UBERON:0002275

Name:	reticular formation
Namespace:	FANTOM
Xrefs:	Expandlinks: FMA:77719 [ 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

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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

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Mouse (Mus musculus)

• 11645-122D7 (Mouse Neurons - raphe, donor3)
• 11722-123D3 (Mouse Neurons - raphe, donor1)
• 11740-123F3 (Mouse Neurons - raphe, donor2)

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

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P-value	FFCP	Short description

P-value	FFCP	Short description
1.58e-86	FFCP PHASE2:Mm9::chr9:67832482..67832485,+	p@chr9:67832482..67832485, +
1.58e-86	FFCP PHASE1:Mm9::chr9:67832482..67832485,+	p@chr9:67832482..67832485, +
2.21e-65	FFCP PHASE1:Mm9::chr11:6372235..6372242,-	p1@ENSMUST00000175144
2.21e-65	FFCP PHASE2:Mm9::chr11:6372235..6372242,-	p1@ENSMUST00000175144
3.65e-65	FFCP PHASE1:Mm9::chr6:77194015..77194026,+	p@chr6:77194015..77194026, +
3.65e-65	FFCP PHASE2:Mm9::chr6:77194015..77194026,+	p@chr6:77194015..77194026, +
3.28e-58	FFCP PHASE2:Mm9::chr2:24918331..24918345,+	p@chr2:24918331..24918345, +
3.28e-58	FFCP PHASE1:Mm9::chr2:24918331..24918345,+	p@chr2:24918331..24918345, +
4.9e-53	FFCP PHASE1:Mm9::chr3:88548978..88548990,-	p@chr3:88548978..88548990, -
4.9e-53	FFCP PHASE2:Mm9::chr3:88548978..88548990,-	p@chr3:88548978..88548990, -
7.35e-53	FFCP PHASE1:Mm9::chr10:10408741..10408754,-	p@chr10:10408741..10408754, -
7.35e-53	FFCP PHASE2:Mm9::chr10:10408741..10408754,-	p@chr10:10408741..10408754, -
1.1e-52	FFCP PHASE2:Mm9::chr3:126639582..126639596,-	p@chr3:126639582..126639596, -
1.1e-52	FFCP PHASE1:Mm9::chr3:126639582..126639596,-	p@chr3:126639582..126639596, -
1.65e-52	FFCP PHASE2:Mm9::chr12:85023868..85023879,+	p@chr12:85023868..85023879, +
1.65e-52	FFCP PHASE1:Mm9::chr12:85023868..85023879,+	p@chr12:85023868..85023879, +
1.65e-52	FFCP PHASE2:Mm9::chr4:57254065..57254072,-	p@chr4:57254065..57254072, -
1.65e-52	FFCP PHASE1:Mm9::chr4:57254065..57254072,-	p@chr4:57254065..57254072, -
2.47e-52	FFCP PHASE1:Mm9::chr1:66486342..66486351,+	p@chr1:66486342..66486351, +
2.47e-52	FFCP PHASE1:Mm9::chr7:67121440..67121451,-	p@chr7:67121440..67121451, -
2.47e-52	FFCP PHASE1:Mm9::chr10:6473752..6473760,-	p@chr10:6473752..6473760, -
2.47e-52	FFCP PHASE2:Mm9::chr10:6473752..6473760,-	p@chr10:6473752..6473760, -
2.47e-52	FFCP PHASE2:Mm9::chr7:67121440..67121451,-	p@chr7:67121440..67121451, -
2.47e-52	FFCP PHASE2:Mm9::chr1:66486342..66486351,+	p@chr1:66486342..66486351, +
3.69e-52	FFCP PHASE1:Mm9::chr4:57253877..57253880,-	p@chr4:57253877..57253880, -
3.69e-52	FFCP PHASE2:Mm9::chr4:57253865..57253876,-	p@chr4:57253865..57253876, -
3.69e-52	FFCP PHASE1:Mm9::chr4:57253865..57253876,-	p@chr4:57253865..57253876, -
3.69e-52	FFCP PHASE2:Mm9::chr4:57253877..57253880,-	p@chr4:57253877..57253880, -
