UBERON:0000349: Difference between revisions
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|located_in= | |located_in= | ||
|name=limbic system | |name=limbic system | ||
|namespace= | |namespace=FANTOM | ||
|obo_creation_date= | |obo_creation_date= | ||
|part_of=UBERON:0001890 | |part_of=UBERON:0001890 | ||
Latest revision as of 17:08, 12 September 2014
| Name: | limbic system | ||
|---|---|---|---|
| Namespace: | FANTOM | ||
| Definition: | "A set of midline structures surrounding the brainstem of the mammalian brain, originally described anatomically, e.g., hippocampal formation, amygdala, hypothalamus, cingulate cortex. Although the original designation was anatomical, the limbic system has come to be associated with the system in the brain subserving emotional functions. As such, it is very poorly defined and doesn't correspond closely to the anatomical meaning any longer. [BirnLex]. including the hippocampus, amygdala, anterior thalamic nuclei, and limbic cortex, which support a variety of functions including emotion, behavior, long term memory, and olfaction [Wikipedia]." [BIRNLEX:Limbic_system, Wikipedia:Limbic_system] | ||
| Xrefs: |
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| Comments: | obsoletion recommended. The current part_of children were chosen as the intersection of what is stated in wikipedia and in the FMA. NIF: We are including Limbic System because it is still used by neuroscientists and others, but as a data annotation term, it is very poor because it is not a clearly defined entity. | ||
| Alt_id: | UBERON:BTO_0000928-FMA_242000 |
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:0004121(ectoderm-derived structure) |
|---|---|
| part_of: | UBERON:0001890(forebrain) |
Children
| part of: | UBERON:0001876 (amygdala),UBERON:0001882 (nucleus accumbens),UBERON:0001954 (Ammon's horn) |
|---|
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)
- 10153-102I9 (hippocampus, adult, donor10252)
- 10167-103B5 (amygdala - adult, donor10196)
- 10169-103B7 (hippocampus - adult, donor10196)
- 10360-105E9 (amygdala, newborn, donor10223)
- 10363-105F3 (hippocampus, newborn, donor10223)
- 10374-105G5 (hippocampus, adult, donor10258)
- 11551-120C3 (Mouse Astrocytes - hippocampus, donor2)
- 11632-122C3 (Mouse Astrocytes - hippocampus, donor3)
... further results Mouse (Mus musculus)
- 10037-101F1 (nucleus accumbens, adult, pool1)
- 10151-102I7 (amygdala, adult, donor10252)
- 10153-102I9 (hippocampus, adult, donor10252)
- 10167-103B5 (amygdala - adult, donor10196)
- 10169-103B7 (hippocampus - adult, donor10196)
- 10360-105E9 (amygdala, newborn, donor10223)
- 10363-105F3 (hippocampus, newborn, donor10223)
- 10374-105G5 (hippocampus, adult, donor10258)
- 11551-120C3 (Mouse Astrocytes - hippocampus, donor2)
- 11632-122C3 (Mouse Astrocytes - hippocampus, donor3)
Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0000349 (limbic system), 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 |
