UBERON:0004684: Difference between revisions
From FANTOM5_SSTAR
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|located_in= | |located_in= | ||
|name=raphe nuclei | |name=raphe nuclei | ||
|namespace= | |namespace=FANTOM | ||
|obo_creation_date= | |obo_creation_date= | ||
|part_of=UBERON:0002275 | |part_of=UBERON:0002275 | ||
Latest revision as of 17:47, 12 September 2014
| Name: | raphe nuclei | ||
|---|---|---|---|
| Namespace: | FANTOM | ||
| Definition: | "Thin plates of cells in and immediately adjacent to the sagittal plane[NIF]. A moderate-size cluster of nuclei found in the brain stem. Their main function is to release serotonin to the rest of the brain. Selective serotonin reuptake inhibitor (SSRI) antidepressants are believed to act in these nuclei, as well as at their targets. The raphe nuclei are traditionally considered to be the medial portion of the reticular formation, and they appear as a ridge of cells in the center and most medial portion of the brain stem." [https://sourceforge.net/tracker/?func | ||
| Xrefs: |
| ||
| Synonyms: |
"nuclei raphes" EXACT [FMA:84017, FMA:TA] "nuclei raphes" RELATED LATIN [Wikipedia:Raphe_nuclei] "raphe cluster" RELATED [Wikipedia:Raphe_nuclei] "raphe nuclei" EXACT [NIF_GrossAnatomy:nlx_anat_20090205] "raphe nuclei" EXACT [FMA:84017] "raphe nuclei set" EXACT [FMA:84017] "raphe nucleus" RELATED [ZFA:0001429] | ||
| Comments: | we treat NR obscurus, NR magnus etc as parts of the raphe nuclei. This is consistent with treatment in FMA, where the class is 'set of raphe nuclei' | ||
| Subset: | vertebrate_core |
Gray694.png]
200px-Gray694.png]
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:0002616(regional part of brain) |
|---|---|
| part_of: | UBERON:0002275(reticular formation) |
Children
| part of: | CL:0002610 (raphe nuclei neuron) |
|---|
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)
- 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:0004684 (raphe nuclei), 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 |
|---|---|---|
| 1.58e-86 | FFCP PHASE2:Mm9::chr9:67832482..67832485,+#_7d70562ba50b57946b6c3da1fe4b42f9 | p@chr9:67832482..67832485, + |
| 1.58e-86 | FFCP PHASE1:Mm9::chr9:67832482..67832485,+#_7d70562ba50b57946b6c3da1fe4b42f9 | p@chr9:67832482..67832485, + |
| 2.21e-65 | FFCP PHASE2:Mm9::chr11:6372235..6372242,-#_cb204e10d58536ac0efa05d64c94ca5e | p1@ENSMUST00000175144 |
| 2.21e-65 | FFCP PHASE1:Mm9::chr11:6372235..6372242,-#_cb204e10d58536ac0efa05d64c94ca5e | p1@ENSMUST00000175144 |
| 3.65e-65 | FFCP PHASE2:Mm9::chr6:77194015..77194026,+#_6a9f27ef0f56483eb269b645006e1248 | p@chr6:77194015..77194026, + |
| 3.65e-65 | FFCP PHASE1:Mm9::chr6:77194015..77194026,+#_6a9f27ef0f56483eb269b645006e1248 | p@chr6:77194015..77194026, + |
| 3.28e-58 | FFCP PHASE2:Mm9::chr2:24918331..24918345,+#_666078436b582e8638bb03d0ecc57b70 | p@chr2:24918331..24918345, + |
