UBERON:0010011: Difference between revisions
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{{UBERON | {{UBERON | ||
| | |alt_id= | ||
|comment=Editor note: it is necessary to introduce two classes, one representing an individual basal ganglion, another representing the aggregate structure, in order to have consistent classification amongst AOs (e.g. in MA the aygdala is part of the BG, in FMA and BTO it is a subclass). Apart from achieving this consistency, the value of having two distinct classes is questionable, since the BG-plural is trivially the collection of all BGs-singular. it would be better for all AOs to decide on one single way of doing this. Do not merge until this is done. | |comment=Editor note: it is necessary to introduce two classes, one representing an individual basal ganglion, another representing the aggregate structure, in order to have consistent classification amongst AOs (e.g. in MA the aygdala is part of the BG, in FMA and BTO it is a subclass). Apart from achieving this consistency, the value of having two distinct classes is questionable, since the BG-plural is trivially the collection of all BGs-singular. it would be better for all AOs to decide on one single way of doing this. Do not merge until this is done. | ||
|created_by= | |created_by= | ||
| | |def= | ||
|derives_from= | |derives_from= | ||
|develops_from= | |develops_from= | ||
|disjoint_from= | |||
|has_quality= | |has_quality= | ||
|id=UBERON:0010011 | |||
|is_a=UBERON:0010009 ;;UBERON:0010314 | |||
|is_obsolete= | |||
|located_in= | |located_in= | ||
|name=collection of basal ganglia | |||
|namespace=FANTOM | |||
|obo_creation_date= | |||
|part_of=UBERON:0000454;;UBERON:0001893 | |part_of=UBERON:0000454;;UBERON:0001893 | ||
|preceded_by= | |||
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl | |property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl | ||
| | |subset= | ||
| | |synonym="basal ganglia" EXACT [FMA:84013];;"basal ganglia set" EXACT [FMA:84013];;"set of basal ganglia" EXACT [FMA:84013] | ||
|union_of= | |||
|xref=BM:Tel-BG;;FMA:84013;;GAID:617;;MA:0000184;;MESH:A.08.186.211.730.885.105;;ncithesaurus:Basal_Ganglia;;NIF_GrossAnatomy:birnlex_826 | |||
}} | }} | ||
Latest revision as of 18:07, 12 September 2014
| Name: | collection of basal ganglia | ||
|---|---|---|---|
| Namespace: | FANTOM | ||
| Xrefs: |
| ||
| Synonyms: |
"basal ganglia" EXACT [FMA:84013] "basal ganglia set" EXACT [FMA:84013] "set of basal ganglia" EXACT [FMA:84013] | ||
| Comments: | Editor note: it is necessary to introduce two classes, one representing an individual basal ganglion, another representing the aggregate structure, in order to have consistent classification amongst AOs (e.g. in MA the aygdala is part of the BG, in FMA and BTO it is a subclass). Apart from achieving this consistency, the value of having two distinct classes is questionable, since the BG-plural is trivially the collection of all BGs-singular. it would be better for all AOs to decide on one single way of doing this. Do not merge until this is done. |
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:0010009(aggregate regional part of brain),UBERON:0010314(structure with developmental contribution from neural crest) |
|---|---|