|---|---|---|
| 7.76e-118 | FFCP PHASE2:Hg19::chr8:54745692..54745698,-#_519290464ac3c304f76003fdfd619da3 | p11@ATP6V1H |
| 7.76e-118 | FFCP PHASE1:Hg19::chr8:54745692..54745698,-#_519290464ac3c304f76003fdfd619da3 | p11@ATP6V1H |
| 6.64e-89 | FFCP PHASE1:Hg19::chr2:149881275..149881284,+#_eba07a286397dfe879e41cc6b5c8304c | p@chr2:149881275..149881284, + |
| 6.64e-89 | FFCP PHASE2:Hg19::chr2:149881275..149881284,+#_eba07a286397dfe879e41cc6b5c8304c | p@chr2:149881275..149881284, + |
| 1.21e-88 | FFCP PHASE2:Hg19::chr3:71777824..71777833,-#_62f05e300bccfc16e8370ca30116d5b2 | p28@EIF4E3 |
| 1.21e-88 | FFCP PHASE1:Hg19::chr3:71777824..71777833,-#_62f05e300bccfc16e8370ca30116d5b2 | p28@EIF4E3 |
| 4.86e-82 | FFCP PHASE1:Hg19::chr3:131756559..131756572,-#_c80a8730960367074940b22cc7cbfe85 | p7@CPNE4 |
| 4.86e-82 | FFCP PHASE2:Hg19::chr3:131756559..131756572,-#_c80a8730960367074940b22cc7cbfe85 | p7@CPNE4 |
| 5.75e-82 | FFCP PHASE1:Hg19::chr11:35281834..35281846,-#_51dfd8e2d3d3eca75776253237c8ff8c | p@chr11:35281834..35281846, - |
| 5.75e-82 | FFCP PHASE2:Hg19::chr11:35281834..35281846,-#_51dfd8e2d3d3eca75776253237c8ff8c | p@chr11:35281834..35281846, - |
| 1.42e-79 | FFCP PHASE2:Hg19::chr13:101712292..101712306,-#_454fb4e88c17d44f7709d193626edf1e | p@chr13:101712292..101712306, - |
| 1.42e-79 | FFCP PHASE1:Hg19::chr13:101712292..101712306,-#_454fb4e88c17d44f7709d193626edf1e | p@chr13:101712292..101712306, - |
| 1.56e-71 | FFCP PHASE2:Hg19::chr11:74047383..74047406,-#_c764e3b4bfd05e0a2187f41ac54d055d | p@chr11:74047383..74047406, - |
| 1.56e-71 | FFCP PHASE1:Hg19::chr11:74047383..74047406,-#_c764e3b4bfd05e0a2187f41ac54d055d | p@chr11:74047383..74047406, - |
| 2.75e-71 | FFCP PHASE1:Hg19::chr8:54752406..54752429,-#_dc4dd7232c1e2e3becc370966e6ef940 | p5@ATP6V1H |
| 2.75e-71 | FFCP PHASE2:Hg19::chr8:54752406..54752429,-#_dc4dd7232c1e2e3becc370966e6ef940 | p5@ATP6V1H |
| 1.27e-70 | FFCP PHASE2:Hg19::chr5:63258078..63258088,-#_43d62fd99830622745ffea870efb0215 | p6@HTR1A |
| 1.27e-70 | FFCP PHASE1:Hg19::chr5:63258078..63258088,-#_43d62fd99830622745ffea870efb0215 | p6@HTR1A |
| 1.14e-63 | FFCP PHASE2:Hg19::chr2:242815160..242815176,+#_c0ab58c59405c2de3ef5d111dc92d050 | p@chr2:242815160..242815176, + |
| 1.14e-63 | FFCP PHASE1:Hg19::chr2:242815160..242815176,+#_c0ab58c59405c2de3ef5d111dc92d050 | p@chr2:242815160..242815176, + |
| 1.84e-63 | FFCP PHASE1:Hg19::chr19:19640188..19640201,+#_c634878ce2d3f4faf4f1a8509bb8128e | p@chr19:19640188..19640201, + |
| 1.84e-63 | FFCP PHASE2:Hg19::chr19:19640188..19640201,+#_c634878ce2d3f4faf4f1a8509bb8128e | p@chr19:19640188..19640201, + |
| 4.84e-63 | FFCP PHASE2:Hg19::chr18:11751516..11751523,+#_577ddce323f3b49179e21c2952eb0783 | p17@GNAL |
| 4.84e-63 | FFCP PHASE1:Hg19::chr18:11751516..11751523,+#_577ddce323f3b49179e21c2952eb0783 | p17@GNAL |