5.51e-52	FFCP PHASE2:Mm9::chr14:66893581..66893589,-	p@chr14:66893581..66893589, -
5.51e-52	FFCP PHASE1:Mm9::chr14:66893581..66893589,-	p@chr14:66893581..66893589, -
1.18e-44	FFCP PHASE2:Mm9::chr1:66743268..66743289,+	p@chr1:66743268..66743289, +
1.18e-44	FFCP PHASE1:Mm9::chr4:134073503..134073512,-	p@chr4:134073503..134073512, -
1.18e-44	FFCP PHASE1:Mm9::chr1:66743268..66743289,+	p@chr1:66743268..66743289, +
1.18e-44	FFCP PHASE2:Mm9::chr4:134073503..134073512,-	p@chr4:134073503..134073512, -
2.33e-44	FFCP PHASE2:Mm9::chr4:57447275..57447280,+	p21@Palm2
2.33e-44	FFCP PHASE1:Mm9::chr4:57447275..57447280,+	p21@Palm2
2.33e-44	FFCP PHASE1:Mm9::chr8:67087900..67087910,-	p@chr8:67087900..67087910, -
2.33e-44	FFCP PHASE2:Mm9::chr8:67087900..67087910,-	p@chr8:67087900..67087910, -
3.27e-44	FFCP PHASE1:Mm9::chr9:46721556..46721563,+	p5@2900052N01Rik
3.27e-44	FFCP PHASE2:Mm9::chr10:111706834..111706844,+	p@chr10:111706834..111706844, +
3.27e-44	FFCP PHASE2:Mm9::chr9:46721556..46721563,+	p5@2900052N01Rik
3.27e-44	FFCP PHASE1:Mm9::chr10:111706834..111706844,+	p@chr10:111706834..111706844, +
4.58e-44	FFCP PHASE1:Mm9::chr10:6473722..6473734,-	p@chr10:6473722..6473734, -
4.58e-44	FFCP PHASE2:Mm9::chr10:6473722..6473734,-	p@chr10:6473722..6473734, -
8.97e-44	FFCP PHASE2:Mm9::chr9:14438679..14438684,-	p@chr9:14438679..14438684, -
8.97e-44	FFCP PHASE1:Mm9::chr9:14438679..14438684,-	p@chr9:14438679..14438684, -
1.75e-43	FFCP PHASE1:Mm9::chr4:147732971..147732980,-	p@chr4:147732971..147732980, -
1.75e-43	FFCP PHASE2:Mm9::chr4:147732971..147732980,-	p@chr4:147732971..147732980, -
2.45e-43	FFCP PHASE1:Mm9::chr16:43072307..43072322,+	p@chr16:43072307..43072322, +
2.45e-43	FFCP PHASE2:Mm9::chr16:43072307..43072322,+	p@chr16:43072307..43072322, +
1.7e-39	FFCP PHASE1:Mm9::chr10:6482651..6482660,-	p@chr10:6482651..6482660, -
1.7e-39	FFCP PHASE2:Mm9::chr10:6482651..6482660,-	p@chr10:6482651..6482660, -
2.66e-39	FFCP PHASE1:Mm9::chr2:103659822..103659827,-	p1@ENSMUST00000118421, p1@ENSMUST00000167989
2.66e-39	FFCP PHASE2:Mm9::chr2:103659822..103659827,-	p1@ENSMUST00000118421, p1@ENSMUST00000167989
2.66e-39	FFCP PHASE2:Mm9::chr12:110796949..110796955,+	p@chr12:110796949..110796955, +
2.66e-39	FFCP PHASE2:Mm9::chr14:13448641..13448660,-	p@chr14:13448641..13448660, -
2.66e-39	FFCP PHASE1:Mm9::chr12:110796949..110796955,+	p@chr12:110796949..110796955, +
2.66e-39	FFCP PHASE1:Mm9::chr14:13448641..13448660,-	p@chr14:13448641..13448660, -
4.15e-39	FFCP PHASE2:Mm9::chr5:135039704..135039724,-	p@chr5:135039704..135039724, -
4.15e-39	FFCP PHASE2:Mm9::chr2:90730407..90730420,+	p@chr2:90730407..90730420, +
4.15e-39	FFCP PHASE1:Mm9::chr2:90730407..90730420,+	p@chr2:90730407..90730420, +
4.15e-39	FFCP PHASE2:Mm9::chr1:155500060..155500061,+	p19@Rgs8
4.15e-39	FFCP PHASE2:Mm9::chr16:43072335..43072346,+	p@chr16:43072335..43072346, +
