UBERON:0000125: Difference between revisions
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|part_of= | |part_of=UBERON:0001016 | ||
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl | |property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl | ||
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Revision as of 13:25, 27 June 2012
| Name: | neural nucleus | ||
|---|---|---|---|
| Definition: | "Anatomical structure consisting of a discrete aggregate of neuronal soma[GO]." [GO:0048857, GO_REF:0000021, Wikipedia:Nucleus_(neuroanatomy)] | ||
| Xrefs: |
| ||
| Synonyms: |
"neuraxis nucleus" EXACT [FMA:83686] "nucleus" BROAD [] "nucleus of neuraxis" RELATED [] | ||
| Comments: | do not include NIF_Subcellular:sao1702920020 Nucleus. Proposed CUMBO def from MM: A subcortical part of the nervous system consisting of a relatively compact group of cells that is distinguishable histologically that share a commonality of cytoarchitecture, chemoarchitecturel and connectivity. (comments: I put in "subcortical" because I don't think we consider either the cerebellar cortex or cerebral cortex to be nuclei. Some people distinguish between a nucleus and a laminar structure (see Wikipedia definition). However, there are structures identified as nuclei that are laminar, e.g., lateral geniculate nucleus, although they are not laminated in all species. Also, I put in "relatively compact" and "distiguishable by histology" because we have groups of cells, e.g., cholinergic cell groups, doparminergic cell groups that are related on the 3 criteria but which we don't tend to consider nuclei because they don't occupy an easily defined territory. But all is open to debate. |
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:0000073(regional part of nervous system) |
|---|---|
| part_of: | UBERON:0001016(nervous system) |
Children
| is a: | UBERON:0002308 (nucleus of brain) |
|---|
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:0000125 (neural nucleus), 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,+#_02a34646a603f9b7b12a630daf3edbc2 | p@chr2:7112752..7112770, + |
| 6.51e-112 | FFCP PHASE1:Hg19::chr2:7112752..7112770,+#_02a34646a603f9b7b12a630daf3edbc2 | p@chr2:7112752..7112770, + |
| 7.88e-112 | FFCP PHASE2:Hg19::chr22:27727810..27727817,+#_df047eec61dba902e91f9f705026b181 | p3@ENST00000413244 |
| 7.88e-112 | FFCP PHASE1:Hg19::chr22:27727810..27727817,+#_df047eec61dba902e91f9f705026b181 | p3@ENST00000413244 |
| 4.6e-109 | FFCP PHASE2:Hg19::chr15:35546024..35546035,-#_d23b414bfac5ec82116a13a1b9b60986 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE2:Hg19::chr2:3853961..3853984,+#_d23b414bfac5ec82116a13a1b9b60986 | p@chr2:3853961..3853984, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr17:19390211..19390223,+#_d23b414bfac5ec82116a13a1b9b60986 | p@chr17:19390211..19390223, + |
| 4.6e-109 | FFCP PHASE2:Hg19::chr17:19390211..19390223,+#_d23b414bfac5ec82116a13a1b9b60986 | p@chr17:19390211..19390223, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr15:35546024..35546035,-#_d23b414bfac5ec82116a13a1b9b60986 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE1:Hg19::chr2:3853961..3853984,+#_d23b414bfac5ec82116a13a1b9b60986 | p@chr2:3853961..3853984, + |
| 6.41e-107 | FFCP PHASE2:Hg19::chr2:220197419..220197439,-#_6fc5ed6127a76e5320dd56bfd607ed6b | p2@RESP18 |
