UBERON:0002308: Difference between revisions
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|located_in= | |located_in= | ||
|name=nucleus of brain | |name=nucleus of brain | ||
|namespace= | |namespace=FANTOM | ||
|obo_creation_date= | |obo_creation_date= | ||
|part_of=UBERON:0000955;;UBERON:0003528 | |part_of=UBERON:0000955;;UBERON:0003528 | ||
Latest revision as of 17:29, 12 September 2014
| 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: |
| ||
| 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)
- 10037-101F1 (nucleus accumbens, adult, pool1)
- 10152-102I8 (putamen, adult, donor10252)
- 10158-103A5 (substantia nigra, adult, donor10252)
- 10161-103A8 (globus pallidus, adult, donor10252)
- 10164-103B2 (caudate nucleus, adult, donor10252)
- 10165-103B3 (locus coeruleus, adult, donor10252)
- 10175-103C4 (globus pallidus - adult, donor10196)
- 10176-103C5 (putamen, adult, donor10196)
- 10177-103C6 (caudate nucleus - adult, donor10196)
- 10178-103C7 (substantia nigra - adult, donor10196)
... further results Mouse (Mus musculus)
- 10037-101F1 (nucleus accumbens, adult, pool1)
- 10152-102I8 (putamen, adult, donor10252)
- 10158-103A5 (substantia nigra, adult, donor10252)
- 10161-103A8 (globus pallidus, adult, donor10252)
- 10164-103B2 (caudate nucleus, adult, donor10252)
- 10165-103B3 (locus coeruleus, adult, donor10252)
- 10175-103C4 (globus pallidus - adult, donor10196)
- 10176-103C5 (putamen, adult, donor10196)
- 10177-103C6 (caudate nucleus - adult, donor10196)
- 10178-103C7 (substantia nigra - adult, donor10196)
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-value | FFCP | Short description |
|---|---|---|
| 6.51e-112 | FFCP PHASE2:Hg19::chr2:7112752..7112770,+#_c16e3152b50e7f358d75e58d890733b5 | p@chr2:7112752..7112770, + |
| 6.51e-112 | FFCP PHASE1:Hg19::chr2:7112752..7112770,+#_c16e3152b50e7f358d75e58d890733b5 | p@chr2:7112752..7112770, + |
| 7.88e-112 | FFCP PHASE2:Hg19::chr22:27727810..27727817,+#_433dac34acd30a7ac0def2ec48aff556 | p3@ENST00000413244 |
| 7.88e-112 | FFCP PHASE1:Hg19::chr22:27727810..27727817,+#_433dac34acd30a7ac0def2ec48aff556 | p3@ENST00000413244 |
| 4.6e-109 | FFCP PHASE2:Hg19::chr15:35546024..35546035,-#_44b56044876f98b65bbeb9fb1282fd37 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE2:Hg19::chr2:3853961..3853984,+#_44b56044876f98b65bbeb9fb1282fd37 | p@chr2:3853961..3853984, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr17:19390211..19390223,+#_44b56044876f98b65bbeb9fb1282fd37 | p@chr17:19390211..19390223, + |
| 4.6e-109 | FFCP PHASE2:Hg19::chr17:19390211..19390223,+#_44b56044876f98b65bbeb9fb1282fd37 | p@chr17:19390211..19390223, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr15:35546024..35546035,-#_44b56044876f98b65bbeb9fb1282fd37 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE1:Hg19::chr2:3853961..3853984,+#_44b56044876f98b65bbeb9fb1282fd37 | p@chr2:3853961..3853984, + |
| 6.41e-107 | FFCP PHASE2:Hg19::chr2:220197419..220197439,-#_3cd2ec3d7d4cc9d65e0b1f40af115802 | p2@RESP18 |
| 6.41e-107 | FFCP PHASE1:Hg19::chr2:220197419..220197439,-#_3cd2ec3d7d4cc9d65e0b1f40af115802 | p2@RESP18 |
| 3.33e-98 | FFCP PHASE2:Hg19::chr11:18765839..18765846,-#_125ffaf260e7516b942ee67677c80201 | p10@PTPN5 |
