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UBERON:0002308

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Name:nucleus of brain
Namespace:FANTOM
Definition:"Nucleus of neuraxis which is located within the brain. Example: pontobulbar nucleus, globose nucleus[FMA]. brain structure consisting of a relatively compact cluster of neurons. It is one of the two most common forms of nerve cell organization, the other being layered structures such as the cerebral cortex or cerebellar cortex. In anatomical sections, a nucleus shows up as a region of gray matter, often bordered by white matter. The vertebrate brain contains hundreds of distinguishable nuclei, varying widely in shape and size. A nucleus may itself have a complex internal structure, with multiple types of neurons arranged in clumps (subnuclei) or layers.[Wikipedia]" [FMA:83840, Wikipedia:Nucleus_(neuroanatomy)]
Xrefs:
links:

FMA:83840
MA:0000811
ncithesaurus:Brain_Nucleus
SCTID:426465002

ZFA:0005575
Synonyms: "brain nucleus" EXACT []
Comments:We considered merging with 'neural nucleus'
Alt_id: UBERON:FMA_83840-MA_0000811

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:0000125(neural nucleus)
part_of:UBERON:0000955(brain),UBERON:0003528(brain grey matter)



Children

is a:UBERON:0006331 (brainstem nucleus),UBERON:0009661 (midbrain nucleus),UBERON:0009662 (hindbrain nucleus),UBERON:0009663 (telencephalic nucleus),UBERON:0010122 (future caudate nucleus)

