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{{UBERON
{{UBERON
|id=UBERON:0002275
|alt_id=UBERON:FMA_77719-ZFA_0000421
|name=reticular formation
|namespace=
|def=
|xref=FMA:77719;;http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Gray701.png/200px-Gray701.png;;MESH:A.08.186.211.132.772;;SCTID:361552007
|is_a=UBERON:0000073
|synonym=
|comment=note that this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation.
|comment=note that this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation.
|alt_id=UBERON:FMA_77719-ZFA_0000421
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def=
|subset=uberon_slim
|adjacent_to=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0002275
|is_a=UBERON:0000477 ;;UBERON:0002616
|is_obsolete=
|located_in=
|located_in=
|part_of=
|name=reticular formation
|namespace=FANTOM
|obo_creation_date=
|part_of=UBERON:0002298
|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=uberon_slim
|synonym=
|union_of=
|xref=FMA:77719;;http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Gray701.png/200px-Gray701.png;;MESH:A.08.186.211.132.772;;SCTID:361552007
}}
}}

Latest revision as of 17:28, 12 September 2014

Name:reticular formation
Namespace:FANTOM
Xrefs:
links:

FMA:77719
[ 200px-Gray701.png 200px-Gray701.png]
MESH:A.08.186.211.132.772

SCTID:361552007
Comments:note that this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation.
Alt_id: UBERON:FMA_77719-ZFA_0000421
Subset: uberon_slim

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:0000477(anatomical cluster),UBERON:0002616(regional part of brain)
part_of:UBERON:0002298(brainstem)



Children

is a:UBERON:0015827 (brainstem reticular formation)
part of:UBERON:0004684 (raphe nuclei)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>It includes FANTOM5 samples that overlay the Uberon ontology

Mouse (Mus musculus)


Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0002275 (reticular formation), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
1.58e-86FFCP PHASE2:Mm9::chr9:67832482..67832485,+#_b0ee762022f5dd95c828c9805ed79affp@chr9:67832482..67832485, +
1.58e-86FFCP PHASE1:Mm9::chr9:67832482..67832485,+#_b0ee762022f5dd95c828c9805ed79affp@chr9:67832482..67832485, +
2.21e-65FFCP PHASE2:Mm9::chr11:6372235..6372242,-#_68289ca1ab3a369c25d2ad41beef35b1p1@ENSMUST00000175144
2.21e-65FFCP PHASE1:Mm9::chr11:6372235..6372242,-#_68289ca1ab3a369c25d2ad41beef35b1p1@ENSMUST00000175144
3.65e-65FFCP PHASE1:Mm9::chr6:77194015..77194026,+#_e53db4426d940beff15411c4d9aa1eb6p@chr6:77194015..77194026, +
3.65e-65FFCP PHASE2:Mm9::chr6:77194015..77194026,+#_e53db4426d940beff15411c4d9aa1eb6p@chr6:77194015..77194026, +
3.28e-58FFCP PHASE2:Mm9::chr2:24918331..24918345,+#_2cfb342a91ac558be4c370496fe95632p@chr2:24918331..24918345, +
3.28e-58FFCP PHASE1:Mm9::chr2:24918331..24918345,+#_2cfb342a91ac558be4c370496fe95632p@chr2:24918331..24918345, +
4.9e-53FFCP PHASE1:Mm9::chr3:88548978..88548990,-#_3e38ee049baf8a549ff34e7bc0d347d9p@chr3:88548978..88548990, -
4.9e-53FFCP PHASE2:Mm9::chr3:88548978..88548990,-#_3e38ee049baf8a549ff34e7bc0d347d9p@chr3:88548978..88548990, -
7.35e-53FFCP PHASE2:Mm9::chr10:10408741..10408754,-#_12a3effe9d877b8618c57f17895f7f2bp@chr10:10408741..10408754, -
7.35e-53FFCP PHASE1:Mm9::chr10:10408741..10408754,-#_12a3effe9d877b8618c57f17895f7f2bp@chr10:10408741..10408754, -
1.1e-52FFCP PHASE1:Mm9::chr3:126639582..126639596,-#_76748ae133ddc61c82060f9c3967f180p@chr3:126639582..126639596, -
1.1e-52FFCP PHASE2:Mm9::chr3:126639582..126639596,-#_76748ae133ddc61c82060f9c3967f180p@chr3:126639582..126639596, -
1.65e-52FFCP PHASE2:Mm9::chr4:57254065..57254072,-#_7f6658045d0399269096381ca52902d5p@chr4:57254065..57254072, -
1.65e-52FFCP PHASE1:Mm9::chr4:57254065..57254072,-#_7f6658045d0399269096381ca52902d5p@chr4:57254065..57254072, -
1.65e-52FFCP PHASE2:Mm9::chr12:85023868..85023879,+#_7f6658045d0399269096381ca52902d5p@chr12:85023868..85023879, +
1.65e-52FFCP PHASE1:Mm9::chr12:85023868..85023879,+#_7f6658045d0399269096381ca52902d5p@chr12:85023868..85023879, +
2.47e-52FFCP PHASE2:Mm9::chr10:6473752..6473760,-#_273edf2ddc3ef0ea67da3e0730e23395p@chr10:6473752..6473760, -
2.47e-52FFCP PHASE2:Mm9::chr7:67121440..67121451,-#_273edf2ddc3ef0ea67da3e0730e23395p@chr7:67121440..67121451, -
2.47e-52FFCP PHASE1:Mm9::chr1:66486342..66486351,+#_273edf2ddc3ef0ea67da3e0730e23395p@chr1:66486342..66486351, +
2.47e-52FFCP PHASE1:Mm9::chr10:6473752..6473760,-#_273edf2ddc3ef0ea67da3e0730e23395p@chr10:6473752..6473760, -
2.47e-52FFCP PHASE1:Mm9::chr7:67121440..67121451,-#_273edf2ddc3ef0ea67da3e0730e23395p@chr7:67121440..67121451, -
2.47e-52FFCP PHASE2:Mm9::chr1:66486342..66486351,+#_273edf2ddc3ef0ea67da3e0730e23395p@chr1:66486342..66486351, +