| 3.28e-58 | FFCP PHASE1:Mm9::chr2:24918331..24918345,+#_666078436b582e8638bb03d0ecc57b70 | p@chr2:24918331..24918345, + |
| 4.9e-53 | FFCP PHASE1:Mm9::chr3:88548978..88548990,-#_a7214f7703af678a78780f6f581bbae7 | p@chr3:88548978..88548990, - |
| 4.9e-53 | FFCP PHASE2:Mm9::chr3:88548978..88548990,-#_a7214f7703af678a78780f6f581bbae7 | p@chr3:88548978..88548990, - |
| 7.35e-53 | FFCP PHASE2:Mm9::chr10:10408741..10408754,-#_f9fd8d37d620434ec5e72834811c8319 | p@chr10:10408741..10408754, - |
| 7.35e-53 | FFCP PHASE1:Mm9::chr10:10408741..10408754,-#_f9fd8d37d620434ec5e72834811c8319 | p@chr10:10408741..10408754, - |
| 1.1e-52 | FFCP PHASE1:Mm9::chr3:126639582..126639596,-#_500d7e20b8e066e7518dae392040ae1a | p@chr3:126639582..126639596, - |
| 1.1e-52 | FFCP PHASE2:Mm9::chr3:126639582..126639596,-#_500d7e20b8e066e7518dae392040ae1a | p@chr3:126639582..126639596, - |
| 1.65e-52 | FFCP PHASE2:Mm9::chr12:85023868..85023879,+#_7d8fcae546d446a303a68c4bc1756e43 | p@chr12:85023868..85023879, + |
| 1.65e-52 | FFCP PHASE1:Mm9::chr12:85023868..85023879,+#_7d8fcae546d446a303a68c4bc1756e43 | p@chr12:85023868..85023879, + |
| 1.65e-52 | FFCP PHASE2:Mm9::chr4:57254065..57254072,-#_7d8fcae546d446a303a68c4bc1756e43 | p@chr4:57254065..57254072, - |
| 1.65e-52 | FFCP PHASE1:Mm9::chr4:57254065..57254072,-#_7d8fcae546d446a303a68c4bc1756e43 | p@chr4:57254065..57254072, - |
| 2.47e-52 | FFCP PHASE1:Mm9::chr1:66486342..66486351,+#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr1:66486342..66486351, + |
| 2.47e-52 | FFCP PHASE1:Mm9::chr7:67121440..67121451,-#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr7:67121440..67121451, - |
| 2.47e-52 | FFCP PHASE1:Mm9::chr10:6473752..6473760,-#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr10:6473752..6473760, - |
| 2.47e-52 | FFCP PHASE2:Mm9::chr1:66486342..66486351,+#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr1:66486342..66486351, + |
| 2.47e-52 | FFCP PHASE2:Mm9::chr10:6473752..6473760,-#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr10:6473752..6473760, - |
| 2.47e-52 | FFCP PHASE2:Mm9::chr7:67121440..67121451,-#_011f5e7eee4e6a3c25ead5e1e6f2045f | p@chr7:67121440..67121451, - |
| 3.69e-52 | FFCP PHASE1:Mm9::chr4:57253877..57253880,-#_4796d0deeae5e78e1bf66f3aadbbcf94 | p@chr4:57253877..57253880, - |
| 3.69e-52 | FFCP PHASE2:Mm9::chr4:57253865..57253876,-#_4796d0deeae5e78e1bf66f3aadbbcf94 | p@chr4:57253865..57253876, - |
| 3.69e-52 | FFCP PHASE1:Mm9::chr4:57253865..57253876,-#_4796d0deeae5e78e1bf66f3aadbbcf94 | p@chr4:57253865..57253876, - |
| 3.69e-52 | FFCP PHASE2:Mm9::chr4:57253877..57253880,-#_4796d0deeae5e78e1bf66f3aadbbcf94 | p@chr4:57253877..57253880, - |
| 5.51e-52 | FFCP PHASE2:Mm9::chr14:66893581..66893589,-#_ab5a1be5b4525248f0d76ac4b7f8852d | p@chr14:66893581..66893589, - |