| 3.33e-98 | FFCP PHASE1:Hg19::chr11:18765839..18765846,-#_125ffaf260e7516b942ee67677c80201 | p10@PTPN5 |
| 4.08e-91 | FFCP PHASE2:Hg19::chr11:26497871..26497889,+#_f9aa40f4dd1d3d3be298d16d172f83cf | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE2:Hg19::chr10:97261901..97261919,-#_f9aa40f4dd1d3d3be298d16d172f83cf | p@chr10:97261901..97261919, - |
| 4.08e-91 | FFCP PHASE1:Hg19::chr11:26497871..26497889,+#_f9aa40f4dd1d3d3be298d16d172f83cf | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE1:Hg19::chr10:97261901..97261919,-#_f9aa40f4dd1d3d3be298d16d172f83cf | p@chr10:97261901..97261919, - |
| 4.91e-91 | FFCP PHASE2:Hg19::chr22:24828830..24828842,+#_0f8ac09b9f58b171e200ed125dc1ecab | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE2:Hg19::chr1:242372439..242372456,+#_0f8ac09b9f58b171e200ed125dc1ecab | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE2:Hg19::chr11:26495467..26495474,+#_0f8ac09b9f58b171e200ed125dc1ecab | p8@ANO3 |
| 4.91e-91 | FFCP PHASE1:Hg19::chr22:24828830..24828842,+#_0f8ac09b9f58b171e200ed125dc1ecab | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE2:Hg19::chr19:1236637..1236645,-#_0f8ac09b9f58b171e200ed125dc1ecab | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE1:Hg19::chr19:1236637..1236645,-#_0f8ac09b9f58b171e200ed125dc1ecab | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE1:Hg19::chr1:242372439..242372456,+#_0f8ac09b9f58b171e200ed125dc1ecab | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE1:Hg19::chr11:26495467..26495474,+#_0f8ac09b9f58b171e200ed125dc1ecab | p8@ANO3 |
| 2.86e-89 | FFCP PHASE1:Hg19::chr11:67174819..67174825,-#_19bfbad35ba9c545079c3dfeb0719843 | p14@PPP1CA |
| 2.86e-89 | FFCP PHASE2:Hg19::chr11:67174819..67174825,-#_19bfbad35ba9c545079c3dfeb0719843 | p14@PPP1CA |
| 1.33e-87 | FFCP PHASE2:Hg19::chr17:19390234..19390251,+#_509572932b3abd07f9e56f275065594f | p@chr17:19390234..19390251, + |
| 1.33e-87 | FFCP PHASE1:Hg19::chr17:19390234..19390251,+#_509572932b3abd07f9e56f275065594f | p@chr17:19390234..19390251, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:25281776..25281779,-#_e07bf0b3efe8b85032cd5e1efc82580d | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr1:31352916..31352926,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr14:78638610..78638621,+#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr2:152828264..152828299,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr2:152828264..152828299, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:29846088..29846091,+#_e07bf0b3efe8b85032cd5e1efc82580d | p20@WIPF3 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:19799565..19799589,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr18:47967428..47967437,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:22382758..22382765,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr18:47967428..47967437,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr15:35546154..35546174,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:29846088..29846091,+#_e07bf0b3efe8b85032cd5e1efc82580d | p20@WIPF3 |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:22382758..22382765,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr12:6031299..6031315,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr1:31352916..31352926,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:25281776..25281779,-#_e07bf0b3efe8b85032cd5e1efc82580d | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE2:Hg19::chr15:35546154..35546174,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr12:6031299..6031315,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr13:112726433..112726446,+#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr14:78638610..78638621,+#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr13:112726433..112726446,+#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:19799565..19799589,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr2:152828264..152828299,-#_e07bf0b3efe8b85032cd5e1efc82580d | p@chr2:152828264..152828299, - |
| 1.54e-87 | FFCP PHASE2:Hg19::chr3:35722978..35722999,+#_8ffeb27e63659b4e2f8b4eac2a493810 | p28@ARPP21 |
| 1.54e-87 | FFCP PHASE1:Hg19::chr3:35722978..35722999,+#_8ffeb27e63659b4e2f8b4eac2a493810 | p28@ARPP21 |
| 1.79e-87 | FFCP PHASE2:Hg19::chr11:26495447..26495461,+#_9114e87d0d3858f9725f97f584de2564 | p5@ANO3 |
| 1.79e-87 | FFCP PHASE2:Hg19::chr10:73313437..73313451,-#_9114e87d0d3858f9725f97f584de2564 | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE1:Hg19::chr10:73313437..73313451,-#_9114e87d0d3858f9725f97f584de2564 | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE1:Hg19::chr11:26495447..26495461,+#_9114e87d0d3858f9725f97f584de2564 | p5@ANO3 |
| 2.08e-87 | FFCP PHASE1:Hg19::chr3:16851273..16851310,+#_5158532b67435ead03f74255f7606e0d | p@chr3:16851273..16851310, + |
| 2.08e-87 | FFCP PHASE2:Hg19::chr3:16851273..16851310,+#_5158532b67435ead03f74255f7606e0d | p@chr3:16851273..16851310, + |
| 2.42e-87 | FFCP PHASE1:Hg19::chr14:78638636..78638661,+#_cdced2ec490049a865d6eeee55b0b713 | p@chr14:78638636..78638661, + |
| 2.42e-87 | FFCP PHASE2:Hg19::chr7:67899920..67899958,-#_cdced2ec490049a865d6eeee55b0b713 | p@chr7:67899920..67899958, - |
| 2.42e-87 | FFCP PHASE1:Hg19::chr7:67899920..67899958,-#_cdced2ec490049a865d6eeee55b0b713 | p@chr7:67899920..67899958, - |
| 2.42e-87 | FFCP PHASE2:Hg19::chr14:78638636..78638661,+#_cdced2ec490049a865d6eeee55b0b713 | p@chr14:78638636..78638661, + |
| 5.29e-79 | FFCP PHASE2:Hg19::chr6:166076645..166076657,-#_191e9605580a771e84cb5ea1a96a08b1 | p@chr6:166076645..166076657, - |
| 5.29e-79 | FFCP PHASE1:Hg19::chr6:166076645..166076657,-#_191e9605580a771e84cb5ea1a96a08b1 | p@chr6:166076645..166076657, - |
| 6.06e-79 | FFCP PHASE2:Hg19::chr11:18765589..18765610,-#_2b2d088b9c28856f0760bc99af0334e8 | p6@PTPN5 |
| 6.06e-79 | FFCP PHASE1:Hg19::chr22:27727719..27727726,+#_2b2d088b9c28856f0760bc99af0334e8 | p2@ENST00000413244 |
| 6.06e-79 | FFCP PHASE1:Hg19::chr11:18765589..18765610,-#_2b2d088b9c28856f0760bc99af0334e8 | p6@PTPN5 |
| 6.06e-79 | FFCP PHASE2:Hg19::chr22:27727719..27727726,+#_2b2d088b9c28856f0760bc99af0334e8 | p2@ENST00000413244 |
| 1.55e-78 | FFCP PHASE1:Hg19::chr21:43917191..43917207,-#_a3c3ff143f3a7ec120b7bdc0a3db7d12 | p@chr21:43917191..43917207, - |
| 1.55e-78 | FFCP PHASE2:Hg19::chr21:43917191..43917207,-#_a3c3ff143f3a7ec120b7bdc0a3db7d12 | p@chr21:43917191..43917207, - |
| 2.32e-78 | FFCP PHASE1:Hg19::chr5:75379091..75379100,+#_d77888b495137d106c05ac0ebc131ec9 | p6@SV2C |