| 6.41e-107 | FFCP PHASE1:Hg19::chr2:220197419..220197439,-#_6fc5ed6127a76e5320dd56bfd607ed6b | p2@RESP18 |
| 3.33e-98 | FFCP PHASE2:Hg19::chr11:18765839..18765846,-#_586cf29d8b306b3acf7697f8f8f15980 | p10@PTPN5 |
| 3.33e-98 | FFCP PHASE1:Hg19::chr11:18765839..18765846,-#_586cf29d8b306b3acf7697f8f8f15980 | p10@PTPN5 |
| 4.08e-91 | FFCP PHASE2:Hg19::chr11:26497871..26497889,+#_8a0831d3aefef1a8bcce8eba3978a925 | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE2:Hg19::chr10:97261901..97261919,-#_8a0831d3aefef1a8bcce8eba3978a925 | p@chr10:97261901..97261919, - |
| 4.08e-91 | FFCP PHASE1:Hg19::chr11:26497871..26497889,+#_8a0831d3aefef1a8bcce8eba3978a925 | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE1:Hg19::chr10:97261901..97261919,-#_8a0831d3aefef1a8bcce8eba3978a925 | p@chr10:97261901..97261919, - |
| 4.91e-91 | FFCP PHASE2:Hg19::chr22:24828830..24828842,+#_d4a2c9ba061b51df18720df323a6968a | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE2:Hg19::chr1:242372439..242372456,+#_d4a2c9ba061b51df18720df323a6968a | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE2:Hg19::chr11:26495467..26495474,+#_d4a2c9ba061b51df18720df323a6968a | p8@ANO3 |
| 4.91e-91 | FFCP PHASE1:Hg19::chr22:24828830..24828842,+#_d4a2c9ba061b51df18720df323a6968a | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE2:Hg19::chr19:1236637..1236645,-#_d4a2c9ba061b51df18720df323a6968a | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE1:Hg19::chr19:1236637..1236645,-#_d4a2c9ba061b51df18720df323a6968a | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE1:Hg19::chr1:242372439..242372456,+#_d4a2c9ba061b51df18720df323a6968a | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE1:Hg19::chr11:26495467..26495474,+#_d4a2c9ba061b51df18720df323a6968a | p8@ANO3 |
| 2.86e-89 | FFCP PHASE1:Hg19::chr11:67174819..67174825,-#_5ebc6196d37a09845db262a7883fd883 | p14@PPP1CA |
| 2.86e-89 | FFCP PHASE2:Hg19::chr11:67174819..67174825,-#_5ebc6196d37a09845db262a7883fd883 | p14@PPP1CA |
| 1.33e-87 | FFCP PHASE2:Hg19::chr17:19390234..19390251,+#_4c69a3fdadd8a4047ead6a1d2b121162 | p@chr17:19390234..19390251, + |
| 1.33e-87 | FFCP PHASE1:Hg19::chr17:19390234..19390251,+#_4c69a3fdadd8a4047ead6a1d2b121162 | p@chr17:19390234..19390251, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:25281776..25281779,-#_7b9575641cc9053363d6425c62ce6b1c | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr1:31352916..31352926,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr14:78638610..78638621,+#_7b9575641cc9053363d6425c62ce6b1c | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr2:152828264..152828299,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr2:152828264..152828299, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:29846088..29846091,+#_7b9575641cc9053363d6425c62ce6b1c | p20@WIPF3 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:19799565..19799589,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr18:47967428..47967437,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:22382758..22382765,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr18:47967428..47967437,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr15:35546154..35546174,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:29846088..29846091,+#_7b9575641cc9053363d6425c62ce6b1c | p20@WIPF3 |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:22382758..22382765,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr12:6031299..6031315,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr1:31352916..31352926,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:25281776..25281779,-#_7b9575641cc9053363d6425c62ce6b1c | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE2:Hg19::chr15:35546154..35546174,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr12:6031299..6031315,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr13:112726433..112726446,+#_7b9575641cc9053363d6425c62ce6b1c | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr14:78638610..78638621,+#_7b9575641cc9053363d6425c62ce6b1c | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr13:112726433..112726446,+#_7b9575641cc9053363d6425c62ce6b1c | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:19799565..19799589,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr2:152828264..152828299,-#_7b9575641cc9053363d6425c62ce6b1c | p@chr2:152828264..152828299, - |
| 1.54e-87 | FFCP PHASE2:Hg19::chr3:35722978..35722999,+#_7ec133c70824cb99ca5808841e0933d0 | p28@ARPP21 |
| 1.54e-87 | FFCP PHASE1:Hg19::chr3:35722978..35722999,+#_7ec133c70824cb99ca5808841e0933d0 | p28@ARPP21 |
| 1.79e-87 | FFCP PHASE2:Hg19::chr11:26495447..26495461,+#_5f3f36ff654296dabfff207588bceb4e | p5@ANO3 |
| 1.79e-87 | FFCP PHASE2:Hg19::chr10:73313437..73313451,-#_5f3f36ff654296dabfff207588bceb4e | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE1:Hg19::chr10:73313437..73313451,-#_5f3f36ff654296dabfff207588bceb4e | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE1:Hg19::chr11:26495447..26495461,+#_5f3f36ff654296dabfff207588bceb4e | p5@ANO3 |
| 2.08e-87 | FFCP PHASE1:Hg19::chr3:16851273..16851310,+#_9c71161ffc47871cce059d92372c9de9 | p@chr3:16851273..16851310, + |
| 2.08e-87 | FFCP PHASE2:Hg19::chr3:16851273..16851310,+#_9c71161ffc47871cce059d92372c9de9 | p@chr3:16851273..16851310, + |
| 2.42e-87 | FFCP PHASE1:Hg19::chr14:78638636..78638661,+#_fc295f4455f3e89d7d5772498c34bfb3 | p@chr14:78638636..78638661, + |
| 2.42e-87 | FFCP PHASE2:Hg19::chr7:67899920..67899958,-#_fc295f4455f3e89d7d5772498c34bfb3 | p@chr7:67899920..67899958, - |
| 2.42e-87 | FFCP PHASE1:Hg19::chr7:67899920..67899958,-#_fc295f4455f3e89d7d5772498c34bfb3 | p@chr7:67899920..67899958, - |
| 2.42e-87 | FFCP PHASE2:Hg19::chr14:78638636..78638661,+#_fc295f4455f3e89d7d5772498c34bfb3 | p@chr14:78638636..78638661, + |
| 5.29e-79 | FFCP PHASE2:Hg19::chr6:166076645..166076657,-#_c83063ffa76d7084b249c43d9077a75f | p@chr6:166076645..166076657, - |
| 5.29e-79 | FFCP PHASE1:Hg19::chr6:166076645..166076657,-#_c83063ffa76d7084b249c43d9077a75f | p@chr6:166076645..166076657, - |
| 6.06e-79 | FFCP PHASE2:Hg19::chr11:18765589..18765610,-#_1da6aed881744eb183e1d08b0cbf9119 | p6@PTPN5 |
| 6.06e-79 | FFCP PHASE1:Hg19::chr22:27727719..27727726,+#_1da6aed881744eb183e1d08b0cbf9119 | p2@ENST00000413244 |
| 6.06e-79 | FFCP PHASE1:Hg19::chr11:18765589..18765610,-#_1da6aed881744eb183e1d08b0cbf9119 | p6@PTPN5 |
| 6.06e-79 | FFCP PHASE2:Hg19::chr22:27727719..27727726,+#_1da6aed881744eb183e1d08b0cbf9119 | p2@ENST00000413244 |
| 1.55e-78 | FFCP PHASE1:Hg19::chr21:43917191..43917207,-#_c8b3a4b33327a0ad7aaab10d30c189b1 | p@chr21:43917191..43917207, - |
| 1.55e-78 | FFCP PHASE2:Hg19::chr21:43917191..43917207,-#_c8b3a4b33327a0ad7aaab10d30c189b1 | p@chr21:43917191..43917207, - |