| 5.51e-52 | FFCP PHASE1:Mm9::chr14:66893581..66893589,-#_ab5a1be5b4525248f0d76ac4b7f8852d | p@chr14:66893581..66893589, - |
| 1.18e-44 | FFCP PHASE1:Mm9::chr4:134073503..134073512,-#_b335753eb3ba5e3d8f8a8eccbd1357e9 | p@chr4:134073503..134073512, - |
| 1.18e-44 | FFCP PHASE1:Mm9::chr1:66743268..66743289,+#_b335753eb3ba5e3d8f8a8eccbd1357e9 | p@chr1:66743268..66743289, + |
| 1.18e-44 | FFCP PHASE2:Mm9::chr4:134073503..134073512,-#_b335753eb3ba5e3d8f8a8eccbd1357e9 | p@chr4:134073503..134073512, - |
| 1.18e-44 | FFCP PHASE2:Mm9::chr1:66743268..66743289,+#_b335753eb3ba5e3d8f8a8eccbd1357e9 | p@chr1:66743268..66743289, + |
| 2.33e-44 | FFCP PHASE2:Mm9::chr4:57447275..57447280,+#_29ff4f9b587deda5f58d0e96e6e23762 | p21@Palm2 |
| 2.33e-44 | FFCP PHASE1:Mm9::chr4:57447275..57447280,+#_29ff4f9b587deda5f58d0e96e6e23762 | p21@Palm2 |
| 2.33e-44 | FFCP PHASE1:Mm9::chr8:67087900..67087910,-#_29ff4f9b587deda5f58d0e96e6e23762 | p@chr8:67087900..67087910, - |
| 2.33e-44 | FFCP PHASE2:Mm9::chr8:67087900..67087910,-#_29ff4f9b587deda5f58d0e96e6e23762 | p@chr8:67087900..67087910, - |
| 3.27e-44 | FFCP PHASE1:Mm9::chr9:46721556..46721563,+#_8bb8ba2f113bfcad5b91ba5d4da1b145 | p5@2900052N01Rik |
| 3.27e-44 | FFCP PHASE1:Mm9::chr10:111706834..111706844,+#_8bb8ba2f113bfcad5b91ba5d4da1b145 | p@chr10:111706834..111706844, + |
| 3.27e-44 | FFCP PHASE2:Mm9::chr10:111706834..111706844,+#_8bb8ba2f113bfcad5b91ba5d4da1b145 | p@chr10:111706834..111706844, + |
| 3.27e-44 | FFCP PHASE2:Mm9::chr9:46721556..46721563,+#_8bb8ba2f113bfcad5b91ba5d4da1b145 | p5@2900052N01Rik |
| 4.58e-44 | FFCP PHASE1:Mm9::chr10:6473722..6473734,-#_2dbe468c536f74225dcb1a65110c08c5 | p@chr10:6473722..6473734, - |
| 4.58e-44 | FFCP PHASE2:Mm9::chr10:6473722..6473734,-#_2dbe468c536f74225dcb1a65110c08c5 | p@chr10:6473722..6473734, - |
| 8.97e-44 | FFCP PHASE2:Mm9::chr9:14438679..14438684,-#_9f395b6cfb6c181b09d30ddcfabd3951 | p@chr9:14438679..14438684, - |
| 8.97e-44 | FFCP PHASE1:Mm9::chr9:14438679..14438684,-#_9f395b6cfb6c181b09d30ddcfabd3951 | p@chr9:14438679..14438684, - |
| 1.75e-43 | FFCP PHASE2:Mm9::chr4:147732971..147732980,-#_98417e96ba657af9eefc630d3371117e | p@chr4:147732971..147732980, - |
| 1.75e-43 | FFCP PHASE1:Mm9::chr4:147732971..147732980,-#_98417e96ba657af9eefc630d3371117e | p@chr4:147732971..147732980, - |
| 2.45e-43 | FFCP PHASE1:Mm9::chr16:43072307..43072322,+#_3d28b1ebb08a6a47504c4053eba88076 | p@chr16:43072307..43072322, + |
| 2.45e-43 | FFCP PHASE2:Mm9::chr16:43072307..43072322,+#_3d28b1ebb08a6a47504c4053eba88076 | p@chr16:43072307..43072322, + |
| 1.7e-39 | FFCP PHASE2:Mm9::chr10:6482651..6482660,-#_0942180b4968611b45555cf926370a84 | p@chr10:6482651..6482660, - |
| 1.7e-39 | FFCP PHASE1:Mm9::chr10:6482651..6482660,-#_0942180b4968611b45555cf926370a84 | p@chr10:6482651..6482660, - |
| 2.66e-39 | FFCP PHASE1:Mm9::chr2:103659822..103659827,-#_9bb6b60df21871fcfd160dd4979bac83 | p1@ENSMUST00000118421, p1@ENSMUST00000167989 |