| 2.32e-78 | FFCP PHASE2:Hg19::chr13:98995904..98995913,+#_d77888b495137d106c05ac0ebc131ec9 | p@chr13:98995904..98995913, + |
| 2.32e-78 | FFCP PHASE2:Hg19::chr6:80472250..80472261,+#_d77888b495137d106c05ac0ebc131ec9 | p@chr6:80472250..80472261, + |
| 2.32e-78 | FFCP PHASE1:Hg19::chr6:80472250..80472261,+#_d77888b495137d106c05ac0ebc131ec9 | p@chr6:80472250..80472261, + |
| 2.32e-78 | FFCP PHASE2:Hg19::chr5:75379091..75379100,+#_d77888b495137d106c05ac0ebc131ec9 | p6@SV2C |
| 2.32e-78 | FFCP PHASE1:Hg19::chr13:98995904..98995913,+#_d77888b495137d106c05ac0ebc131ec9 | p@chr13:98995904..98995913, + |
| 3.19e-78 | FFCP PHASE1:Hg19::chr11:80886203..80886231,+#_516b4a986040e565aa3910b9dd6ba469 | p@chr11:80886203..80886231, + |
| 3.19e-78 | FFCP PHASE1:Hg19::chr1:101003738..101003747,+#_516b4a986040e565aa3910b9dd6ba469 | p9@GPR88 |
| 3.19e-78 | FFCP PHASE2:Hg19::chr1:101003738..101003747,+#_516b4a986040e565aa3910b9dd6ba469 | p9@GPR88 |
| 3.19e-78 | FFCP PHASE1:Hg19::chrX:37765754..37765765,+#_516b4a986040e565aa3910b9dd6ba469 | p11@ENST00000449263 |
| 3.19e-78 | FFCP PHASE2:Hg19::chrX:37765754..37765765,+#_516b4a986040e565aa3910b9dd6ba469 | p11@ENST00000449263 |
| 3.19e-78 | FFCP PHASE2:Hg19::chr11:80886203..80886231,+#_516b4a986040e565aa3910b9dd6ba469 | p@chr11:80886203..80886231, + |
| 3.75e-78 | FFCP PHASE1:Hg19::chr5:79866189..79866202,+#_8efa8eb57fe4e4367b68710724b48be1 | p@chr5:79866189..79866202, + |
| 3.75e-78 | FFCP PHASE1:Hg19::chr20:9495125..9495132,+#_8efa8eb57fe4e4367b68710724b48be1 | p17@LAMP5 |
| 3.75e-78 | FFCP PHASE2:Hg19::chr5:79866189..79866202,+#_8efa8eb57fe4e4367b68710724b48be1 | p@chr5:79866189..79866202, + |
| 3.75e-78 | FFCP PHASE2:Hg19::chr20:9495125..9495132,+#_8efa8eb57fe4e4367b68710724b48be1 | p17@LAMP5 |
| 5.78e-72 | FFCP PHASE2:Hg19::chr12:122181551..122181562,+#_0a25e1953fd7d025a97de5c05543c532 | p@chr12:122181551..122181562, + |
| 5.78e-72 | FFCP PHASE1:Hg19::chr12:122181551..122181562,+#_0a25e1953fd7d025a97de5c05543c532 | p@chr12:122181551..122181562, + |
| 7.39e-72 | FFCP PHASE1:Hg19::chr11:120690389..120690422,+#_fe2368db756b33668313e24453c850c2 | p@chr11:120690389..120690422, + |
| 7.39e-72 | FFCP PHASE2:Hg19::chr11:120690389..120690422,+#_fe2368db756b33668313e24453c850c2 | p@chr11:120690389..120690422, + |
| 1.07e-71 | FFCP PHASE1:Hg19::chr14:78638668..78638680,+#_8f8d05edcd33d949ea57861033da83eb | p@chr14:78638668..78638680, + |
| 1.07e-71 | FFCP PHASE2:Hg19::chr14:78638668..78638680,+#_8f8d05edcd33d949ea57861033da83eb | p@chr14:78638668..78638680, + |
| 2.16e-70 | FFCP PHASE2:Hg19::chr2:127783377..127783391,+#_22ea3aa940871f772abadaea8dd5bf3e | p2@BC051739 |
| 2.16e-70 | FFCP PHASE1:Hg19::chr3:57807798..57807809,+#_22ea3aa940871f772abadaea8dd5bf3e | p@chr3:57807798..57807809, + |
| 2.16e-70 | FFCP PHASE1:Hg19::chr10:97261874..97261887,-#_22ea3aa940871f772abadaea8dd5bf3e | p@chr10:97261874..97261887, - |
| 2.16e-70 | FFCP PHASE2:Hg19::chr10:97261874..97261887,-#_22ea3aa940871f772abadaea8dd5bf3e | p@chr10:97261874..97261887, - |
| 2.16e-70 | FFCP PHASE2:Hg19::chr20:9496091..9496106,+#_22ea3aa940871f772abadaea8dd5bf3e | p@chr20:9496091..9496106, + |
| 2.16e-70 | FFCP PHASE2:Hg19::chr3:57807798..57807809,+#_22ea3aa940871f772abadaea8dd5bf3e | p@chr3:57807798..57807809, + |
