UBERON:0002298
From FANTOM5_SSTAR
Name: | brainstem | ||
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Namespace: | FANTOM | ||
Definition: | "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted]." [ISBN10:0471888893, Wikipedia:Brainstem, ZFA:0001707] | ||
Xrefs: |
| ||
Synonyms: |
"brain stem" EXACT [ABA:BS] "truncus encephali" EXACT LATIN [Wikipedia:Brainstem] "truncus encephalicus" RELATED [BTO:0000146] | ||
Comments: | 'brainstem' is a loose term that sometimes refers to the ventral parts o the brain except for any part of the telencephalon - sometimes it includes the diencephalon or subpallial telencephalon structures (ISBN10:0471888893). Here we use it in a more restriced sense, to include only the medulla oblongata, pons (when present) and the midbrain tegmentum (following the ZFA definitions). | ||
Alt_id: | UBERON:FMA_79876-MA_0000169 | ||
Subset: |
loose_concept uberon_slim vertebrate_core |
Ontology association
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.
link to ontology dataset
data
Parents
is_a: | UBERON:0002616(regional part of brain),UBERON:0010314(structure with developmental contribution from neural crest) |
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part_of: | UBERON:0000955(brain) |
Children
part of: | UBERON:0000988 (pons),UBERON:0001896 (medulla oblongata),UBERON:0002275 (reticular formation),UBERON:0006331 (brainstem nucleus),UBERON:0015827 (brainstem reticular formation) |
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Ontology Tree: Loaded from BioPortal
Ontorolgy tree(Small window open)
FF samples
It includes FANTOM5 samples that overlay the Uberon ontology
Human (Homo sapiens)
- 10033-101E6 (pons, adult, pool1)
- 10038-101F2 (medulla oblongata, adult, pool1)
- 10155-103A2 (medulla oblongata, adult, donor10252)
- 10165-103B3 (locus coeruleus, adult, donor10252)
- 10174-103C3 (medulla oblongata - adult, donor10196)
- 10182-103D2 (locus coeruleus - adult, donor10196)
- 10361-105F1 (medulla oblongata, newborn, donor10223)
- 10362-105F2 (locus coeruleus, newborn, donor10223)
- 10375-105G6 (locus coeruleus, adult, donor10258)
- 1396-42A3 (medulla oblongata, neonate N30)
... further results Mouse (Mus musculus)
- 10033-101E6 (pons, adult, pool1)
- 10038-101F2 (medulla oblongata, adult, pool1)
- 10155-103A2 (medulla oblongata, adult, donor10252)
- 10165-103B3 (locus coeruleus, adult, donor10252)
- 10174-103C3 (medulla oblongata - adult, donor10196)
- 10182-103D2 (locus coeruleus - adult, donor10196)
- 10361-105F1 (medulla oblongata, newborn, donor10223)
- 10362-105F2 (locus coeruleus, newborn, donor10223)
- 10375-105G6 (locus coeruleus, adult, donor10258)
- 1396-42A3 (medulla oblongata, neonate N30)
Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0002298 (brainstem), sorted by p-values
Analyst: Hideya Kawaji
link to source dataset
human : data
mouse : data
P-value | FFCP | Short description |
---|---|---|
