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{{UBERON
{{UBERON
|id=UBERON:0001876
|alt_id=UBERON:FMA_61841-MA_0000887-MIAA_0000289
|name=amygdala
|anatomical_img_id=FMA:61841
|namespace=
|def="Subdivision of basal ganglion of telencephalon which is an almond-shaped gray mass in the dorsomedial part of the temporal lobe[FMA]" [FMA:61841, Wikipedia:Amygdala]
|xref=BM:Tel-Am;;BTO:0001042;;EFO:0000252;;EV:0100189;;EV:0100190;;FMA:61841;;GAID:616;;http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Amyg.png/200px-Amyg.png;;MA:0000887;;MAT:0000289;;MESH:A.08.186.211.577.090;;MIAA:0000289;;ncithesaurus:Amygdala;;NIF_GrossAnatomy:birnlex_1241;;OpenCyc:Mx4rwJC_2ZwpEbGdrcN5Y29ycA;;VHOG:0001277
|is_a=UBERON:0002420
|synonym="amygdaloid area" RELATED [];;"amygdaloid body" EXACT [];;"amygdaloid complex" EXACT [NIF_GrossAnatomy:birnlex_1241];;"amygdaloid nuclear complex" EXACT [];;"amygdaloid nuclear group" RELATED [BTO:0001042];;"amygdaloid nuclear groups" EXACT [];;"archistriatum" EXACT [];;"corpus amygdaloideum" RELATED [BTO:0001042];;"nucleus amygdalae" RELATED [BTO:0001042]
|comment=AO notes: MA and FMA differ on relationship to basal ganglion. The FMA text def suggests a subdivision, but it is classified as a subtype
|comment=AO notes: MA and FMA differ on relationship to basal ganglion. The FMA text def suggests a subdivision, but it is classified as a subtype
|alt_id=UBERON:FMA_61841-MA_0000887-MIAA_0000289
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="Subdivision of basal ganglion of telencephalon which is an almond-shaped gray mass in the dorsomedial part of the temporal lobe[FMA]" [FMA:61841, Wikipedia:Amygdala]
|subset=uberon_slim
|adjacent_to=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0001876
|is_a=UBERON:0002420 ;;UBERON:0016538
|is_obsolete=
|located_in=
|located_in=
|name=amygdala
|namespace=FANTOM
|obo_creation_date=
|part_of=UBERON:0000349;;UBERON:0001869;;UBERON:0001871
|part_of=UBERON:0000349;;UBERON:0001869;;UBERON:0001871
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|is_obsolete=
|subset=uberon_slim
|preceded_by=
|synonym="amygdaloid area" RELATED [];;"amygdaloid body" EXACT [];;"amygdaloid complex" EXACT [NIF_GrossAnatomy:birnlex_1241];;"amygdaloid nuclear complex" EXACT [];;"amygdaloid nuclear group" RELATED [BTO:0001042];;"amygdaloid nuclear groups" EXACT [];;"archistriatum" EXACT [];;"corpus amygdaloideum" RELATED [BTO:0001042];;"corpus amygdaloideum" RELATED LATIN [Wikipedia:Amygdala];;"nucleus amygdalae" RELATED [BTO:0001042]
|union_of=
|xref=BM:Tel-Am;;BTO:0001042;;EFO:0000252;;EV:0100189;;EV:0100190;;FMA:61841;;GAID:616;;http://upload.wikimedia.org/wikipedia/commons/8/8b/Amyg.png;;http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Amyg.png/200px-Amyg.png;;MA:0000887;;MAT:0000289;;MESH:A.08.186.211.577.090;;MIAA:0000289;;ncithesaurus:Amygdala;;NIF_GrossAnatomy:birnlex_1241;;OpenCyc:Mx4rwJC_2ZwpEbGdrcN5Y29ycA;;VHOG:0001277
}}
}}

Latest revision as of 17:22, 12 September 2014

Name:amygdala
Namespace:FANTOM
Definition:"Subdivision of basal ganglion of telencephalon which is an almond-shaped gray mass in the dorsomedial part of the temporal lobe[FMA]" [FMA:61841, Wikipedia:Amygdala]
Xrefs:
links:

BM:Tel-Am
BTO:0001042
EFO:0000252
EV:0100189
EV:0100190
FMA:61841
GAID:616
[ Amyg.png Amyg.png]
[ 200px-Amyg.png 200px-Amyg.png]
MA:0000887
MAT:0000289
MESH:A.08.186.211.577.090
MIAA:0000289
ncithesaurus:Amygdala
NIF_GrossAnatomy:birnlex_1241
OpenCyc:Mx4rwJC_2ZwpEbGdrcN5Y29ycA