4.15e-39	FFCP PHASE1:Mm9::chr5:135039704..135039724,-	p@chr5:135039704..135039724, -
4.15e-39	FFCP PHASE1:Mm9::chr16:43072335..43072346,+	p@chr16:43072335..43072346, +
4.15e-39	FFCP PHASE1:Mm9::chr1:155500060..155500061,+	p19@Rgs8
1.17e-38	FFCP PHASE1:Mm9::chr7:6659121..6659133,-	p@chr7:6659121..6659133, -
1.17e-38	FFCP PHASE2:Mm9::chr10:77867856..77867866,-	p@chr10:77867856..77867866, -
1.17e-38	FFCP PHASE1:Mm9::chr16:89818560..89818572,-	p17@Tiam1
1.17e-38	FFCP PHASE2:Mm9::chr7:6659121..6659133,-	p@chr7:6659121..6659133, -
1.17e-38	FFCP PHASE1:Mm9::chr10:77867856..77867866,-	p@chr10:77867856..77867866, -
1.17e-38	FFCP PHASE2:Mm9::chr16:89818560..89818572,-	p17@Tiam1
2.09e-38	FFCP PHASE1:Mm9::chr6:48398099..48398121,+	p2@LOC100505089, p2@Sspo
2.09e-38	FFCP PHASE2:Mm9::chr6:48398099..48398121,+	p2@LOC100505089, p2@Sspo
8.86e-38	FFCP PHASE2:Mm9::chr4:47004694..47004703,-	p8@Gabbr2
8.86e-38	FFCP PHASE1:Mm9::chr4:47004694..47004703,-	p8@Gabbr2
1.18e-37	FFCP PHASE1:Mm9::chr2:177853871..177853888,+	p18@Phactr3
1.18e-37	FFCP PHASE2:Mm9::chr2:177853871..177853888,+	p18@Phactr3
2.1e-37	FFCP PHASE1:Mm9::chr4:147588847..147588858,-	p@chr4:147588847..147588858, -
2.1e-37	FFCP PHASE2:Mm9::chr4:147588847..147588858,-	p@chr4:147588847..147588858, -
3.72e-37	FFCP PHASE2:Mm9::chr2:70439780..70439819,+	p@chr2:70439780..70439819, +
3.72e-37	FFCP PHASE1:Mm9::chr2:70439780..70439819,+	p@chr2:70439780..70439819, +
3.67e-34	FFCP PHASE1:Mm9::chr19:40804786..40804795,-	p@chr19:40804786..40804795, -
3.67e-34	FFCP PHASE1:Mm9::chr11:68505408..68505413,+	p8@Myh10
3.67e-34	FFCP PHASE2:Mm9::chr19:40804786..40804795,-	p@chr19:40804786..40804795, -
3.67e-34	FFCP PHASE2:Mm9::chr11:68505408..68505413,+	p8@Myh10
4.74e-34	FFCP PHASE1:Mm9::chr5:31441248..31441260,-	p1@Ucn
4.74e-34	FFCP PHASE1:Mm9::chr2:102621960..102621969,+	p@chr2:102621960..102621969, +
4.74e-34	FFCP PHASE2:Mm9::chr5:31441248..31441260,-	p1@Ucn
4.74e-34	FFCP PHASE2:Mm9::chr2:102621960..102621969,+	p@chr2:102621960..102621969, +
1.31e-33	FFCP PHASE1:Mm9::chr7:116903722..116903727,-	p@chr7:116903722..116903727, -
1.31e-33	FFCP PHASE2:Mm9::chr14:31438329..31438344,-	p@chr14:31438329..31438344, -
1.31e-33	FFCP PHASE1:Mm9::chr15:59373755..59373758,-	p@chr15:59373755..59373758, -
1.31e-33	FFCP PHASE2:Mm9::chr15:59373755..59373758,-	p@chr15:59373755..59373758, -
1.31e-33	FFCP PHASE1:Mm9::chr14:31438329..31438344,-	p@chr14:31438329..31438344, -
1.31e-33	FFCP PHASE2:Mm9::chr7:116903722..116903727,-	p@chr7:116903722..116903727, -
2.18e-33	FFCP PHASE1:Mm9::chr14:54813640..54813649,+	p@chr14:54813640..54813649, +
2.18e-33	FFCP PHASE2:Mm9::chr14:54813640..54813649,+	p@chr14:54813640..54813649, +
7.68e-33	FFCP PHASE2:Mm9::chr19:55969998..55970001,+	p40@Tcf7l2
7.68e-33	FFCP PHASE1:Mm9::chr19:55969998..55970001,+	p40@Tcf7l2

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