3.69e-52FFCP PHASE2:Mm9::chr4:57253865..57253876,-#_0779f3de18fd9e2e543738976532f1d7p@chr4:57253865..57253876, -
3.69e-52FFCP PHASE1:Mm9::chr4:57253865..57253876,-#_0779f3de18fd9e2e543738976532f1d7p@chr4:57253865..57253876, -
3.69e-52FFCP PHASE2:Mm9::chr4:57253877..57253880,-#_0779f3de18fd9e2e543738976532f1d7p@chr4:57253877..57253880, -
3.69e-52FFCP PHASE1:Mm9::chr4:57253877..57253880,-#_0779f3de18fd9e2e543738976532f1d7p@chr4:57253877..57253880, -
5.51e-52FFCP PHASE1:Mm9::chr14:66893581..66893589,-#_367f20178697a87548317233dc8250e2p@chr14:66893581..66893589, -
5.51e-52FFCP PHASE2:Mm9::chr14:66893581..66893589,-#_367f20178697a87548317233dc8250e2p@chr14:66893581..66893589, -
1.18e-44FFCP PHASE2:Mm9::chr4:134073503..134073512,-#_bfe4b9966bbbd9cbb7114829fcfa9f01p@chr4:134073503..134073512, -
1.18e-44FFCP PHASE2:Mm9::chr1:66743268..66743289,+#_bfe4b9966bbbd9cbb7114829fcfa9f01p@chr1:66743268..66743289, +
1.18e-44FFCP PHASE1:Mm9::chr4:134073503..134073512,-#_bfe4b9966bbbd9cbb7114829fcfa9f01p@chr4:134073503..134073512, -
1.18e-44FFCP PHASE1:Mm9::chr1:66743268..66743289,+#_bfe4b9966bbbd9cbb7114829fcfa9f01p@chr1:66743268..66743289, +
2.33e-44FFCP PHASE1:Mm9::chr8:67087900..67087910,-#_705977668225e8f8eac0fcc028a07af1p@chr8:67087900..67087910, -
2.33e-44FFCP PHASE2:Mm9::chr8:67087900..67087910,-#_705977668225e8f8eac0fcc028a07af1p@chr8:67087900..67087910, -
2.33e-44FFCP PHASE2:Mm9::chr4:57447275..57447280,+#_705977668225e8f8eac0fcc028a07af1p21@Palm2
2.33e-44FFCP PHASE1:Mm9::chr4:57447275..57447280,+#_705977668225e8f8eac0fcc028a07af1p21@Palm2
3.27e-44FFCP PHASE2:Mm9::chr10:111706834..111706844,+#_8de15a93cfdfb4521eca0a08c5d2cbfep@chr10:111706834..111706844, +
3.27e-44FFCP PHASE2:Mm9::chr9:46721556..46721563,+#_8de15a93cfdfb4521eca0a08c5d2cbfep5@2900052N01Rik
3.27e-44FFCP PHASE1:Mm9::chr9:46721556..46721563,+#_8de15a93cfdfb4521eca0a08c5d2cbfep5@2900052N01Rik
3.27e-44FFCP PHASE1:Mm9::chr10:111706834..111706844,+#_8de15a93cfdfb4521eca0a08c5d2cbfep@chr10:111706834..111706844, +
4.58e-44FFCP PHASE1:Mm9::chr10:6473722..6473734,-#_7b19fee5332c6d2e9780c08de1c60c92p@chr10:6473722..6473734, -
4.58e-44FFCP PHASE2:Mm9::chr10:6473722..6473734,-#_7b19fee5332c6d2e9780c08de1c60c92p@chr10:6473722..6473734, -
8.97e-44FFCP PHASE1:Mm9::chr9:14438679..14438684,-#_c9f43f324cabb589a0a5e20ace387b94p@chr9:14438679..14438684, -
8.97e-44FFCP PHASE2:Mm9::chr9:14438679..14438684,-#_c9f43f324cabb589a0a5e20ace387b94p@chr9:14438679..14438684, -
1.75e-43FFCP PHASE2:Mm9::chr4:147732971..147732980,-#_194dedad045bcd9e299ae2f034e037b2p@chr4:147732971..147732980, -
1.75e-43FFCP PHASE1:Mm9::chr4:147732971..147732980,-#_194dedad045bcd9e299ae2f034e037b2p@chr4:147732971..147732980, -
2.45e-43FFCP PHASE2:Mm9::chr16:43072307..43072322,+#_4f32aed57fe48baa44961a1c9dbf981ap@chr16:43072307..43072322, +
