19::chr11:83984302..83984330,-#_2eec7915e509d7ca0fba9e8019f2a62cp2@DLG2
4.2e-108FFCP PHASE1:Hg19::chr4:46126093..46126106,-#_5dcf8b972ce72f47f86bde679e694e7ap3@GABRG1
4.2e-108FFCP PHASE2:Hg19::chr4:46126093..46126106,-#_5dcf8b972ce72f47f86bde679e694e7ap3@GABRG1
4.37e-108FFCP PHASE2:Hg19::chr7:47420733..47420758,-#_9cf4986953c59fc711763721071987d4p@chr7:47420733..47420758, -
4.37e-108FFCP PHASE1:Hg19::chr7:47420733..47420758,-#_9cf4986953c59fc711763721071987d4p@chr7:47420733..47420758, -
5.22e-108FFCP PHASE2:Hg19::chr3:167452969..167453019,+#_83e6d29cfcbf2aa93cc5ab1c586ca40ap2@SERPINI1
5.22e-108FFCP PHASE1:Hg19::chr3:167452969..167453019,+#_83e6d29cfcbf2aa93cc5ab1c586ca40ap2@SERPINI1
5.23e-108FFCP PHASE2:Hg19::chr5:112074041..112074101,+#_3afb44cc5a501a89e7980ac37894243dp4@APC
5.23e-108FFCP PHASE1:Hg19::chr5:112074041..112074101,+#_3afb44cc5a501a89e7980ac37894243dp4@APC
5.65e-108FFCP PHASE2:Hg19::chr5:11384884..11384916,-#_55d336a30075d991f667493303e96538p8@CTNND2
5.65e-108FFCP PHASE1:Hg19::chr5:11384884..11384916,-#_55d336a30075d991f667493303e96538p8@CTNND2
1.1e-107FFCP PHASE1:Hg19::chr4:46126009..46126045,-#_bdedf818ae564faabdd671b5c6727f74p1@GABRG1
1.1e-107FFCP PHASE2:Hg19::chr4:46126009..46126045,-#_bdedf818ae564faabdd671b5c6727f74p1@GABRG1
1.41e-107FFCP PHASE1:Hg19::chrX:13835398..13835429,-#_750d2cbde8996f5c843185ef703a859fp6@GPM6B
1.41e-107FFCP PHASE2:Hg19::chrX:13835398..13835429,-#_750d2cbde8996f5c843185ef703a859fp6@GPM6B
1.62e-107FFCP PHASE1:Hg19::chr6:56716896..56716928,-#_7202566bd27fcd227b4c550b58d94b23p8@DST
1.62e-107FFCP PHASE2:Hg19::chr6:56716896..56716928,-#_7202566bd27fcd227b4c550b58d94b23p8@DST
2.6e-107FFCP PHASE2:Hg19::chr18:32398296..32398318,+#_5ced16335a84150ef08f8c9308794852p7@DTNA
2.6e-107FFCP PHASE1:Hg19::chr18:32398296..32398318,+#_5ced16335a84150ef08f8c9308794852p7@DTNA
4.0e-107FFCP PHASE2:Hg19::chr7:98467524..98467537,-#_bf619c7a54278cd884e4ded2699cb72cp3@TMEM130
4.0e-107FFCP PHASE1:Hg19::chr7:98467524..98467537,-#_bf619c7a54278cd884e4ded2699cb72cp3@TMEM130
5.57e-107FFCP PHASE1:Hg19::chr17:36760961..36760976,-#_a4077ef84a99ed9219b6a57a995acd7ep2@SRCIN1
5.57e-107FFCP PHASE2:Hg19::chr17:36760961..36760976,-#_a4077ef84a99ed9219b6a57a995acd7ep2@SRCIN1
5.63e-107FFCP PHASE2:Hg19::chr15:79576178..79576222,-#_dafc36aaf9355368eb1d03b3a2565695p1@ENST00000559225, p1@ENST00000559979, p1@ENST00000560533