VHOG:0001277
Synonyms: "amygdaloid area" RELATED []
"amygdaloid body" EXACT []
"amygdaloid complex" EXACT [NIF_GrossAnatomy:birnlex_1241]
"amygdaloid nuclear complex" EXACT []
"amygdaloid nuclear group" RELATED [BTO:0001042]
"amygdaloid nuclear groups" EXACT []
"archistriatum" EXACT []
"corpus amygdaloideum" RELATED [BTO:0001042]
"corpus amygdaloideum" RELATED LATIN [Wikipedia:Amygdala]
"nucleus amygdalae" RELATED [BTO:0001042]
Comments:AO notes: MA and FMA differ on relationship to basal ganglion. The FMA text def suggests a subdivision, but it is classified as a subtype
Alt_id: UBERON:FMA_61841-MA_0000887-MIAA_0000289
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:0002420(basal ganglion),UBERON:0016538(cortex of temporal lobe)
part_of:UBERON:0000349(limbic system),UBERON:0001869(cerebral hemisphere),UBERON:0001871(temporal lobe)



Children

is a:FF:10360-105E9 (amygdala, newborn, donor10223)
derives from:FF:0010151 (human amygdala - adult donor sample)

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)


Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0001876 (amygdala), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
4.61e-131FFCP PHASE1:Hg19::chr9:34502907..34502912,-#_06d43d3a78b82e1d2bf4b25e4802638ap@chr9:34502907..34502912, -
4.61e-131FFCP PHASE2:Hg19::chr8:54745692..54745698,-#_06d43d3a78b82e1d2bf4b25e4802638ap11@ATP6V1H
4.61e-131FFCP PHASE1:Hg19::chr8:54745692..54745698,-#_06d43d3a78b82e1d2bf4b25e4802638ap11@ATP6V1H
4.61e-131FFCP PHASE2:Hg19::chr9:34502907..34502912,-#_06d43d3a78b82e1d2bf4b25e4802638ap@chr9:34502907..34502912, -
1.75e-130FFCP PHASE2:Hg19::chr6:1035766..1035777,+#_fd548d3fe537643d37b58265af453cd9p@chr6:1035766..1035777, +
1.75e-130FFCP PHASE1:Hg19::chr6:1035766..1035777,+#_fd548d3fe537643d37b58265af453cd9p@chr6:1035766..1035777, +
1.56e-79FFCP PHASE2:Hg19::chr4:118735142..118735153,-#_e08f2b1e799c2db1f81135b800d33d91p@chr4:118735142..118735153, -
1.56e-79FFCP PHASE1:Hg19::chr4:118735142..118735153,-#_e08f2b1e799c2db1f81135b800d33d91p@chr4:118735142..118735153, -
2.34e-79FFCP PHASE2:Hg19::chr11:74047383..74047406,-#_19c691dab406fd324c5364db67158b16p@chr11:74047383..74047406, -
2.34e-79FFCP PHASE1:Hg19::chr11:74047383..74047406,-#_19c691dab406fd324c5364db67158b16p@chr11:74047383..74047406, -
1.16e-78FFCP PHASE1:Hg19::chr3:132976005..132976010,-#_2f4d9aaad96441df33b1c87896573bd2p2@ENST00000505721
1.16e-78FFCP PHASE2:Hg19::chr3:132976005..132976010,-#_2f4d9aaad96441df33b1c87896573bd2p2@ENST00000505721
2.84e-66FFCP PHASE1:Hg19::chr12:81992190..81992193,-#_e771b4986817677721234a8c1514080dp20@PPFIA2
2.84e-66FFCP PHASE2:Hg19::chr12:81992190..81992193,-#_e771b4986817677721234a8c1514080dp20@PPFIA2
2.84e-66FFCP PHASE1:Hg19::chr15:40582949..40582989,+#_e771b4986817677721234a8c1514080dp@chr15:40582949..40582989, +
2.84e-66FFCP PHASE2:Hg19::chr15:40582949..40582989,+#_e771b4986817677721234a8c1514080dp@chr15:40582949..40582989, +
5.53e-66FFCP PHASE2:Hg19::chr10:106423509..106423521,+#_36446c2fbf7502c8f90c76b7c0392f31p@chr10:106423509..106423521, +