| 1.48e-62 | FFCP PHASE2:Hg19::chr10:116887377..116887393,+#_c113da4d5b01599b1505cf478d85f65d | p@chr10:116887377..116887393, + |
| 1.48e-62 | FFCP PHASE1:Hg19::chr10:116887377..116887393,+#_c113da4d5b01599b1505cf478d85f65d | p@chr10:116887377..116887393, + |
| 6.03e-60 | FFCP PHASE1:Hg19::chr3:12225071..12225084,+#_73abb8280c98a6a72ccea9077837044a | p15@SYN2 |
| 6.03e-60 | FFCP PHASE2:Hg19::chr3:12225071..12225084,+#_73abb8280c98a6a72ccea9077837044a | p15@SYN2 |
| 2.01e-59 | FFCP PHASE2:Hg19::chr20:9494967..9494972,+#_1355779b98a72b556eaf073772761d37 | p16@LAMP5 |
| 2.01e-59 | FFCP PHASE1:Hg19::chr15:40582949..40582989,+#_1355779b98a72b556eaf073772761d37 | p@chr15:40582949..40582989, + |
| 2.01e-59 | FFCP PHASE1:Hg19::chr20:9494967..9494972,+#_1355779b98a72b556eaf073772761d37 | p16@LAMP5 |
| 2.01e-59 | FFCP PHASE2:Hg19::chr15:40582949..40582989,+#_1355779b98a72b556eaf073772761d37 | p@chr15:40582949..40582989, + |
| 3.0e-59 | FFCP PHASE2:Hg19::chr5:119669146..119669157,-#_7fd784d7470bb5f340b6446d311a26aa | p2@ENST00000514240 |
| 3.0e-59 | FFCP PHASE1:Hg19::chr5:119669146..119669157,-#_7fd784d7470bb5f340b6446d311a26aa | p2@ENST00000514240 |
| 3.0e-59 | FFCP PHASE1:Hg19::chr10:106423509..106423521,+#_7fd784d7470bb5f340b6446d311a26aa | p@chr10:106423509..106423521, + |
| 3.0e-59 | FFCP PHASE2:Hg19::chr10:106423509..106423521,+#_7fd784d7470bb5f340b6446d311a26aa | p@chr10:106423509..106423521, + |
| 6.46e-58 | FFCP PHASE2:Hg19::chr6:33409535..33409539,+#_e6735f7e9f878500d46f53d8d8518ca5 | p@chr6:33409535..33409539, + |
| 6.46e-58 | FFCP PHASE1:Hg19::chr6:33409535..33409539,+#_e6735f7e9f878500d46f53d8d8518ca5 | p@chr6:33409535..33409539, + |
| 4.31e-57 | FFCP PHASE1:Hg19::chr11:84844026..84844031,-#_0224047a1641ddd6b308c01fdc01833c | p42@DLG2 |
| 4.31e-57 | FFCP PHASE2:Hg19::chr11:84844026..84844031,-#_0224047a1641ddd6b308c01fdc01833c | p42@DLG2 |
| 5.13e-56 | FFCP PHASE2:Hg19::chr8:89554843..89554848,+#_a01683d241ed68a31c77ee726fd7e049 | p2@ENST00000518631 |
| 5.13e-56 | FFCP PHASE1:Hg19::chr8:89554843..89554848,+#_a01683d241ed68a31c77ee726fd7e049 | p2@ENST00000518631 |
| 1.01e-55 | FFCP PHASE1:Hg19::chr15:27112472..27112483,+#_c5556447247bb43505e53e262dcbe0dd | p10@GABRA5 |
| 1.01e-55 | FFCP PHASE2:Hg19::chr15:27112472..27112483,+#_c5556447247bb43505e53e262dcbe0dd | p10@GABRA5 |
| 5.05e-54 | FFCP PHASE1:Hg19::chr3:17784228..17784233,-#_d4a214daf9e613755cfad176e7e4dee7 | p9@TBC1D5 |
| 5.05e-54 | FFCP PHASE2:Hg19::chr3:17784228..17784233,-#_d4a214daf9e613755cfad176e7e4dee7 | p9@TBC1D5 |
| 1.58e-53 | FFCP PHASE1:Hg19::chr12:120159202..120159216,-#_6fb5bb6bba52aa3fa07b617f01c80c53 | p@chr12:120159202..120159216, - |
| 1.58e-53 | FFCP PHASE2:Hg19::chr12:120159202..120159216,-#_6fb5bb6bba52aa3fa07b617f01c80c53 | p@chr12:120159202..120159216, - |
| 2.19e-53 | FFCP PHASE2:Hg19::chr9:34502907..34502912,-#_008c446864869d37a166b30598556e55 | p@chr9:34502907..34502912, - |