1.73e-118 | FFCP PHASE1:Hg19::chr12:72332618..72332632,+#_d66ad30c28141a4c845f221a2986ef7d | p1@TPH2 |
1.73e-118 | FFCP PHASE2:Hg19::chr12:72332618..72332632,+#_d66ad30c28141a4c845f221a2986ef7d | p1@TPH2 |
8.05e-117 | FFCP PHASE1:Hg19::chr4:117675601..117675614,+#_26af8d56ec17fc966bdd14c58c12aad5 | p@chr4:117675601..117675614, + |
8.05e-117 | FFCP PHASE2:Hg19::chr4:117675601..117675614,+#_26af8d56ec17fc966bdd14c58c12aad5 | p@chr4:117675601..117675614, + |
1.65e-116 | FFCP PHASE2:Hg19::chr2:69741832..69741847,-#_1ce75deb9f06e2af9d3128d156b22e91 | p@chr2:69741832..69741847, - |
1.65e-116 | FFCP PHASE1:Hg19::chr2:69741832..69741847,-#_1ce75deb9f06e2af9d3128d156b22e91 | p@chr2:69741832..69741847, - |
5.07e-102 | FFCP PHASE2:Hg19::chr9:128998376..128998387,-#_8f494f2b182dd0c1aae0f2bae2018a44 | p@chr9:128998376..128998387, - |
5.07e-102 | FFCP PHASE1:Hg19::chr9:128998376..128998387,-#_8f494f2b182dd0c1aae0f2bae2018a44 | p@chr9:128998376..128998387, - |
1.57e-98 | FFCP PHASE1:Hg19::chr2:72381655..72381673,-#_bea5de2b5ee97e65a786fdea7453c81e | p@chr2:72381655..72381673, - |
1.57e-98 | FFCP PHASE2:Hg19::chr2:72381655..72381673,-#_bea5de2b5ee97e65a786fdea7453c81e | p@chr2:72381655..72381673, - |
1.83e-98 | FFCP PHASE1:Hg19::chr16:49670005..49670020,-#_c04181094e2512171daa4dd2b2cfbb3c | p@chr16:49670005..49670020, - |
1.83e-98 | FFCP PHASE2:Hg19::chr16:49670005..49670020,-#_c04181094e2512171daa4dd2b2cfbb3c | p@chr16:49670005..49670020, - |
1.83e-98 | FFCP PHASE2:Hg19::chr5:126959224..126959239,+#_c04181094e2512171daa4dd2b2cfbb3c | p@chr5:126959224..126959239, + |
1.83e-98 | FFCP PHASE1:Hg19::chr5:126959224..126959239,+#_c04181094e2512171daa4dd2b2cfbb3c | p@chr5:126959224..126959239, + |
3.65e-98 | FFCP PHASE1:Hg19::chr16:290098..290109,+#_813d16cf0267b3f104241a123c3f51d6 | p13@ITFG3 |
3.65e-98 | FFCP PHASE2:Hg19::chr16:290098..290109,+#_813d16cf0267b3f104241a123c3f51d6 | p13@ITFG3 |
3.09e-91 | FFCP PHASE2:Hg19::chr15:60296481..60296492,+#_8178043de3e7d98d976ba929467e07d8 | p7@FOXB1 |
3.09e-91 | FFCP PHASE1:Hg19::chr11:20621148..20621166,+#_8178043de3e7d98d976ba929467e07d8 | p1@SLC6A5 |
3.09e-91 | FFCP PHASE2:Hg19::chr11:20621148..20621166,+#_8178043de3e7d98d976ba929467e07d8 | p1@SLC6A5 |
3.09e-91 | FFCP PHASE1:Hg19::chr15:60296481..60296492,+#_8178043de3e7d98d976ba929467e07d8 | p7@FOXB1 |
8.11e-91 | FFCP PHASE1:Hg19::chr15:79356984..79356998,-#_e97dcfb1b68795538757ef2464230176 | p8@RASGRF1 |
8.11e-91 | FFCP PHASE2:Hg19::chr15:79356984..79356998,-#_e97dcfb1b68795538757ef2464230176 | p8@RASGRF1 |
4.18e-87 | FFCP PHASE2:Hg19::chr2:25720324..25720333,-#_6f05ef33c9ee70d3660616c020973ea8 | p15@DTNB |
4.18e-87 | FFCP PHASE1:Hg19::chr2:25720324..25720333,-#_6f05ef33c9ee70d3660616c020973ea8 | p15@DTNB |
4.42e-84 | FFCP PHASE1:Hg19::chr12:26765770..26765792,-#_6d8e8da43032288fecb6bd22e7fe7651 | p@chr12:26765770..26765792, - |
4.42e-84 | FFCP PHASE2:Hg19::chr12:26765770..26765792,-#_6d8e8da43032288fecb6bd22e7fe7651 | p@chr12:26765770..26765792, - |