| 2.32e-78 | FFCP PHASE1:Hg19::chr5:75379091..75379100,+#_d8400f0e593a9052ab2437bfa6407d91 | p6@SV2C |
| 2.32e-78 | FFCP PHASE2:Hg19::chr13:98995904..98995913,+#_d8400f0e593a9052ab2437bfa6407d91 | p@chr13:98995904..98995913, + |
| 2.32e-78 | FFCP PHASE2:Hg19::chr6:80472250..80472261,+#_d8400f0e593a9052ab2437bfa6407d91 | p@chr6:80472250..80472261, + |
| 2.32e-78 | FFCP PHASE1:Hg19::chr6:80472250..80472261,+#_d8400f0e593a9052ab2437bfa6407d91 | p@chr6:80472250..80472261, + |
| 2.32e-78 | FFCP PHASE2:Hg19::chr5:75379091..75379100,+#_d8400f0e593a9052ab2437bfa6407d91 | p6@SV2C |
| 2.32e-78 | FFCP PHASE1:Hg19::chr13:98995904..98995913,+#_d8400f0e593a9052ab2437bfa6407d91 | p@chr13:98995904..98995913, + |
| 3.19e-78 | FFCP PHASE1:Hg19::chr11:80886203..80886231,+#_b816196914bd6bac5882fcbaa5fa7433 | p@chr11:80886203..80886231, + |
| 3.19e-78 | FFCP PHASE1:Hg19::chr1:101003738..101003747,+#_b816196914bd6bac5882fcbaa5fa7433 | p9@GPR88 |
| 3.19e-78 | FFCP PHASE2:Hg19::chr1:101003738..101003747,+#_b816196914bd6bac5882fcbaa5fa7433 | p9@GPR88 |
| 3.19e-78 | FFCP PHASE1:Hg19::chrX:37765754..37765765,+#_b816196914bd6bac5882fcbaa5fa7433 | p11@ENST00000449263 |
| 3.19e-78 | FFCP PHASE2:Hg19::chrX:37765754..37765765,+#_b816196914bd6bac5882fcbaa5fa7433 | p11@ENST00000449263 |
| 3.19e-78 | FFCP PHASE2:Hg19::chr11:80886203..80886231,+#_b816196914bd6bac5882fcbaa5fa7433 | p@chr11:80886203..80886231, + |
| 3.75e-78 | FFCP PHASE1:Hg19::chr5:79866189..79866202,+#_d5701389a9c5249e537df2088deff56d | p@chr5:79866189..79866202, + |
| 3.75e-78 | FFCP PHASE1:Hg19::chr20:9495125..9495132,+#_d5701389a9c5249e537df2088deff56d | p17@LAMP5 |
| 3.75e-78 | FFCP PHASE2:Hg19::chr5:79866189..79866202,+#_d5701389a9c5249e537df2088deff56d | p@chr5:79866189..79866202, + |
| 3.75e-78 | FFCP PHASE2:Hg19::chr20:9495125..9495132,+#_d5701389a9c5249e537df2088deff56d | p17@LAMP5 |
| 5.78e-72 | FFCP PHASE2:Hg19::chr12:122181551..122181562,+#_4d6eb6eda1174f29a5dc72d7b3e0a06c | p@chr12:122181551..122181562, + |
| 5.78e-72 | FFCP PHASE1:Hg19::chr12:122181551..122181562,+#_4d6eb6eda1174f29a5dc72d7b3e0a06c | p@chr12:122181551..122181562, + |
| 7.39e-72 | FFCP PHASE1:Hg19::chr11:120690389..120690422,+#_41b1c320e6f79224c8aae267061fb745 | p@chr11:120690389..120690422, + |
| 7.39e-72 | FFCP PHASE2:Hg19::chr11:120690389..120690422,+#_41b1c320e6f79224c8aae267061fb745 | p@chr11:120690389..120690422, + |
| 1.07e-71 | FFCP PHASE1:Hg19::chr14:78638668..78638680,+#_003d258a11bec356233a6a364f80dec2 | p@chr14:78638668..78638680, + |
| 1.07e-71 | FFCP PHASE2:Hg19::chr14:78638668..78638680,+#_003d258a11bec356233a6a364f80dec2 | p@chr14:78638668..78638680, + |
| 2.16e-70 | FFCP PHASE2:Hg19::chr2:127783377..127783391,+#_3c746f2986f2dc81d2c2fc26538f0df0 | p2@BC051739 |
| 2.16e-70 | FFCP PHASE1:Hg19::chr3:57807798..57807809,+#_3c746f2986f2dc81d2c2fc26538f0df0 | p@chr3:57807798..57807809, + |
| 2.16e-70 | FFCP PHASE1:Hg19::chr10:97261874..97261887,-#_3c746f2986f2dc81d2c2fc26538f0df0 | p@chr10:97261874..97261887, - |
| 2.16e-70 | FFCP PHASE2:Hg19::chr10:97261874..97261887,-#_3c746f2986f2dc81d2c2fc26538f0df0 | p@chr10:97261874..97261887, - |
| 2.16e-70 | FFCP PHASE2:Hg19::chr20:9496091..9496106,+#_3c746f2986f2dc81d2c2fc26538f0df0 | p@chr20:9496091..9496106, + |
| 2.16e-70 | FFCP PHASE2:Hg19::chr3:57807798..57807809,+#_3c746f2986f2dc81d2c2fc26538f0df0 | p@chr3:57807798..57807809, + |