2.45e-43FFCP PHASE1:Mm9::chr16:43072307..43072322,+#_4f32aed57fe48baa44961a1c9dbf981ap@chr16:43072307..43072322, +
1.7e-39FFCP PHASE2:Mm9::chr10:6482651..6482660,-#_33229468c2caedace4048e05fc674203p@chr10:6482651..6482660, -
1.7e-39FFCP PHASE1:Mm9::chr10:6482651..6482660,-#_33229468c2caedace4048e05fc674203p@chr10:6482651..6482660, -
2.66e-39FFCP PHASE1:Mm9::chr14:13448641..13448660,-#_10acdac7b68d68a6c8ee5b363c99555cp@chr14:13448641..13448660, -
2.66e-39FFCP PHASE2:Mm9::chr2:103659822..103659827,-#_10acdac7b68d68a6c8ee5b363c99555cp1@ENSMUST00000118421, p1@ENSMUST00000167989
2.66e-39FFCP PHASE1:Mm9::chr2:103659822..103659827,-#_10acdac7b68d68a6c8ee5b363c99555cp1@ENSMUST00000118421, p1@ENSMUST00000167989
2.66e-39FFCP PHASE2:Mm9::chr12:110796949..110796955,+#_10acdac7b68d68a6c8ee5b363c99555cp@chr12:110796949..110796955, +
2.66e-39FFCP PHASE2:Mm9::chr14:13448641..13448660,-#_10acdac7b68d68a6c8ee5b363c99555cp@chr14:13448641..13448660, -
2.66e-39FFCP PHASE1:Mm9::chr12:110796949..110796955,+#_10acdac7b68d68a6c8ee5b363c99555cp@chr12:110796949..110796955, +
4.15e-39FFCP PHASE1:Mm9::chr1:155500060..155500061,+#_1e93e35f5193853423e151bb64fae9aep19@Rgs8
4.15e-39FFCP PHASE2:Mm9::chr2:90730407..90730420,+#_1e93e35f5193853423e151bb64fae9aep@chr2:90730407..90730420, +
4.15e-39FFCP PHASE1:Mm9::chr2:90730407..90730420,+#_1e93e35f5193853423e151bb64fae9aep@chr2:90730407..90730420, +
4.15e-39FFCP PHASE2:Mm9::chr16:43072335..43072346,+#_1e93e35f5193853423e151bb64fae9aep@chr16:43072335..43072346, +
4.15e-39FFCP PHASE2:Mm9::chr1:155500060..155500061,+#_1e93e35f5193853423e151bb64fae9aep19@Rgs8
4.15e-39FFCP PHASE2:Mm9::chr5:135039704..135039724,-#_1e93e35f5193853423e151bb64fae9aep@chr5:135039704..135039724, -
4.15e-39FFCP PHASE1:Mm9::chr5:135039704..135039724,-#_1e93e35f5193853423e151bb64fae9aep@chr5:135039704..135039724, -
4.15e-39FFCP PHASE1:Mm9::chr16:43072335..43072346,+#_1e93e35f5193853423e151bb64fae9aep@chr16:43072335..43072346, +
1.17e-38FFCP PHASE1:Mm9::chr16:89818560..89818572,-#_4b57bab93d80a01fd3e2305c2f1de893p17@Tiam1
1.17e-38FFCP PHASE2:Mm9::chr7:6659121..6659133,-#_4b57bab93d80a01fd3e2305c2f1de893p@chr7:6659121..6659133, -
1.17e-38FFCP PHASE2:Mm9::chr16:89818560..89818572,-#_4b57bab93d80a01fd3e2305c2f1de893p17@Tiam1
1.17e-38FFCP PHASE1:Mm9::chr7:6659121..6659133,-#_4b57bab93d80a01fd3e2305c2f1de893p@chr7:6659121..6659133, -
1.17e-38FFCP PHASE1:Mm9::chr10:77867856..77867866,-#_4b57bab93d80a01fd3e2305c2f1de893p@chr10:77867856..77867866, -
1.17e-38FFCP PHASE2:Mm9::chr10:77867856..77867866,-#_4b57bab93d80a01fd3e2305c2f1de893p@chr10:77867856..77867866, -
2.09e-38FFCP PHASE2:Mm9::chr6:48398099..48398121,+#_9f34578fce214e86b033a5cd6bebc9fbp2@LOC100505089, p2@Sspo
2.09e-38FFCP PHASE1:Mm9::chr6:48398099..48398121,+#_9f34578fce214e86b033a5cd6bebc9fbp2@LOC100505089, p2@Sspo