5.98e-82 | FFCP PHASE2:Hg19::chr14:62010202..62010207,-#_504247f84064adbd5cf0c54ed2baa110 | p@chr14:62010202..62010207, - |
5.98e-82 | FFCP PHASE1:Hg19::chr14:62010202..62010207,-#_504247f84064adbd5cf0c54ed2baa110 | p@chr14:62010202..62010207, - |
1.38e-81 | FFCP PHASE2:Hg19::chr2:179739649..179739660,-#_8c23122acc4efb7cbcd934ecb6e3af80 | p@chr2:179739649..179739660, - |
1.38e-81 | FFCP PHASE1:Hg19::chr2:179739649..179739660,-#_8c23122acc4efb7cbcd934ecb6e3af80 | p@chr2:179739649..179739660, - |
2.71e-79 | FFCP PHASE1:Hg19::chr5:151304948..151304984,-#_c1f753ce80d9148ee5880ebd57b17b4d | p@chr5:151304948..151304984, - |
2.71e-79 | FFCP PHASE2:Hg19::chr5:151304948..151304984,-#_c1f753ce80d9148ee5880ebd57b17b4d | p@chr5:151304948..151304984, - |
4.66e-79 | FFCP PHASE2:Hg19::chr4:79892974..79892983,+#_7c295724bc1a2dea737d9ee4d73aca55 | p8@LOC100505875 |
4.66e-79 | FFCP PHASE1:Hg19::chr4:79892974..79892983,+#_7c295724bc1a2dea737d9ee4d73aca55 | p8@LOC100505875 |
1.56e-78 | FFCP PHASE2:Hg19::chr18:74754861..74754870,+#_3c0d204eae8bb047f555d5fc42a2d6e7 | p@chr18:74754861..74754870, + |
1.56e-78 | FFCP PHASE1:Hg19::chr18:74754861..74754870,+#_3c0d204eae8bb047f555d5fc42a2d6e7 | p@chr18:74754861..74754870, + |
4.57e-78 | FFCP PHASE1:Hg19::chrX:145936111..145936120,+#_154075bf1804a5d8f464c29c75822c21 | p@chrX:145936111..145936120, + |
4.57e-78 | FFCP PHASE2:Hg19::chrX:145936111..145936120,+#_154075bf1804a5d8f464c29c75822c21 | p@chrX:145936111..145936120, + |
1.98e-77 | FFCP PHASE2:Hg19::chr14:105833371..105833383,+#_5897743b91f7f9d4925a4b9b131059db | p@chr14:105833371..105833383, + |
1.98e-77 | FFCP PHASE1:Hg19::chr14:105833371..105833383,+#_5897743b91f7f9d4925a4b9b131059db | p@chr14:105833371..105833383, + |
2.17e-75 | FFCP PHASE1:Hg19::chr5:151304987..151304998,-#_d080f732a55f5218d6bf96d995e7854d | p@chr5:151304987..151304998, - |
2.17e-75 | FFCP PHASE2:Hg19::chr5:151304987..151304998,-#_d080f732a55f5218d6bf96d995e7854d | p@chr5:151304987..151304998, - |
3.86e-75 | FFCP PHASE2:Hg19::chr5:150050170..150050182,+#_d61d5e5782fbd629850d1487ef2db2be | p@chr5:150050170..150050182, + |
3.86e-75 | FFCP PHASE2:Hg19::chr2:234077664..234077672,+#_d61d5e5782fbd629850d1487ef2db2be | p@chr2:234077664..234077672, + |
3.86e-75 | FFCP PHASE1:Hg19::chr2:234077664..234077672,+#_d61d5e5782fbd629850d1487ef2db2be | p@chr2:234077664..234077672, + |
3.86e-75 | FFCP PHASE1:Hg19::chr5:150050170..150050182,+#_d61d5e5782fbd629850d1487ef2db2be | p@chr5:150050170..150050182, + |
6.85e-75 | FFCP PHASE1:Hg19::chr11:30751827..30751838,+#_b24dabdffb401a06927acd2179048f55 | p@chr11:30751827..30751838, + |
6.85e-75 | FFCP PHASE2:Hg19::chr11:30751827..30751838,+#_b24dabdffb401a06927acd2179048f55 | p@chr11:30751827..30751838, + |
8.29e-75 | FFCP PHASE1:Hg19::chr15:79356834..79356842,-#_68f3f184de75f74ffe779ecfdec9e252 | p15@RASGRF1 |