| 2.19e-53 | FFCP PHASE1:Hg19::chr9:34502907..34502912,-#_008c446864869d37a166b30598556e55 | p@chr9:34502907..34502912, - |
| 3.09e-53 | FFCP PHASE1:Hg19::chr16:19183671..19183690,+#_cc9f2d2f4d0ede237b2b75cd26f3d168 | p5@SYT17 |
| 3.09e-53 | FFCP PHASE2:Hg19::chr16:19183671..19183690,+#_cc9f2d2f4d0ede237b2b75cd26f3d168 | p5@SYT17 |
| 3.74e-53 | FFCP PHASE1:Hg19::chr6:1035766..1035777,+#_4ba248df8765603937d95cf198079364 | p@chr6:1035766..1035777, + |
| 3.74e-53 | FFCP PHASE2:Hg19::chr6:1035766..1035777,+#_4ba248df8765603937d95cf198079364 | p@chr6:1035766..1035777, + |
| 3.74e-53 | FFCP PHASE1:Hg19::chr21:27650975..27651019,-#_4ba248df8765603937d95cf198079364 | p@chr21:27650975..27651019, - |
| 3.74e-53 | FFCP PHASE1:Hg19::chr16:49697056..49697066,-#_4ba248df8765603937d95cf198079364 | p@chr16:49697056..49697066, - |
| 3.74e-53 | FFCP PHASE2:Hg19::chr16:49697056..49697066,-#_4ba248df8765603937d95cf198079364 | p@chr16:49697056..49697066, - |
| 3.74e-53 | FFCP PHASE2:Hg19::chr21:27650975..27651019,-#_4ba248df8765603937d95cf198079364 | p@chr21:27650975..27651019, - |
| 4.26e-53 | FFCP PHASE2:Hg19::chr4:46391095..46391114,-#_012a74640d0a4e5e5e312e4bf88c652c | p14@GABRA2 |
| 4.26e-53 | FFCP PHASE1:Hg19::chr4:46391095..46391114,-#_012a74640d0a4e5e5e312e4bf88c652c | p14@GABRA2 |
| 7.27e-53 | FFCP PHASE1:Hg19::chr6:95445637..95445675,-#_336bdac614df9aa672ac19b19ce9e5a2 | p@chr6:95445637..95445675, - |
| 7.27e-53 | FFCP PHASE2:Hg19::chr6:95445637..95445675,-#_336bdac614df9aa672ac19b19ce9e5a2 | p@chr6:95445637..95445675, - |
| 1.04e-52 | FFCP PHASE1:Hg19::chrX:63029135..63029150,-#_2342a5cdcf5486d5125181780c466a01 | p@chrX:63029135..63029150, - |
| 1.04e-52 | FFCP PHASE2:Hg19::chrX:63029135..63029150,-#_2342a5cdcf5486d5125181780c466a01 | p@chrX:63029135..63029150, - |
| 1.38e-52 | FFCP PHASE2:Hg19::chr6:90272488..90272510,+#_00d9b0f23694a4a08e9a8db7ad0ba69d | p7@ANKRD6 |
| 1.38e-52 | FFCP PHASE1:Hg19::chr6:90272488..90272510,+#_00d9b0f23694a4a08e9a8db7ad0ba69d | p7@ANKRD6 |
| 1.15e-51 | FFCP PHASE2:Hg19::chr1:20813796..20813807,-#_9efd3543e364c34f51d92d5513c5b7f5 | p@chr1:20813796..20813807, - |
| 1.15e-51 | FFCP PHASE1:Hg19::chr1:20813796..20813807,-#_9efd3543e364c34f51d92d5513c5b7f5 | p@chr1:20813796..20813807, - |
| 1.63e-51 | FFCP PHASE1:Hg19::chr19:49932793..49932820,-#_07063c7e0c20dfb02757e20d5d86c383 | p@chr19:49932793..49932820, - |
| 1.63e-51 | FFCP PHASE2:Hg19::chr19:49932793..49932820,-#_07063c7e0c20dfb02757e20d5d86c383 | p@chr19:49932793..49932820, - |
| 2.3e-51 | FFCP PHASE1:Hg19::chrX:13789306..13789315,-#_f8a3ec84c08a3d1035e9cc90880d2365 | p@chrX:13789306..13789315, - |
| 2.3e-51 | FFCP PHASE2:Hg19::chrX:13789306..13789315,-#_f8a3ec84c08a3d1035e9cc90880d2365 | p@chrX:13789306..13789315, - |
| 2.73e-51 | FFCP PHASE1:Hg19::chr11:123525648..123525658,-#_07fc600f8b65b37d79af28ac77380055 | p19@SCN3B |
| 2.73e-51 | FFCP PHASE2:Hg19::chr11:123525648..123525658,-#_07fc600f8b65b37d79af28ac77380055 | p19@SCN3B |