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:0002308 (nucleus of brain), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
6.51e-112FFCP PHASE2:Hg19::chr2:7112752..7112770,+#_c16e3152b50e7f358d75e58d890733b5p@chr2:7112752..7112770, +
6.51e-112FFCP PHASE1:Hg19::chr2:7112752..7112770,+#_c16e3152b50e7f358d75e58d890733b5p@chr2:7112752..7112770, +
7.88e-112FFCP PHASE2:Hg19::chr22:27727810..27727817,+#_433dac34acd30a7ac0def2ec48aff556p3@ENST00000413244
7.88e-112FFCP PHASE1:Hg19::chr22:27727810..27727817,+#_433dac34acd30a7ac0def2ec48aff556p3@ENST00000413244
4.6e-109FFCP PHASE2:Hg19::chr15:35546024..35546035,-#_44b56044876f98b65bbeb9fb1282fd37p@chr15:35546024..35546035, -
4.6e-109FFCP PHASE2:Hg19::chr2:3853961..3853984,+#_44b56044876f98b65bbeb9fb1282fd37p@chr2:3853961..3853984, +
4.6e-109FFCP PHASE1:Hg19::chr17:19390211..19390223,+#_44b56044876f98b65bbeb9fb1282fd37p@chr17:19390211..19390223, +
4.6e-109FFCP PHASE2:Hg19::chr17:19390211..19390223,+#_44b56044876f98b65bbeb9fb1282fd37p@chr17:19390211..19390223, +
4.6e-109FFCP PHASE1:Hg19::chr15:35546024..35546035,-#_44b56044876f98b65bbeb9fb1282fd37p@chr15:35546024..35546035, -
4.6e-109FFCP PHASE1:Hg19::chr2:3853961..3853984,+#_44b56044876f98b65bbeb9fb1282fd37p@chr2:3853961..3853984, +
6.41e-107FFCP PHASE2:Hg19::chr2:220197419..220197439,-#_3cd2ec3d7d4cc9d65e0b1f40af115802p2@RESP18
6.41e-107FFCP PHASE1:Hg19::chr2:220197419..220197439,-#_3cd2ec3d7d4cc9d65e0b1f40af115802p2@RESP18
3.33e-98FFCP PHASE2:Hg19::chr11:18765839..18765846,-#_125ffaf260e7516b942ee67677c80201p10@PTPN5
3.33e-98FFCP PHASE1:Hg19::chr11:18765839..18765846,-#_125ffaf260e7516b942ee67677c80201p10@PTPN5
4.08e-91FFCP PHASE2:Hg19::chr11:26497871..26497889,+#_f9aa40f4dd1d3d3be298d16d172f83cfp@chr11:26497871..26497889, +
4.08e-91FFCP PHASE2:Hg19::chr10:97261901..97261919,-#_f9aa40f4dd1d3d3be298d16d172f83cfp@chr10:97261901..97261919, -
4.08e-91FFCP PHASE1:Hg19::chr11:26497871..26497889,+#_f9aa40f4dd1d3d3be298d16d172f83cfp@chr11:26497871..26497889, +
4.08e-91FFCP PHASE1:Hg19::chr10:97261901..97261919,-#_f9aa40f4dd1d3d3be298d16d172f83cfp@chr10:97261901..97261919, -
4.91e-91FFCP PHASE2:Hg19::chr22:24828830..24828842,+#_0f8ac09b9f58b171e200ed125dc1ecabp14@ADORA2A
4.91e-91FFCP PHASE2:Hg19::chr1:242372439..242372456,+#_0f8ac09b9f58b171e200ed125dc1ecabp1@ENST00000421878
4.91e-91FFCP PHASE2:Hg19::chr11:26495467..26495474,+#_0f8ac09b9f58b171e200ed125dc1ecabp8@ANO3
4.91e-91FFCP PHASE1:Hg19::chr22:24828830..24828842,+#_0f8ac09b9f58b171e200ed125dc1ecabp14@ADORA2A
4.91e-91FFCP PHASE2:Hg19::chr19:1236637..1236645,-#_0f8ac09b9f58b171e200ed125dc1ecabp@chr19:1236637..1236645, -
4.91e-91FFCP PHASE1:Hg19::chr19:1236637..1236645,-#_0f8ac09b9f58b171e200ed125dc1ecabp@chr19:1236637..1236645, -
4.91e-91FFCP PHASE1:Hg19::chr1:242372439..242372456,+#_0f8ac09b9f58b171e200ed125dc1ecabp1@ENST00000421878
4.91e-91FFCP PHASE1:Hg19::chr11:26495467..26495474,+#_0f8ac09b9f58b171e200ed125dc1ecabp8@ANO3
2.86e-89FFCP PHASE1:Hg19::chr11:67174819..67174825,-#_19bfbad35ba9c545079c3dfeb0719843p14@PPP1CA
2.86e-89FFCP PHASE2:Hg19::chr11:67174819..67174825,-#_19bfbad35ba9c545079c3dfeb0719843p14@PPP1CA
1.33e-87FFCP PHASE2:Hg19::chr17:19390234..19390251,+#_509572932b3abd07f9e56f275065594fp@chr17:19390234..19390251, +
1.33e-87FFCP PHASE1:Hg19::chr17:19390234..19390251,+#_509572932b3abd07f9e56f275065594fp@chr17:19390234..19390251, +
1.37e-87FFCP PHASE2:Hg19::chr8:25281776..25281779,-#_e07bf0b3efe8b85032cd5e1efc82580dp1@GNRH1
1.37e-87FFCP PHASE1:Hg19::chr1:31352916..31352926,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr1:31352916..31352926, -
1.37e-87FFCP PHASE2:Hg19::chr14:78638610..78638621,+#_e07bf0b3efe8b85032cd5e1efc82580dp@chr14:78638610..78638621, +
1.37e-87FFCP PHASE2:Hg19::chr2:152828264..152828299,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr2:152828264..152828299, -