8.29e-75 | FFCP PHASE1:Hg19::chr1:155940355..155940366,-#_68f3f184de75f74ffe779ecfdec9e252 | p43@ARHGEF2 |
8.29e-75 | FFCP PHASE2:Hg19::chr1:155940355..155940366,-#_68f3f184de75f74ffe779ecfdec9e252 | p43@ARHGEF2 |
8.29e-75 | FFCP PHASE2:Hg19::chr15:79356834..79356842,-#_68f3f184de75f74ffe779ecfdec9e252 | p15@RASGRF1 |
1.11e-74 | FFCP PHASE2:Hg19::chr14:91932629..91932652,-#_a8fc99f7f43a516ecea4dae34ea0cf20 | p14@SMEK1 |
1.11e-74 | FFCP PHASE1:Hg19::chr14:91932629..91932652,-#_a8fc99f7f43a516ecea4dae34ea0cf20 | p14@SMEK1 |
1.21e-74 | FFCP PHASE1:Hg19::chr17:65489258..65489261,-#_c403b3db3e18742fc3fdd35bf6599a6e | p@chr17:65489258..65489261, - |
1.21e-74 | FFCP PHASE2:Hg19::chr17:65489258..65489261,-#_c403b3db3e18742fc3fdd35bf6599a6e | p@chr17:65489258..65489261, - |
1.51e-74 | FFCP PHASE1:Hg19::chr15:91447008..91447017,+#_217d93db50b7a0ada83dc3a51d7c0406 | p25@MAN2A2 |
1.51e-74 | FFCP PHASE1:Hg19::chr17:42984370..42984375,-#_217d93db50b7a0ada83dc3a51d7c0406 | p42@GFAP |
1.51e-74 | FFCP PHASE2:Hg19::chr15:91447008..91447017,+#_217d93db50b7a0ada83dc3a51d7c0406 | p25@MAN2A2 |
1.51e-74 | FFCP PHASE2:Hg19::chr17:42984370..42984375,-#_217d93db50b7a0ada83dc3a51d7c0406 | p42@GFAP |
2.46e-74 | FFCP PHASE1:Hg19::chr7:147336227..147336236,+#_25438a5d0302e3b9b4dcef49493c3cbd | p18@CNTNAP2 |
2.46e-74 | FFCP PHASE2:Hg19::chr7:147336227..147336236,+#_25438a5d0302e3b9b4dcef49493c3cbd | p18@CNTNAP2 |
5.92e-74 | FFCP PHASE1:Hg19::chr14:105833352..105833361,+#_9f1a4f9dca51c66c5ebbb24de5941e20 | p@chr14:105833352..105833361, + |
5.92e-74 | FFCP PHASE2:Hg19::chr14:105833352..105833361,+#_9f1a4f9dca51c66c5ebbb24de5941e20 | p@chr14:105833352..105833361, + |
8.7e-74 | FFCP PHASE1:Hg19::chr5:77302570..77302586,+#_e3c630d4f2b9cb7764a72255ae43f5e7 | p@chr5:77302570..77302586, + |
8.7e-74 | FFCP PHASE2:Hg19::chr5:77302570..77302586,+#_e3c630d4f2b9cb7764a72255ae43f5e7 | p@chr5:77302570..77302586, + |
2.1e-73 | FFCP PHASE2:Hg19::chrX:106692537..106692551,+#_75cf0a4b97ef2d68fceb1026debbcf7c | p@chrX:106692537..106692551, + |
2.1e-73 | FFCP PHASE1:Hg19::chrX:106692537..106692551,+#_75cf0a4b97ef2d68fceb1026debbcf7c | p@chrX:106692537..106692551, + |
2.54e-70 | FFCP PHASE2:Hg19::chr2:25720404..25720435,-#_c119923ef128471785e1860e4c08d5ba | p8@DTNB |
2.54e-70 | FFCP PHASE1:Hg19::chr2:25720404..25720435,-#_c119923ef128471785e1860e4c08d5ba | p8@DTNB |
1.34e-69 | FFCP PHASE2:Hg19::chr15:79356860..79356874,-#_597b963268f97c661473ff8ad87d039a | p9@RASGRF1 |
1.34e-69 | FFCP PHASE1:Hg19::chr15:79356860..79356874,-#_597b963268f97c661473ff8ad87d039a | p9@RASGRF1 |
3.9e-69 | FFCP PHASE2:Hg19::chr5:152082403..152082408,+#_85d94ec934dab7823c474efef1b62692 | p@chr5:152082403..152082408, + |
3.9e-69 | FFCP PHASE1:Hg19::chr5:152082403..152082408,+#_85d94ec934dab7823c474efef1b62692 | p@chr5:152082403..152082408, + |
6.26e-69 | FFCP PHASE1:Hg19::chr21:18811205..18811216,+#_a72d345ba2e4217f16055127d73c6ab7 | p3@C21orf37 |