5.63e-107FFCP PHASE1:Hg19::chr15:79576178..79576222,-#_dafc36aaf9355368eb1d03b3a2565695p1@ENST00000559225, p1@ENST00000559979, p1@ENST00000560533
5.94e-107FFCP PHASE1:Hg19::chr7:14943271..14943288,-#_5fbe4bb6ff24c41c19b8ee507de61c24p3@DGKB
5.94e-107FFCP PHASE2:Hg19::chr7:14943271..14943288,-#_5fbe4bb6ff24c41c19b8ee507de61c24p3@DGKB
7.46e-107FFCP PHASE2:Hg19::chr17:54230819..54230848,+#_b196d6afb9a7d2b32dddc398286ec51fp1@ANKFN1
7.46e-107FFCP PHASE1:Hg19::chr17:54230819..54230848,+#_b196d6afb9a7d2b32dddc398286ec51fp1@ANKFN1
1.58e-106FFCP PHASE1:Hg19::chr1:156217805..156217817,-#_28177e2d3633c04c7ba07792f206c8cep2@PAQR6
1.58e-106FFCP PHASE2:Hg19::chr1:156217805..156217817,-#_28177e2d3633c04c7ba07792f206c8cep2@PAQR6
1.61e-106FFCP PHASE2:Hg19::chr2:210636266..210636306,+#_3fb0dbf4f1734c902365bdc555bdf020p4@UNC80
1.61e-106FFCP PHASE1:Hg19::chr2:210636266..210636306,+#_3fb0dbf4f1734c902365bdc555bdf020p4@UNC80
2.35e-106FFCP PHASE1:Hg19::chr12:99548496..99548518,-#_e830a7248b8ebec11a2fde4284625501p3@ANKS1B
2.35e-106FFCP PHASE2:Hg19::chr12:99548496..99548518,-#_e830a7248b8ebec11a2fde4284625501p3@ANKS1B
3.68e-106FFCP PHASE2:Hg19::chr1:84630574..84630602,+#_15e032aaa1fc3be85f2194e66e169357p9@PRKACB
3.68e-106FFCP PHASE1:Hg19::chr1:84630574..84630602,+#_15e032aaa1fc3be85f2194e66e169357p9@PRKACB
4.29e-106FFCP PHASE1:Hg19::chr8:9763167..9763180,-#_7d60a65f7b3f3df50ff735ba7b7d4f5bp6@ENST00000521242
4.29e-106FFCP PHASE2:Hg19::chr8:9763167..9763180,-#_7d60a65f7b3f3df50ff735ba7b7d4f5bp6@ENST00000521242
4.66e-106FFCP PHASE2:Hg19::chr5:87437100..87437115,-#_ad3d67444d38e08667db3176c1663feap1@LOC100289347
4.66e-106FFCP PHASE1:Hg19::chr5:87437100..87437115,-#_ad3d67444d38e08667db3176c1663feap1@LOC100289347
4.78e-106FFCP PHASE2:Hg19::chr12:22562202..22562222,+#_5dab48e717d4312421ff06c4bda01b9bp@chr12:22562202..22562222, +
4.78e-106FFCP PHASE1:Hg19::chr12:22562202..22562222,+#_5dab48e717d4312421ff06c4bda01b9bp@chr12:22562202..22562222, +
2.35e-105FFCP PHASE1:Hg19::chr17:7560542..7560578,+#_eddeeadfcbca7b0a52c0d1c9cf0dafabp4@ATP1B2
2.35e-105FFCP PHASE2:Hg19::chr17:7560542..7560578,+#_eddeeadfcbca7b0a52c0d1c9cf0dafabp4@ATP1B2
2.56e-105FFCP PHASE1:Hg19::chr7:4998802..4998861,-#_6372a71d8a012880bfcb01963d83d789p1@MMD2
2.56e-105FFCP PHASE2:Hg19::chr7:4998802..4998861,-#_6372a71d8a012880bfcb01963d83d789p1@MMD2
4.86e-105FFCP PHASE1:Hg19::chr5:11386115..11386130,-#_ff00a11a55bae6549749da50024540dcp2@CTNND2