| 2.66e-39 | FFCP PHASE2:Mm9::chr12:110796949..110796955,+#_9bb6b60df21871fcfd160dd4979bac83 | p@chr12:110796949..110796955, + |
| 2.66e-39 | FFCP PHASE2:Mm9::chr14:13448641..13448660,-#_9bb6b60df21871fcfd160dd4979bac83 | p@chr14:13448641..13448660, - |
| 2.66e-39 | FFCP PHASE1:Mm9::chr12:110796949..110796955,+#_9bb6b60df21871fcfd160dd4979bac83 | p@chr12:110796949..110796955, + |
| 2.66e-39 | FFCP PHASE1:Mm9::chr14:13448641..13448660,-#_9bb6b60df21871fcfd160dd4979bac83 | p@chr14:13448641..13448660, - |
| 2.66e-39 | FFCP PHASE2:Mm9::chr2:103659822..103659827,-#_9bb6b60df21871fcfd160dd4979bac83 | p1@ENSMUST00000118421, p1@ENSMUST00000167989 |
| 4.15e-39 | FFCP PHASE2:Mm9::chr2:90730407..90730420,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr2:90730407..90730420, + |
| 4.15e-39 | FFCP PHASE1:Mm9::chr2:90730407..90730420,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr2:90730407..90730420, + |
| 4.15e-39 | FFCP PHASE2:Mm9::chr1:155500060..155500061,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p19@Rgs8 |
| 4.15e-39 | FFCP PHASE2:Mm9::chr16:43072335..43072346,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr16:43072335..43072346, + |
| 4.15e-39 | FFCP PHASE2:Mm9::chr5:135039704..135039724,-#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr5:135039704..135039724, - |
| 4.15e-39 | FFCP PHASE1:Mm9::chr5:135039704..135039724,-#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr5:135039704..135039724, - |
| 4.15e-39 | FFCP PHASE1:Mm9::chr16:43072335..43072346,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p@chr16:43072335..43072346, + |
| 4.15e-39 | FFCP PHASE1:Mm9::chr1:155500060..155500061,+#_9b1c8f982f5e8f978c9ff561e0622a66 | p19@Rgs8 |
| 1.17e-38 | FFCP PHASE1:Mm9::chr7:6659121..6659133,-#_0e4d10ee5017aa9449bfff81263f05d7 | p@chr7:6659121..6659133, - |
| 1.17e-38 | FFCP PHASE2:Mm9::chr10:77867856..77867866,-#_0e4d10ee5017aa9449bfff81263f05d7 | p@chr10:77867856..77867866, - |
| 1.17e-38 | FFCP PHASE1:Mm9::chr10:77867856..77867866,-#_0e4d10ee5017aa9449bfff81263f05d7 | p@chr10:77867856..77867866, - |
| 1.17e-38 | FFCP PHASE1:Mm9::chr16:89818560..89818572,-#_0e4d10ee5017aa9449bfff81263f05d7 | p17@Tiam1 |
| 1.17e-38 | FFCP PHASE2:Mm9::chr7:6659121..6659133,-#_0e4d10ee5017aa9449bfff81263f05d7 | p@chr7:6659121..6659133, - |
| 1.17e-38 | FFCP PHASE2:Mm9::chr16:89818560..89818572,-#_0e4d10ee5017aa9449bfff81263f05d7 | p17@Tiam1 |
| 2.09e-38 | FFCP PHASE2:Mm9::chr6:48398099..48398121,+#_edfefbad1a4de47f95d717a4245ac3af | p2@LOC100505089, p2@Sspo |
| 2.09e-38 | FFCP PHASE1:Mm9::chr6:48398099..48398121,+#_edfefbad1a4de47f95d717a4245ac3af | p2@LOC100505089, p2@Sspo |
| 8.86e-38 | FFCP PHASE2:Mm9::chr4:47004694..47004703,-#_0348d4a80af929214c026393b1907597 | p8@Gabbr2 |
| 8.86e-38 | FFCP PHASE1:Mm9::chr4:47004694..47004703,-#_0348d4a80af929214c026393b1907597 | p8@Gabbr2 |