6.26e-69 | FFCP PHASE2:Hg19::chr21:18811205..18811216,+#_a72d345ba2e4217f16055127d73c6ab7 | p3@C21orf37 |
7.27e-69 | FFCP PHASE1:Hg19::chr4:34621389..34621413,+#_9cd6c582a9ff8384404c33cfdcbab05c | p@chr4:34621389..34621413, + |
7.27e-69 | FFCP PHASE2:Hg19::chr4:34621389..34621413,+#_9cd6c582a9ff8384404c33cfdcbab05c | p@chr4:34621389..34621413, + |
1.46e-68 | FFCP PHASE1:Hg19::chrX:16753203..16753238,+#_aa3378aac3944bb422a3da8fd63a1204 | p@chrX:16753203..16753238, + |
1.46e-68 | FFCP PHASE2:Hg19::chrX:16753203..16753238,+#_aa3378aac3944bb422a3da8fd63a1204 | +, p@chrX:16753203..16753238 |
1.47e-66 | FFCP PHASE2:Hg19::chr15:93616900..93616918,-#_15d312fbf39ad5233a3208aade390686 | p6@RGMA |
1.47e-66 | FFCP PHASE1:Hg19::chr15:93616900..93616918,-#_15d312fbf39ad5233a3208aade390686 | p6@RGMA |
1.87e-66 | FFCP PHASE1:Hg19::chr18:5577640..5577652,-#_43eddf22ed52394d9aaed4c2c7fd540d | p14@EPB41L3 |
1.87e-66 | FFCP PHASE2:Hg19::chr18:5577640..5577652,-#_43eddf22ed52394d9aaed4c2c7fd540d | p14@EPB41L3 |
2.06e-66 | FFCP PHASE1:Hg19::chr2:25720352..25720388,-#_e880f46bf4e87ab966374e9c57c59655 | p7@DTNB |
2.06e-66 | FFCP PHASE2:Hg19::chr2:25720352..25720388,-#_e880f46bf4e87ab966374e9c57c59655 | p7@DTNB |
2.83e-66 | FFCP PHASE2:Hg19::chr12:33592574..33592584,-#_2a2041befc4eada1b7dd8cbc01329371 | p6@SYT10 |
2.83e-66 | FFCP PHASE2:Hg19::chr12:44467410..44467418,+#_2a2041befc4eada1b7dd8cbc01329371 | p13@TMEM117 |
2.83e-66 | FFCP PHASE2:Hg19::chr2:218873244..218873256,-#_2a2041befc4eada1b7dd8cbc01329371 | p@chr2:218873244..218873256, - |
2.83e-66 | FFCP PHASE2:Hg19::chr2:237146889..237146895,-#_2a2041befc4eada1b7dd8cbc01329371 | p@chr2:237146889..237146895, - |
2.83e-66 | FFCP PHASE2:Hg19::chr2:8851401..8851408,+#_2a2041befc4eada1b7dd8cbc01329371 | p@chr2:8851401..8851408, + |
2.83e-66 | FFCP PHASE1:Hg19::chr4:117675642..117675654,+#_2a2041befc4eada1b7dd8cbc01329371 | p@chr4:117675642..117675654, + |
2.83e-66 | FFCP PHASE1:Hg19::chr5:35090057..35090065,-#_2a2041befc4eada1b7dd8cbc01329371 | p27@PRLR |
2.83e-66 | FFCP PHASE1:Hg19::chr5:35090318..35090324,-#_2a2041befc4eada1b7dd8cbc01329371 | p@chr5:35090318..35090324, - |
2.83e-66 | FFCP PHASE1:Hg19::chr6:132580699..132580702,+#_2a2041befc4eada1b7dd8cbc01329371 | p@chr6:132580699..132580702, + |
2.83e-66 | FFCP PHASE1:Hg19::chr6:56820018..56820029,+#_2a2041befc4eada1b7dd8cbc01329371 | p16@BEND6 |
2.83e-66 | FFCP PHASE2:Hg19::chr11:3224990..3225000,-#_2a2041befc4eada1b7dd8cbc01329371 | p@chr11:3224990..3225000, - |
2.83e-66 | FFCP PHASE2:Hg19::chr6:56820018..56820029,+#_2a2041befc4eada1b7dd8cbc01329371 | p16@BEND6 |
2.83e-66 | FFCP PHASE2:Hg19::chr4:117675642..117675654,+#_2a2041befc4eada1b7dd8cbc01329371 | p@chr4:117675642..117675654, + |
2.83e-66 | FFCP PHASE1:Hg19::chr2:218873244..218873256,-#_2a2041befc4eada1b7dd8cbc01329371 | p@chr2:218873244..218873256, - |
Property "Property value" (as page type) with input value "UBPROP:0000001 "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.