8.86e-38FFCP PHASE2:Mm9::chr4:47004694..47004703,-#_2a5ab6d9bb76aed789410bdc74760646p8@Gabbr2
8.86e-38FFCP PHASE1:Mm9::chr4:47004694..47004703,-#_2a5ab6d9bb76aed789410bdc74760646p8@Gabbr2
1.18e-37FFCP PHASE1:Mm9::chr2:177853871..177853888,+#_dd5f01a012d61c84bbbd13e3f513ae20p18@Phactr3
1.18e-37FFCP PHASE2:Mm9::chr2:177853871..177853888,+#_dd5f01a012d61c84bbbd13e3f513ae20p18@Phactr3
2.1e-37FFCP PHASE2:Mm9::chr4:147588847..147588858,-#_434cec502fe65fff2fc52915ba072e37p@chr4:147588847..147588858, -
2.1e-37FFCP PHASE1:Mm9::chr4:147588847..147588858,-#_434cec502fe65fff2fc52915ba072e37p@chr4:147588847..147588858, -
3.72e-37FFCP PHASE1:Mm9::chr2:70439780..70439819,+#_0c4a3cc964b79cf155361424dcd866cap@chr2:70439780..70439819, +
3.72e-37FFCP PHASE2:Mm9::chr2:70439780..70439819,+#_0c4a3cc964b79cf155361424dcd866cap@chr2:70439780..70439819, +
3.67e-34FFCP PHASE2:Mm9::chr19:40804786..40804795,-#_5815df2f8062976dd43262ca4a0078e5p@chr19:40804786..40804795, -
3.67e-34FFCP PHASE1:Mm9::chr19:40804786..40804795,-#_5815df2f8062976dd43262ca4a0078e5p@chr19:40804786..40804795, -
3.67e-34FFCP PHASE2:Mm9::chr11:68505408..68505413,+#_5815df2f8062976dd43262ca4a0078e5p8@Myh10
3.67e-34FFCP PHASE1:Mm9::chr11:68505408..68505413,+#_5815df2f8062976dd43262ca4a0078e5p8@Myh10
4.74e-34FFCP PHASE1:Mm9::chr2:102621960..102621969,+#_51247034391a85e034f2180cee513fa2p@chr2:102621960..102621969, +
4.74e-34FFCP PHASE2:Mm9::chr5:31441248..31441260,-#_51247034391a85e034f2180cee513fa2p1@Ucn
4.74e-34FFCP PHASE1:Mm9::chr5:31441248..31441260,-#_51247034391a85e034f2180cee513fa2p1@Ucn
4.74e-34FFCP PHASE2:Mm9::chr2:102621960..102621969,+#_51247034391a85e034f2180cee513fa2p@chr2:102621960..102621969, +
1.31e-33FFCP PHASE2:Mm9::chr14:31438329..31438344,-#_f49da704a25c7bb63a62874814757f72p@chr14:31438329..31438344, -
1.31e-33FFCP PHASE1:Mm9::chr15:59373755..59373758,-#_f49da704a25c7bb63a62874814757f72p@chr15:59373755..59373758, -
1.31e-33FFCP PHASE1:Mm9::chr14:31438329..31438344,-#_f49da704a25c7bb63a62874814757f72p@chr14:31438329..31438344, -
1.31e-33FFCP PHASE2:Mm9::chr15:59373755..59373758,-#_f49da704a25c7bb63a62874814757f72p@chr15:59373755..59373758, -
1.31e-33FFCP PHASE2:Mm9::chr7:116903722..116903727,-#_f49da704a25c7bb63a62874814757f72p@chr7:116903722..116903727, -
1.31e-33FFCP PHASE1:Mm9::chr7:116903722..116903727,-#_f49da704a25c7bb63a62874814757f72p@chr7:116903722..116903727, -
2.18e-33FFCP PHASE1:Mm9::chr14:54813640..54813649,+#_e690a391cbb55e9f9db476eb1da5ef0bp@chr14:54813640..54813649, +
2.18e-33FFCP PHASE2:Mm9::chr14:54813640..54813649,+#_e690a391cbb55e9f9db476eb1da5ef0bp@chr14:54813640..54813649, +
7.68e-33FFCP PHASE1:Mm9::chr19:55969998..55970001,+#_7b8be4c6a266daaa6e40d5883de640eep40@Tcf7l2
7.68e-33FFCP PHASE1:Mm9::chr18:62483890..62483902,+#_7b8be4c6a266daaa6e40d5883de640eep3@Htr4

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