1.37e-87FFCP PHASE2:Hg19::chr7:29846088..29846091,+#_e07bf0b3efe8b85032cd5e1efc82580dp20@WIPF3
1.37e-87FFCP PHASE1:Hg19::chr8:19799565..19799589,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr8:19799565..19799589, -
1.37e-87FFCP PHASE2:Hg19::chr18:47967428..47967437,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr18:47967428..47967437, -
1.37e-87FFCP PHASE1:Hg19::chr7:22382758..22382765,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr7:22382758..22382765, -
1.37e-87FFCP PHASE1:Hg19::chr18:47967428..47967437,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr18:47967428..47967437, -
1.37e-87FFCP PHASE1:Hg19::chr15:35546154..35546174,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr15:35546154..35546174, -
1.37e-87FFCP PHASE1:Hg19::chr7:29846088..29846091,+#_e07bf0b3efe8b85032cd5e1efc82580dp20@WIPF3
1.37e-87FFCP PHASE2:Hg19::chr7:22382758..22382765,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr7:22382758..22382765, -
1.37e-87FFCP PHASE1:Hg19::chr12:6031299..6031315,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr12:6031299..6031315, -
1.37e-87FFCP PHASE2:Hg19::chr1:31352916..31352926,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr1:31352916..31352926, -
1.37e-87FFCP PHASE1:Hg19::chr8:25281776..25281779,-#_e07bf0b3efe8b85032cd5e1efc82580dp1@GNRH1
1.37e-87FFCP PHASE2:Hg19::chr15:35546154..35546174,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr15:35546154..35546174, -
1.37e-87FFCP PHASE2:Hg19::chr12:6031299..6031315,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr12:6031299..6031315, -
1.37e-87FFCP PHASE2:Hg19::chr13:112726433..112726446,+#_e07bf0b3efe8b85032cd5e1efc82580dp@chr13:112726433..112726446, +
1.37e-87FFCP PHASE1:Hg19::chr14:78638610..78638621,+#_e07bf0b3efe8b85032cd5e1efc82580dp@chr14:78638610..78638621, +
1.37e-87FFCP PHASE1:Hg19::chr13:112726433..112726446,+#_e07bf0b3efe8b85032cd5e1efc82580dp@chr13:112726433..112726446, +
1.37e-87FFCP PHASE2:Hg19::chr8:19799565..19799589,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr8:19799565..19799589, -
1.37e-87FFCP PHASE1:Hg19::chr2:152828264..152828299,-#_e07bf0b3efe8b85032cd5e1efc82580dp@chr2:152828264..152828299, -
1.54e-87FFCP PHASE2:Hg19::chr3:35722978..35722999,+#_8ffeb27e63659b4e2f8b4eac2a493810p28@ARPP21
1.54e-87FFCP PHASE1:Hg19::chr3:35722978..35722999,+#_8ffeb27e63659b4e2f8b4eac2a493810p28@ARPP21
1.79e-87FFCP PHASE2:Hg19::chr11:26495447..26495461,+#_9114e87d0d3858f9725f97f584de2564p5@ANO3
1.79e-87FFCP PHASE2:Hg19::chr10:73313437..73313451,-#_9114e87d0d3858f9725f97f584de2564p@chr10:73313437..73313451, -
1.79e-87FFCP PHASE1:Hg19::chr10:73313437..73313451,-#_9114e87d0d3858f9725f97f584de2564p@chr10:73313437..73313451, -
1.79e-87FFCP PHASE1:Hg19::chr11:26495447..26495461,+#_9114e87d0d3858f9725f97f584de2564p5@ANO3
2.08e-87FFCP PHASE1:Hg19::chr3:16851273..16851310,+#_5158532b67435ead03f74255f7606e0dp@chr3:16851273..16851310, +
2.08e-87FFCP PHASE2:Hg19::chr3:16851273..16851310,+#_5158532b67435ead03f74255f7606e0dp@chr3:16851273..16851310, +
2.42e-87FFCP PHASE1:Hg19::chr14:78638636..78638661,+#_cdced2ec490049a865d6eeee55b0b713p@chr14:78638636..78638661, +
2.42e-87FFCP PHASE2:Hg19::chr7:67899920..67899958,-#_cdced2ec490049a865d6eeee55b0b713p@chr7:67899920..67899958, -
2.42e-87FFCP PHASE1:Hg19::chr7:67899920..67899958,-#_cdced2ec490049a865d6eeee55b0b713p@chr7:67899920..67899958, -
2.42e-87FFCP PHASE2:Hg19::chr14:78638636..78638661,+#_cdced2ec490049a865d6eeee55b0b713p@chr14:78638636..78638661, +
5.29e-79FFCP PHASE2:Hg19::chr6:166076645..166076657,-#_191e9605580a771e84cb5ea1a96a08b1p@chr6:166076645..166076657, -
5.29e-79FFCP PHASE1:Hg19::chr6:166076645..166076657,-#_191e9605580a771e84cb5ea1a96a08b1p@chr6:166076645..166076657, -