| 1.18e-37 | FFCP PHASE1:Mm9::chr2:177853871..177853888,+#_b5ee9fb3a11df918cc048d34386c4bbb | p18@Phactr3 |
| 1.18e-37 | FFCP PHASE2:Mm9::chr2:177853871..177853888,+#_b5ee9fb3a11df918cc048d34386c4bbb | p18@Phactr3 |
| 2.1e-37 | FFCP PHASE2:Mm9::chr4:147588847..147588858,-#_5be94447ee2fd7c8e4b3d0490ce092b3 | p@chr4:147588847..147588858, - |
| 2.1e-37 | FFCP PHASE1:Mm9::chr4:147588847..147588858,-#_5be94447ee2fd7c8e4b3d0490ce092b3 | p@chr4:147588847..147588858, - |
| 3.72e-37 | FFCP PHASE2:Mm9::chr2:70439780..70439819,+#_f786a6293701e2cbce3fc77fb56bc452 | p@chr2:70439780..70439819, + |
| 3.72e-37 | FFCP PHASE1:Mm9::chr2:70439780..70439819,+#_f786a6293701e2cbce3fc77fb56bc452 | p@chr2:70439780..70439819, + |
| 3.67e-34 | FFCP PHASE1:Mm9::chr19:40804786..40804795,-#_b97dd26b370fd858d7ba11431bba631a | p@chr19:40804786..40804795, - |
| 3.67e-34 | FFCP PHASE2:Mm9::chr11:68505408..68505413,+#_b97dd26b370fd858d7ba11431bba631a | p8@Myh10 |
| 3.67e-34 | FFCP PHASE1:Mm9::chr11:68505408..68505413,+#_b97dd26b370fd858d7ba11431bba631a | p8@Myh10 |
| 3.67e-34 | FFCP PHASE2:Mm9::chr19:40804786..40804795,-#_b97dd26b370fd858d7ba11431bba631a | p@chr19:40804786..40804795, - |
| 4.74e-34 | FFCP PHASE1:Mm9::chr5:31441248..31441260,-#_063d6bffd3c4e4ec3547bdc1c03ca18a | p1@Ucn |
| 4.74e-34 | FFCP PHASE2:Mm9::chr2:102621960..102621969,+#_063d6bffd3c4e4ec3547bdc1c03ca18a | p@chr2:102621960..102621969, + |
| 4.74e-34 | FFCP PHASE1:Mm9::chr2:102621960..102621969,+#_063d6bffd3c4e4ec3547bdc1c03ca18a | p@chr2:102621960..102621969, + |
| 4.74e-34 | FFCP PHASE2:Mm9::chr5:31441248..31441260,-#_063d6bffd3c4e4ec3547bdc1c03ca18a | p1@Ucn |
| 1.31e-33 | FFCP PHASE1:Mm9::chr7:116903722..116903727,-#_2787e2e2193114d98937a4f70b326260 | p@chr7:116903722..116903727, - |
| 1.31e-33 | FFCP PHASE2:Mm9::chr14:31438329..31438344,-#_2787e2e2193114d98937a4f70b326260 | p@chr14:31438329..31438344, - |
| 1.31e-33 | FFCP PHASE1:Mm9::chr15:59373755..59373758,-#_2787e2e2193114d98937a4f70b326260 | p@chr15:59373755..59373758, - |
| 1.31e-33 | FFCP PHASE1:Mm9::chr14:31438329..31438344,-#_2787e2e2193114d98937a4f70b326260 | p@chr14:31438329..31438344, - |
| 1.31e-33 | FFCP PHASE2:Mm9::chr15:59373755..59373758,-#_2787e2e2193114d98937a4f70b326260 | p@chr15:59373755..59373758, - |
| 1.31e-33 | FFCP PHASE2:Mm9::chr7:116903722..116903727,-#_2787e2e2193114d98937a4f70b326260 | p@chr7:116903722..116903727, - |
| 2.18e-33 | FFCP PHASE1:Mm9::chr14:54813640..54813649,+#_e0524cc8f2ba8eda6272a5a3a078c2d2 | p@chr14:54813640..54813649, + |
| 2.18e-33 | FFCP PHASE2:Mm9::chr14:54813640..54813649,+#_e0524cc8f2ba8eda6272a5a3a078c2d2 | p@chr14:54813640..54813649, + |
| 7.68e-33 | FFCP PHASE2:Mm9::chr18:62483890..62483902,+#_3a43c380d4d6e3e057d626fb742e9a28 | p3@Htr4 |
| 7.68e-33 | FFCP PHASE2:Mm9::chr19:55969998..55970001,+#_3a43c380d4d6e3e057d626fb742e9a28 | p40@Tcf7l2 |