| part_of: | UBERON:0000454(cerebral subcortex),UBERON:0001893(telencephalon) |
Children
| part of: | UBERON:0002420 (basal ganglion) |
|---|
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)
- 10151-102I7 (amygdala, adult, donor10252)
- 10152-102I8 (putamen, adult, donor10252)
- 10158-103A5 (substantia nigra, adult, donor10252)
- 10161-103A8 (globus pallidus, adult, donor10252)
- 10164-103B2 (caudate nucleus, adult, donor10252)
- 10167-103B5 (amygdala - adult, donor10196)
- 10175-103C4 (globus pallidus - adult, donor10196)
- 10176-103C5 (putamen, adult, donor10196)
- 10177-103C6 (caudate nucleus - adult, donor10196)
... further results Mouse (Mus musculus)
- 10037-101F1 (nucleus accumbens, adult, pool1)
- 10151-102I7 (amygdala, adult, donor10252)
- 10152-102I8 (putamen, adult, donor10252)
- 10158-103A5 (substantia nigra, adult, donor10252)
- 10161-103A8 (globus pallidus, adult, donor10252)
- 10164-103B2 (caudate nucleus, adult, donor10252)
- 10167-103B5 (amygdala - adult, donor10196)
- 10175-103C4 (globus pallidus - adult, donor10196)
- 10176-103C5 (putamen, adult, donor10196)
- 10177-103C6 (caudate nucleus - adult, donor10196)
Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0010011 (collection of basal ganglia), 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 |
|---|---|---|
| 1.82e-133 | FFCP PHASE2:Hg19::chr18:11751466..11751475,+#_0eb6a9910ddcee9dbd7ae2c9520b3422 | p22@GNAL |
| 1.82e-133 | FFCP PHASE1:Hg19::chr18:11751466..11751475,+#_0eb6a9910ddcee9dbd7ae2c9520b3422 | p22@GNAL |
| 1.42e-130 | FFCP PHASE2:Hg19::chr15:40582949..40582989,+#_81c6ecfdd1d16d1e29a32444116cfc42 | p@chr15:40582949..40582989, + |
| 1.42e-130 | FFCP PHASE1:Hg19::chr15:40582949..40582989,+#_81c6ecfdd1d16d1e29a32444116cfc42 | p@chr15:40582949..40582989, + |
| 1.21e-118 | FFCP PHASE1:Hg19::chr3:35722978..35722999,+#_57792cd868825dc3cee6fd1918a29044 | p28@ARPP21 |
| 1.21e-118 | FFCP PHASE2:Hg19::chr3:35722978..35722999,+#_57792cd868825dc3cee6fd1918a29044 | p28@ARPP21 |
| 3.02e-112 | FFCP PHASE2:Hg19::chr13:98995904..98995913,+#_2a8c671cb47152f341c9e0291917d317 | p@chr13:98995904..98995913, + |
| 3.02e-112 | FFCP PHASE1:Hg19::chr13:98995904..98995913,+#_2a8c671cb47152f341c9e0291917d317 | p@chr13:98995904..98995913, + |
| 3.66e-112 | FFCP PHASE2:Hg19::chr11:80886203..80886231,+#_572e871eaf0a2d334764e8dc963b1e52 | p@chr11:80886203..80886231, + |
| 3.66e-112 | FFCP PHASE1:Hg19::chr11:80886203..80886231,+#_572e871eaf0a2d334764e8dc963b1e52 | p@chr11:80886203..80886231, + |
| 6.51e-112 | FFCP PHASE1:Hg19::chr2:7112752..7112770,+#_c95d6a86506e6df9f91c08b5e0522b79 | p@chr2:7112752..7112770, + |
| 6.51e-112 | FFCP PHASE2:Hg19::chr2:7112752..7112770,+#_c95d6a86506e6df9f91c08b5e0522b79 | p@chr2:7112752..7112770, + |
| 7.88e-112 | FFCP PHASE1:Hg19::chr22:27727810..27727817,+#_e396e0d186126fc137c0bfa6a3ad5b0c | p3@ENST00000413244 |
| 7.88e-112 | FFCP PHASE2:Hg19::chr22:27727810..27727817,+#_e396e0d186126fc137c0bfa6a3ad5b0c | p3@ENST00000413244 |
| 4.6e-109 | FFCP PHASE1:Hg19::chr15:35546024..35546035,-#_fa5dac382628a88712bb90b159b8a578 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE1:Hg19::chr2:3853961..3853984,+#_fa5dac382628a88712bb90b159b8a578 | p@chr2:3853961..3853984, + |
| 4.6e-109 | FFCP PHASE2:Hg19::chr15:35546024..35546035,-#_fa5dac382628a88712bb90b159b8a578 | p@chr15:35546024..35546035, - |