5.53e-66FFCP PHASE1:Hg19::chr10:106423509..106423521,+#_36446c2fbf7502c8f90c76b7c0392f31p@chr10:106423509..106423521, +
1.13e-57FFCP PHASE2:Hg19::chr1:20813796..20813807,-#_0375e5bc0dfbf040666b41d29a7dfdc8p@chr1:20813796..20813807, -
1.13e-57FFCP PHASE1:Hg19::chr1:20813796..20813807,-#_0375e5bc0dfbf040666b41d29a7dfdc8p@chr1:20813796..20813807, -
6.36e-57FFCP PHASE2:Hg19::chr17:49500350..49500395,+#_317b30fa0fc63b1741c6aa5363290220p@chr17:49500350..49500395, +
6.36e-57FFCP PHASE1:Hg19::chr17:49500350..49500395,+#_317b30fa0fc63b1741c6aa5363290220p@chr17:49500350..49500395, +
1.13e-56FFCP PHASE1:Hg19::chr16:61719084..61719087,-#_ae288ac728861114bac4ba999f56d1bep@chr16:61719084..61719087, -
1.13e-56FFCP PHASE2:Hg19::chr16:61719084..61719087,-#_ae288ac728861114bac4ba999f56d1bep@chr16:61719084..61719087, -
8.82e-51FFCP PHASE2:Hg19::chr1:62439037..62439047,+#_86c6804d31a5e724be02ca8d4185cc74p13@INADL
8.82e-51FFCP PHASE1:Hg19::chr1:62439037..62439047,+#_86c6804d31a5e724be02ca8d4185cc74p13@INADL
8.82e-51FFCP PHASE2:Hg19::chr13:101712292..101712306,-#_86c6804d31a5e724be02ca8d4185cc74p@chr13:101712292..101712306, -
8.82e-51FFCP PHASE1:Hg19::chr13:101712292..101712306,-#_86c6804d31a5e724be02ca8d4185cc74p@chr13:101712292..101712306, -
8.82e-51FFCP PHASE2:Hg19::chr8:117658838..117658848,-#_86c6804d31a5e724be02ca8d4185cc74p@chr8:117658838..117658848, -
8.82e-51FFCP PHASE1:Hg19::chr8:117658838..117658848,-#_86c6804d31a5e724be02ca8d4185cc74p@chr8:117658838..117658848, -
1.14e-50FFCP PHASE2:Hg19::chr8:132052458..132052469,-#_861bbde162451cf5b884392749825520p4@ADCY8
1.14e-50FFCP PHASE1:Hg19::chr8:132052458..132052469,-#_861bbde162451cf5b884392749825520p4@ADCY8
2.42e-50FFCP PHASE2:Hg19::chr4:46391569..46391580,-#_6d68f5ef5f4e690be238abc8715c9290p17@GABRA2
2.42e-50FFCP PHASE1:Hg19::chr4:46391569..46391580,-#_6d68f5ef5f4e690be238abc8715c9290p17@GABRA2
2.74e-50FFCP PHASE1:Hg19::chr4:46247082..46247090,-#_efb2331a83b9eab944fa20d91e2bc566p@chr4:46247082..46247090, -
2.74e-50FFCP PHASE1:Hg19::chr16:5945370..5945377,+#_efb2331a83b9eab944fa20d91e2bc566p@chr16:5945370..5945377, +
2.74e-50FFCP PHASE1:Hg19::chr11:63486158..63486182,+#_efb2331a83b9eab944fa20d91e2bc566p@chr11:63486158..63486182, +
2.74e-50FFCP PHASE2:Hg19::chr11:63486158..63486182,+#_efb2331a83b9eab944fa20d91e2bc566p@chr11:63486158..63486182, +
2.74e-50FFCP PHASE2:Hg19::chr16:5945370..5945377,+#_efb2331a83b9eab944fa20d91e2bc566p@chr16:5945370..5945377, +
2.74e-50FFCP PHASE2:Hg19::chr4:46247082..46247090,-#_efb2331a83b9eab944fa20d91e2bc566p@chr4:46247082..46247090, -
4.0e-50FFCP PHASE1:Hg19::chr12:133195356..133195367,+#_c3d8492818b0e69d9ccd08682c46e520p3@P2RX2
4.0e-50FFCP PHASE2:Hg19::chr12:133195356..133195367,+#_c3d8492818b0e69d9ccd08682c46e520p3@P2RX2
4.52e-50FFCP PHASE2:Hg19::chr5:161530948..161530957,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr5:161530948..161530957, +
4.52e-50FFCP PHASE1:Hg19::chr4:160189108..160189117,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p44@RAPGEF2
4.52e-50FFCP PHASE1:Hg19::chr7:44282202..44282211,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p22@CAMK2B