6.06e-79FFCP PHASE2:Hg19::chr11:18765589..18765610,-#_2b2d088b9c28856f0760bc99af0334e8p6@PTPN5
6.06e-79FFCP PHASE1:Hg19::chr22:27727719..27727726,+#_2b2d088b9c28856f0760bc99af0334e8p2@ENST00000413244
6.06e-79FFCP PHASE1:Hg19::chr11:18765589..18765610,-#_2b2d088b9c28856f0760bc99af0334e8p6@PTPN5
6.06e-79FFCP PHASE2:Hg19::chr22:27727719..27727726,+#_2b2d088b9c28856f0760bc99af0334e8p2@ENST00000413244
1.55e-78FFCP PHASE1:Hg19::chr21:43917191..43917207,-#_a3c3ff143f3a7ec120b7bdc0a3db7d12p@chr21:43917191..43917207, -
1.55e-78FFCP PHASE2:Hg19::chr21:43917191..43917207,-#_a3c3ff143f3a7ec120b7bdc0a3db7d12p@chr21:43917191..43917207, -
2.32e-78FFCP PHASE1:Hg19::chr5:75379091..75379100,+#_d77888b495137d106c05ac0ebc131ec9p6@SV2C
2.32e-78FFCP PHASE2:Hg19::chr13:98995904..98995913,+#_d77888b495137d106c05ac0ebc131ec9p@chr13:98995904..98995913, +
2.32e-78FFCP PHASE2:Hg19::chr6:80472250..80472261,+#_d77888b495137d106c05ac0ebc131ec9p@chr6:80472250..80472261, +
2.32e-78FFCP PHASE1:Hg19::chr6:80472250..80472261,+#_d77888b495137d106c05ac0ebc131ec9p@chr6:80472250..80472261, +
2.32e-78FFCP PHASE2:Hg19::chr5:75379091..75379100,+#_d77888b495137d106c05ac0ebc131ec9p6@SV2C
2.32e-78FFCP PHASE1:Hg19::chr13:98995904..98995913,+#_d77888b495137d106c05ac0ebc131ec9p@chr13:98995904..98995913, +
3.19e-78FFCP PHASE1:Hg19::chr11:80886203..80886231,+#_516b4a986040e565aa3910b9dd6ba469p@chr11:80886203..80886231, +
3.19e-78FFCP PHASE1:Hg19::chr1:101003738..101003747,+#_516b4a986040e565aa3910b9dd6ba469p9@GPR88
3.19e-78FFCP PHASE2:Hg19::chr1:101003738..101003747,+#_516b4a986040e565aa3910b9dd6ba469p9@GPR88
3.19e-78FFCP PHASE1:Hg19::chrX:37765754..37765765,+#_516b4a986040e565aa3910b9dd6ba469p11@ENST00000449263
3.19e-78FFCP PHASE2:Hg19::chrX:37765754..37765765,+#_516b4a986040e565aa3910b9dd6ba469p11@ENST00000449263
3.19e-78FFCP PHASE2:Hg19::chr11:80886203..80886231,+#_516b4a986040e565aa3910b9dd6ba469p@chr11:80886203..80886231, +
3.75e-78FFCP PHASE1:Hg19::chr5:79866189..79866202,+#_8efa8eb57fe4e4367b68710724b48be1p@chr5:79866189..79866202, +
3.75e-78FFCP PHASE1:Hg19::chr20:9495125..9495132,+#_8efa8eb57fe4e4367b68710724b48be1p17@LAMP5
3.75e-78FFCP PHASE2:Hg19::chr5:79866189..79866202,+#_8efa8eb57fe4e4367b68710724b48be1p@chr5:79866189..79866202, +
3.75e-78FFCP PHASE2:Hg19::chr20:9495125..9495132,+#_8efa8eb57fe4e4367b68710724b48be1p17@LAMP5
5.78e-72FFCP PHASE2:Hg19::chr12:122181551..122181562,+#_0a25e1953fd7d025a97de5c05543c532p@chr12:122181551..122181562, +
5.78e-72FFCP PHASE1:Hg19::chr12:122181551..122181562,+#_0a25e1953fd7d025a97de5c05543c532p@chr12:122181551..122181562, +
7.39e-72FFCP PHASE1:Hg19::chr11:120690389..120690422,+#_fe2368db756b33668313e24453c850c2p@chr11:120690389..120690422, +
7.39e-72FFCP PHASE2:Hg19::chr11:120690389..120690422,+#_fe2368db756b33668313e24453c850c2p@chr11:120690389..120690422, +
1.07e-71FFCP PHASE1:Hg19::chr14:78638668..78638680,+#_8f8d05edcd33d949ea57861033da83ebp@chr14:78638668..78638680, +
1.07e-71FFCP PHASE2:Hg19::chr14:78638668..78638680,+#_8f8d05edcd33d949ea57861033da83ebp@chr14:78638668..78638680, +
2.16e-70FFCP PHASE2:Hg19::chr2:127783377..127783391,+#_22ea3aa940871f772abadaea8dd5bf3ep2@BC051739
2.16e-70FFCP PHASE1:Hg19::chr3:57807798..57807809,+#_22ea3aa940871f772abadaea8dd5bf3ep@chr3:57807798..57807809, +
2.16e-70FFCP PHASE1:Hg19::chr10:97261874..97261887,-#_22ea3aa940871f772abadaea8dd5bf3ep@chr10:97261874..97261887, -
2.16e-70FFCP PHASE2:Hg19::chr10:97261874..97261887,-#_22ea3aa940871f772abadaea8dd5bf3ep@chr10:97261874..97261887, -
2.16e-70FFCP PHASE2:Hg19::chr20:9496091..9496106,+#_22ea3aa940871f772abadaea8dd5bf3ep@chr20:9496091..9496106, +
2.16e-70FFCP PHASE2:Hg19::chr3:57807798..57807809,+#_22ea3aa940871f772abadaea8dd5bf3ep@chr3:57807798..57807809, +

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