| 4.6e-109 | FFCP PHASE2:Hg19::chr2:3853961..3853984,+#_fa5dac382628a88712bb90b159b8a578 | p@chr2:3853961..3853984, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr17:19390211..19390223,+#_fa5dac382628a88712bb90b159b8a578 | p@chr17:19390211..19390223, + |
| 4.6e-109 | FFCP PHASE2:Hg19::chr19:719510..719520,+#_fa5dac382628a88712bb90b159b8a578 | p@chr19:719510..719520, + |
| 4.6e-109 | FFCP PHASE1:Hg19::chr19:719510..719520,+#_fa5dac382628a88712bb90b159b8a578 | p@chr19:719510..719520, + |
| 4.6e-109 | FFCP PHASE2:Hg19::chr17:19390211..19390223,+#_fa5dac382628a88712bb90b159b8a578 | p@chr17:19390211..19390223, + |
| 4.01e-107 | FFCP PHASE1:Hg19::chr18:11751516..11751523,+#_08eb77a3672f5410361740f5c5dabb6e | p17@GNAL |
| 4.01e-107 | FFCP PHASE2:Hg19::chr18:11751516..11751523,+#_08eb77a3672f5410361740f5c5dabb6e | p17@GNAL |
| 1.41e-106 | FFCP PHASE1:Hg19::chr21:43917191..43917207,-#_46976897e9c60b24c9ccc65721f0b088 | p@chr21:43917191..43917207, - |
| 1.41e-106 | FFCP PHASE2:Hg19::chr21:43917191..43917207,-#_46976897e9c60b24c9ccc65721f0b088 | p@chr21:43917191..43917207, - |
| 3.33e-98 | FFCP PHASE2:Hg19::chr11:18765839..18765846,-#_ae6a4136b18e01e79196a7b20de4ffb6 | p10@PTPN5 |
| 3.33e-98 | FFCP PHASE1:Hg19::chr11:18765839..18765846,-#_ae6a4136b18e01e79196a7b20de4ffb6 | p10@PTPN5 |
| 1.43e-97 | FFCP PHASE2:Hg19::chr13:98995923..98995941,+#_4991ba70b790b6af522414f938175423 | p@chr13:98995923..98995941, + |
| 1.43e-97 | FFCP PHASE1:Hg19::chr13:98995923..98995941,+#_4991ba70b790b6af522414f938175423 | p@chr13:98995923..98995941, + |
| 4.08e-91 | FFCP PHASE1:Hg19::chr11:26497871..26497889,+#_32d6e86efcd91a6980ca715bb146874b | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE2:Hg19::chr11:26497871..26497889,+#_32d6e86efcd91a6980ca715bb146874b | p@chr11:26497871..26497889, + |
| 4.08e-91 | FFCP PHASE2:Hg19::chr10:97261901..97261919,-#_32d6e86efcd91a6980ca715bb146874b | p@chr10:97261901..97261919, - |
| 4.08e-91 | FFCP PHASE1:Hg19::chr10:97261901..97261919,-#_32d6e86efcd91a6980ca715bb146874b | p@chr10:97261901..97261919, - |
| 4.91e-91 | FFCP PHASE2:Hg19::chr1:242372439..242372456,+#_2efd1da29a5838f559c36d7e739fbeaf | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE2:Hg19::chr22:24828830..24828842,+#_2efd1da29a5838f559c36d7e739fbeaf | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE1:Hg19::chr1:242372439..242372456,+#_2efd1da29a5838f559c36d7e739fbeaf | p1@ENST00000421878 |
| 4.91e-91 | FFCP PHASE2:Hg19::chr19:1236637..1236645,-#_2efd1da29a5838f559c36d7e739fbeaf | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE1:Hg19::chr11:26495467..26495474,+#_2efd1da29a5838f559c36d7e739fbeaf | p8@ANO3 |
| 4.91e-91 | FFCP PHASE1:Hg19::chr22:24828830..24828842,+#_2efd1da29a5838f559c36d7e739fbeaf | p14@ADORA2A |
| 4.91e-91 | FFCP PHASE1:Hg19::chr19:1236637..1236645,-#_2efd1da29a5838f559c36d7e739fbeaf | p@chr19:1236637..1236645, - |
| 4.91e-91 | FFCP PHASE2:Hg19::chr11:26495467..26495474,+#_2efd1da29a5838f559c36d7e739fbeaf | p8@ANO3 |
| 1.7e-89 | FFCP PHASE1:Hg19::chr11:18765553..18765567,-#_ffdafaebf2235af8ad57110f3dd1bbf2 | p7@PTPN5 |
| 1.7e-89 | FFCP PHASE2:Hg19::chr1:174417095..174417131,+#_ffdafaebf2235af8ad57110f3dd1bbf2 | p1@GPR52 |