4.52e-50FFCP PHASE1:Hg19::chr5:161530948..161530957,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr5:161530948..161530957, +
4.52e-50FFCP PHASE2:Hg19::chr20:55841819..55841842,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p2@ENST00000412321, p2@uc010gir.1
4.52e-50FFCP PHASE1:Hg19::chr20:55841819..55841842,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p2@ENST00000412321, p2@uc010gir.1
4.52e-50FFCP PHASE2:Hg19::chr20:23357397..23357407,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr20:23357397..23357407, -
4.52e-50FFCP PHASE2:Hg19::chr6:132723206..132723217,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr6:132723206..132723217, -
4.52e-50FFCP PHASE1:Hg19::chr20:23357397..23357407,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr20:23357397..23357407, -
4.52e-50FFCP PHASE2:Hg19::chr1:181361950..181361956,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr1:181361950..181361956, +
4.52e-50FFCP PHASE2:Hg19::chr4:160189108..160189117,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p44@RAPGEF2
4.52e-50FFCP PHASE1:Hg19::chr1:181361950..181361956,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr1:181361950..181361956, +
4.52e-50FFCP PHASE1:Hg19::chr16:24372933..24372944,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr16:24372933..24372944, +
4.52e-50FFCP PHASE1:Hg19::chr6:132723206..132723217,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr6:132723206..132723217, -
4.52e-50FFCP PHASE2:Hg19::chr16:24372933..24372944,+#_af81371bc9b9b6fe0d284a5cc1edb4f8p@chr16:24372933..24372944, +
4.52e-50FFCP PHASE2:Hg19::chr7:44282202..44282211,-#_af81371bc9b9b6fe0d284a5cc1edb4f8p22@CAMK2B
5.15e-50FFCP PHASE1:Hg19::chr18:11751466..11751475,+#_1c1af045b3a57264afcea3c833396e6ep22@GNAL
5.15e-50FFCP PHASE2:Hg19::chr18:11751466..11751475,+#_1c1af045b3a57264afcea3c833396e6ep22@GNAL
2.04e-45FFCP PHASE2:Hg19::chr9:95569585..95569596,+#_7a19662e7712915c30dc9ae9ae836bf9p@chr9:95569585..95569596, +
2.04e-45FFCP PHASE1:Hg19::chr9:95569585..95569596,+#_7a19662e7712915c30dc9ae9ae836bf9p@chr9:95569585..95569596, +
3.19e-45FFCP PHASE2:Hg19::chrX:21666936..21666940,+#_a396ba09af8d7717d5580346449f1eacp@chrX:21666936..21666940, +
3.19e-45FFCP PHASE1:Hg19::chrX:21666936..21666940,+#_a396ba09af8d7717d5580346449f1eacp@chrX:21666936..21666940, +
4.0e-45FFCP PHASE2:Hg19::chr7:107302142..107302149,-#_2f93722ad4d1379f6528887a9e54f2c6p3@ENST00000440512
4.0e-45FFCP PHASE1:Hg19::chr7:107302142..107302149,-#_2f93722ad4d1379f6528887a9e54f2c6p3@ENST00000440512
5.0e-45FFCP PHASE2:Hg19::chr5:63258078..63258088,-#_e670e6938faaffdaa354398879fc8719p6@HTR1A
5.0e-45FFCP PHASE2:Hg19::chr11:64411144..64411154,-#_e670e6938faaffdaa354398879fc8719p14@NRXN2
5.0e-45FFCP PHASE1:Hg19::chr5:63258078..63258088,-#_e670e6938faaffdaa354398879fc8719p6@HTR1A
5.0e-45FFCP PHASE1:Hg19::chr11:64411144..64411154,-#_e670e6938faaffdaa354398879fc8719p14@NRXN2
7.83e-45FFCP PHASE2:Hg19::chrX:139795975..139795980,+#_89d98893dc6eb6f70bb3087891394c2fp@chrX:139795975..139795980, +
7.83e-45FFCP PHASE2:Hg19::chr2:173724876..173724893,+#_89d98893dc6eb6f70bb3087891394c2fp16@RAPGEF4