4.86e-105FFCP PHASE2:Hg19::chr5:11386115..11386130,-#_ff00a11a55bae6549749da50024540dcp2@CTNND2
4.99e-105FFCP PHASE2:Hg19::chr11:35441048..35441059,-#_b0a870521c5d59245e9ebbc15b134399p4@SLC1A2
4.99e-105FFCP PHASE1:Hg19::chr11:35441048..35441059,-#_b0a870521c5d59245e9ebbc15b134399p4@SLC1A2
5.65e-105FFCP PHASE2:Hg19::chr17:11973062..11973087,+#_cfab39cfb61a17b066b63c38c336c3e3p4@MAP2K4
5.65e-105FFCP PHASE2:Hg19::chr2:131721216..131721304,+#_cfab39cfb61a17b066b63c38c336c3e3p@chr2:131721216..131721304, +
5.65e-105FFCP PHASE1:Hg19::chr17:11973062..11973087,+#_cfab39cfb61a17b066b63c38c336c3e3p4@MAP2K4
5.65e-105FFCP PHASE1:Hg19::chr2:131721216..131721304,+#_cfab39cfb61a17b066b63c38c336c3e3p@chr2:131721216..131721304, +
6.52e-105FFCP PHASE2:Hg19::chr2:210526233..210526258,+#_8461b28047640f9b5e7816940cde3069p9@MAP2
6.52e-105FFCP PHASE1:Hg19::chr2:210526233..210526258,+#_8461b28047640f9b5e7816940cde3069p9@MAP2
6.71e-105FFCP PHASE1:Hg19::chr7:154002286..154002307,+#_67abbad2cadc5d373668f3f1191b4bb1p3@DPP6
6.71e-105FFCP PHASE2:Hg19::chr7:154002286..154002307,+#_67abbad2cadc5d373668f3f1191b4bb1p3@DPP6
7.56e-105FFCP PHASE1:Hg19::chr1:84630610..84630621,+#_84dbdca74f1b612c80d5532a7bcb66b8p17@PRKACB
7.56e-105FFCP PHASE2:Hg19::chr1:84630610..84630621,+#_84dbdca74f1b612c80d5532a7bcb66b8p17@PRKACB
1.28e-104FFCP PHASE1:Hg19::chr7:36446001..36446028,+#_ae557b5de3c53920cc60b90bd52577e3p4@ANLN
1.28e-104FFCP PHASE2:Hg19::chr7:36446001..36446028,+#_ae557b5de3c53920cc60b90bd52577e3p4@ANLN
1.32e-104FFCP PHASE1:Hg19::chr12:102060419..102060444,+#_11ab8984baade80fe2659d90e8b5e497p2@MYBPC1
1.32e-104FFCP PHASE2:Hg19::chr12:102060419..102060444,+#_11ab8984baade80fe2659d90e8b5e497p2@MYBPC1
1.56e-104FFCP PHASE2:Hg19::chr1:2005182..2005194,+#_fecdc91f2ebe72a44dac1760f68590cdp8@PRKCZ
1.56e-104FFCP PHASE1:Hg19::chr1:2005182..2005194,+#_fecdc91f2ebe72a44dac1760f68590cdp8@PRKCZ










Property "Property value" (as page type) with input value "UBPROP:0000001 "Cavitated compound organ which is comprised of gray and white matter and surrounds the cerebral ventricular system.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process., Property "Property value" (as page type) with input value "UBPROP:0000001 "Part of the central nervous system situated within the cranium and composed of both nerve cell bodies and nerve fibers.[AAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

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