| 1.7e-89 | FFCP PHASE1:Hg19::chr1:174417095..174417131,+#_ffdafaebf2235af8ad57110f3dd1bbf2 | p1@GPR52 |
| 1.7e-89 | FFCP PHASE2:Hg19::chr11:18765553..18765567,-#_ffdafaebf2235af8ad57110f3dd1bbf2 | p7@PTPN5 |
| 2.51e-89 | FFCP PHASE1:Hg19::chr1:101003675..101003682,+#_9303c37abecc84eb427d5832e7bb60e9 | p5@GPR88 |
| 2.51e-89 | FFCP PHASE2:Hg19::chr1:101003675..101003682,+#_9303c37abecc84eb427d5832e7bb60e9 | p5@GPR88 |
| 2.86e-89 | FFCP PHASE1:Hg19::chr11:67174819..67174825,-#_cae21b9a4be687dc0f399bce17342b8d | p14@PPP1CA |
| 2.86e-89 | FFCP PHASE2:Hg19::chr11:67174819..67174825,-#_cae21b9a4be687dc0f399bce17342b8d | p14@PPP1CA |
| 4.81e-88 | FFCP PHASE2:Hg19::chr11:18765881..18765897,-#_244d039829e80ea2ddf7f9a0a577ec24 | p3@PTPN5 |
| 4.81e-88 | FFCP PHASE1:Hg19::chr11:18765881..18765897,-#_244d039829e80ea2ddf7f9a0a577ec24 | p3@PTPN5 |
| 1.33e-87 | FFCP PHASE1:Hg19::chr17:19390234..19390251,+#_e94c33d622d6188a65107a2928e5e0ed | p@chr17:19390234..19390251, + |
| 1.33e-87 | FFCP PHASE2:Hg19::chr17:19390234..19390251,+#_e94c33d622d6188a65107a2928e5e0ed | p@chr17:19390234..19390251, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr13:112726433..112726446,+#_657e0fada5ec13b87480eff5399013dc | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr14:78638610..78638621,+#_657e0fada5ec13b87480eff5399013dc | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr15:35546154..35546174,-#_657e0fada5ec13b87480eff5399013dc | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:25281776..25281779,-#_657e0fada5ec13b87480eff5399013dc | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:22382758..22382765,-#_657e0fada5ec13b87480eff5399013dc | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr2:152828264..152828299,-#_657e0fada5ec13b87480eff5399013dc | p@chr2:152828264..152828299, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr7:29846088..29846091,+#_657e0fada5ec13b87480eff5399013dc | p20@WIPF3 |
| 1.37e-87 | FFCP PHASE1:Hg19::chr18:47967428..47967437,-#_657e0fada5ec13b87480eff5399013dc | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr18:47967428..47967437,-#_657e0fada5ec13b87480eff5399013dc | p@chr18:47967428..47967437, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr1:31352916..31352926,-#_657e0fada5ec13b87480eff5399013dc | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:25281776..25281779,-#_657e0fada5ec13b87480eff5399013dc | p1@GNRH1 |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:22382758..22382765,-#_657e0fada5ec13b87480eff5399013dc | p@chr7:22382758..22382765, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr12:6031299..6031315,-#_657e0fada5ec13b87480eff5399013dc | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr8:19799565..19799589,-#_657e0fada5ec13b87480eff5399013dc | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr8:19799565..19799589,-#_657e0fada5ec13b87480eff5399013dc | p@chr8:19799565..19799589, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr15:35546154..35546174,-#_657e0fada5ec13b87480eff5399013dc | p@chr15:35546154..35546174, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr1:31352916..31352926,-#_657e0fada5ec13b87480eff5399013dc | p@chr1:31352916..31352926, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr14:78638610..78638621,+#_657e0fada5ec13b87480eff5399013dc | p@chr14:78638610..78638621, + |