7.83e-45FFCP PHASE1:Hg19::chr2:173724876..173724893,+#_89d98893dc6eb6f70bb3087891394c2fp16@RAPGEF4
7.83e-45FFCP PHASE1:Hg19::chrX:139795975..139795980,+#_89d98893dc6eb6f70bb3087891394c2fp@chrX:139795975..139795980, +
1.53e-44FFCP PHASE1:Hg19::chr22:42393379..42393386,+#_356b4b406afde948fbcbfc67a4e28109p@chr22:42393379..42393386, +
1.53e-44FFCP PHASE1:Hg19::chr8:102701504..102701522,-#_356b4b406afde948fbcbfc67a4e28109p@chr8:102701504..102701522, -
1.53e-44FFCP PHASE2:Hg19::chr22:42393379..42393386,+#_356b4b406afde948fbcbfc67a4e28109p@chr22:42393379..42393386, +
1.53e-44FFCP PHASE2:Hg19::chr8:102701504..102701522,-#_356b4b406afde948fbcbfc67a4e28109p@chr8:102701504..102701522, -
1.91e-44FFCP PHASE2:Hg19::chrX:152587216..152587232,-#_8de960619b14f7974f57c8ae9621b946p@chrX:152587216..152587232, -
1.91e-44FFCP PHASE1:Hg19::chr9:87425922..87425930,+#_8de960619b14f7974f57c8ae9621b946p47@NTRK2
1.91e-44FFCP PHASE1:Hg19::chrX:152587216..152587232,-#_8de960619b14f7974f57c8ae9621b946p@chrX:152587216..152587232, -
1.91e-44FFCP PHASE2:Hg19::chr9:87425922..87425930,+#_8de960619b14f7974f57c8ae9621b946p47@NTRK2
3.99e-41FFCP PHASE1:Hg19::chr19:51164823..51164832,-#_070ea400a67140d79e16555af4b8f913p@chr19:51164823..51164832, -
3.99e-41FFCP PHASE1:Hg19::chr11:99941186..99941205,+#_070ea400a67140d79e16555af4b8f913p5@CNTN5
3.99e-41FFCP PHASE2:Hg19::chr19:51164823..51164832,-#_070ea400a67140d79e16555af4b8f913p@chr19:51164823..51164832, -
3.99e-41FFCP PHASE2:Hg19::chr11:99941186..99941205,+#_070ea400a67140d79e16555af4b8f913p5@CNTN5
4.89e-41FFCP PHASE1:Hg19::chr3:113023157..113023168,-#_5c907bc368d1d889b1e2bc49d3dfe343p4@WDR52
4.89e-41FFCP PHASE2:Hg19::chr3:113023157..113023168,-#_5c907bc368d1d889b1e2bc49d3dfe343p4@WDR52
5.99e-41FFCP PHASE1:Hg19::chr2:242815160..242815176,+#_9a751438967fe08b65039e3d8f00fc3bp@chr2:242815160..242815176, +
5.99e-41FFCP PHASE2:Hg19::chr2:242815160..242815176,+#_9a751438967fe08b65039e3d8f00fc3bp@chr2:242815160..242815176, +
8.98e-41FFCP PHASE2:Hg19::chr4:152403542..152403579,+#_32c0c826e3888583f3ed855349957db7p6@FAM160A1
8.98e-41FFCP PHASE1:Hg19::chr4:152403542..152403579,+#_32c0c826e3888583f3ed855349957db7p6@FAM160A1
1.34e-40FFCP PHASE2:Hg19::chr11:35281815..35281828,-#_9e2f525b55847c217f828f86f0cd9ac9p@chr11:35281815..35281828, -
1.34e-40FFCP PHASE1:Hg19::chr11:35281815..35281828,-#_9e2f525b55847c217f828f86f0cd9ac9p@chr11:35281815..35281828, -
2.01e-40FFCP PHASE1:Hg19::chr12:71314547..71314562,-#_e884c5e658f046c53fd9a69d88c20db4p8@PTPRR
2.01e-40FFCP PHASE2:Hg19::chr12:71314547..71314562,-#_e884c5e658f046c53fd9a69d88c20db4p8@PTPRR
3.01e-40FFCP PHASE2:Hg19::chr18:11751516..11751523,+#_6a53463225d6db855902a4dcb97d5da1p17@GNAL
3.01e-40FFCP PHASE1:Hg19::chr18:11751516..11751523,+#_6a53463225d6db855902a4dcb97d5da1p17@GNAL
5.49e-40FFCP PHASE1:Hg19::chr10:116887377..116887393,+#_c6bf8df3902fca35a38a96ab88aa85ccp@chr10:116887377..116887393, +
5.49e-40FFCP PHASE2:Hg19::chr10:116887377..116887393,+#_c6bf8df3902fca35a38a96ab88aa85ccp@chr10:116887377..116887393, +

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