| 3.24e-51 | FFCP PHASE2:Hg19::chr7:29845734..29845742,+#_162566dbc87d8aad68976b73be84d1e8 | p16@WIPF3 |
| 3.24e-51 | FFCP PHASE1:Hg19::chr15:87121973..87122016,+#_162566dbc87d8aad68976b73be84d1e8 | p@chr15:87121973..87122016, + |
| 3.24e-51 | FFCP PHASE2:Hg19::chr15:87121973..87122016,+#_162566dbc87d8aad68976b73be84d1e8 | p@chr15:87121973..87122016, + |
| 3.24e-51 | FFCP PHASE1:Hg19::chr7:29845734..29845742,+#_162566dbc87d8aad68976b73be84d1e8 | p16@WIPF3 |
| 9.81e-51 | FFCP PHASE2:Hg19::chr15:80695996..80696014,+#_68602b9d5f76850421e30d74b105f63f | p@chr15:80695996..80696014, + |
| 9.81e-51 | FFCP PHASE1:Hg19::chr15:80695996..80696014,+#_68602b9d5f76850421e30d74b105f63f | p@chr15:80695996..80696014, + |
| 1.33e-50 | FFCP PHASE2:Hg19::chr9:13165461..13165485,-#_2ff5594a69f7e11ca544ba2ddf1dbd6e | p13@MPDZ |
| 1.33e-50 | FFCP PHASE2:Hg19::chr2:11810299..11810302,-#_2ff5594a69f7e11ca544ba2ddf1dbd6e | p6@NTSR2 |
| 1.33e-50 | FFCP PHASE1:Hg19::chr9:13165461..13165485,-#_2ff5594a69f7e11ca544ba2ddf1dbd6e | p13@MPDZ |
| 1.33e-50 | FFCP PHASE1:Hg19::chr2:11810299..11810302,-#_2ff5594a69f7e11ca544ba2ddf1dbd6e | p6@NTSR2 |
| 1.63e-50 | FFCP PHASE2:Hg19::chr10:126694575..126694592,-#_cf67ec4169ad67d684418c572d731007 | p16@CTBP2 |
| 1.63e-50 | FFCP PHASE1:Hg19::chr10:126694575..126694592,-#_cf67ec4169ad67d684418c572d731007 | p16@CTBP2 |
| 3.0e-50 | FFCP PHASE2:Hg19::chr17:1028906..1028930,-#_e70a131b77f34aea94ebb0c536b89e48 | p20@ABR |
| 3.0e-50 | FFCP PHASE1:Hg19::chr17:1028906..1028930,-#_e70a131b77f34aea94ebb0c536b89e48 | p20@ABR |
| 4.99e-50 | FFCP PHASE2:Hg19::chr15:26147599..26147637,+#_164b6e56c98587ae3bc7481e5634989b | p1@ENST00000557171 |
| 4.99e-50 | FFCP PHASE1:Hg19::chr15:26147599..26147637,+#_164b6e56c98587ae3bc7481e5634989b | p1@ENST00000557171 |
| 3.64e-49 | FFCP PHASE1:Hg19::chr8:89554909..89554920,+#_25264f261076d915a4b1288117a53296 | p3@ENST00000518631 |
| 3.64e-49 | FFCP PHASE2:Hg19::chr8:89554909..89554920,+#_25264f261076d915a4b1288117a53296 | p3@ENST00000518631 |
| 4.32e-48 | FFCP PHASE2:Hg19::chr7:94843579..94843594,-#_54e84b5e1be526aaea838497c8e6e9c2 | p2@ENST00000417881 |
| 4.32e-48 | FFCP PHASE1:Hg19::chr7:94843579..94843594,-#_54e84b5e1be526aaea838497c8e6e9c2 | p2@ENST00000417881 |
| 7.72e-48 | FFCP PHASE2:Hg19::chr12:49393231..49393242,-#_d13d3f7affa07e9a172eb37a4963318e | p3@DDN |
| 7.72e-48 | FFCP PHASE1:Hg19::chr12:49393231..49393242,-#_d13d3f7affa07e9a172eb37a4963318e | p3@DDN |
| 3.27e-47 | FFCP PHASE1:Hg19::chr19:49941642..49941657,-#_d4ffc6c4ad1c163df317a6aa7f1c8c83 | p6@SLC17A7 |
| 3.27e-47 | FFCP PHASE2:Hg19::chr19:49941642..49941657,-#_d4ffc6c4ad1c163df317a6aa7f1c8c83 | p6@SLC17A7 |
| 1.98e-46 | FFCP PHASE2:Hg19::chr5:22754587..22754623,+#_655e208f27e377b5757f043a8603cb2f | p@chr5:22754587..22754623, + |
| 1.98e-46 | FFCP PHASE1:Hg19::chr5:22754587..22754623,+#_655e208f27e377b5757f043a8603cb2f | p@chr5:22754587..22754623, + |