| 1.37e-87 | FFCP PHASE2:Hg19::chr2:152828264..152828299,-#_657e0fada5ec13b87480eff5399013dc | p@chr2:152828264..152828299, - |
| 1.37e-87 | FFCP PHASE1:Hg19::chr13:112726433..112726446,+#_657e0fada5ec13b87480eff5399013dc | p@chr13:112726433..112726446, + |
| 1.37e-87 | FFCP PHASE1:Hg19::chr12:6031299..6031315,-#_657e0fada5ec13b87480eff5399013dc | p@chr12:6031299..6031315, - |
| 1.37e-87 | FFCP PHASE2:Hg19::chr7:29846088..29846091,+#_657e0fada5ec13b87480eff5399013dc | p20@WIPF3 |
| 1.79e-87 | FFCP PHASE2:Hg19::chr11:26495447..26495461,+#_2dd8a5b6c684afb8b93182c2e7cb72f2 | p5@ANO3 |
| 1.79e-87 | FFCP PHASE1:Hg19::chr10:73313437..73313451,-#_2dd8a5b6c684afb8b93182c2e7cb72f2 | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE2:Hg19::chr10:73313437..73313451,-#_2dd8a5b6c684afb8b93182c2e7cb72f2 | p@chr10:73313437..73313451, - |
| 1.79e-87 | FFCP PHASE1:Hg19::chr11:26495447..26495461,+#_2dd8a5b6c684afb8b93182c2e7cb72f2 | p5@ANO3 |
| 2.08e-87 | FFCP PHASE1:Hg19::chr3:16851273..16851310,+#_d1e806f30c61330dd956ba8928b80aae | p@chr3:16851273..16851310, + |
| 2.08e-87 | FFCP PHASE2:Hg19::chr3:16851273..16851310,+#_d1e806f30c61330dd956ba8928b80aae | p@chr3:16851273..16851310, + |
| 2.42e-87 | FFCP PHASE1:Hg19::chr7:67899920..67899958,-#_43756d2384473b1f3d1c1e78c955dc2d | p@chr7:67899920..67899958, - |
| 2.42e-87 | FFCP PHASE2:Hg19::chr7:67899920..67899958,-#_43756d2384473b1f3d1c1e78c955dc2d | p@chr7:67899920..67899958, - |
| 2.8e-87 | FFCP PHASE2:Hg19::chr9:95569585..95569596,+#_327108ea77c24548bc464c03b9fd42f0 | p@chr9:95569585..95569596, + |
| 2.8e-87 | FFCP PHASE1:Hg19::chr9:95569585..95569596,+#_327108ea77c24548bc464c03b9fd42f0 | p@chr9:95569585..95569596, + |
| 4.39e-83 | FFCP PHASE2:Hg19::chr18:11751493..11751507,+#_7dc9429410976e45e6ba9b29cb57f6af | p12@GNAL |
| 4.39e-83 | FFCP PHASE1:Hg19::chr18:11751493..11751507,+#_7dc9429410976e45e6ba9b29cb57f6af | p12@GNAL |
| 3.09e-79 | FFCP PHASE1:Hg19::chr11:13461601..13461620,-#_0e61ba5547e08c709382ab07fef992be | p5@BTBD10 |
| 3.09e-79 | FFCP PHASE2:Hg19::chr11:13461601..13461620,-#_0e61ba5547e08c709382ab07fef992be | p5@BTBD10 |
| 5.29e-79 | FFCP PHASE2:Hg19::chr6:166076645..166076657,-#_9a692214552aa5bc608158b82ac14f54 | p@chr6:166076645..166076657, - |
| 5.29e-79 | FFCP PHASE1:Hg19::chr6:166076645..166076657,-#_9a692214552aa5bc608158b82ac14f54 | p@chr6:166076645..166076657, - |
| 6.06e-79 | FFCP PHASE2:Hg19::chr2:26781521..26781537,-#_f083c24d02c15983c535da5d02eb8071 | p2@OTOF |
| 6.06e-79 | FFCP PHASE1:Hg19::chr22:27727719..27727726,+#_f083c24d02c15983c535da5d02eb8071 | p2@ENST00000413244 |
| 6.06e-79 | FFCP PHASE2:Hg19::chr11:18765589..18765610,-#_f083c24d02c15983c535da5d02eb8071 | p6@PTPN5 |
| 6.06e-79 | FFCP PHASE2:Hg19::chr22:27727719..27727726,+#_f083c24d02c15983c535da5d02eb8071 | p2@ENST00000413244 |
| 6.06e-79 | FFCP PHASE1:Hg19::chr2:26781521..26781537,-#_f083c24d02c15983c535da5d02eb8071 | p2@OTOF |
| 6.06e-79 | FFCP PHASE1:Hg19::chr11:18765589..18765610,-#_f083c24d02c15983c535da5d02eb8071 | p6@PTPN5 |
| 6.93e-79 | FFCP PHASE2:Hg19::chr19:19640188..19640201,+#_a8cb6cf1f8f2ba31d8a77eb5139ac15b | p@chr19:19640188..19640201, + |
| 6.93e-79 | FFCP PHASE1:Hg19::chr19:19640188..19640201,+#_a8cb6cf1f8f2ba31d8a77eb5139ac15b | p@chr19:19640188..19640201, + |
