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|namespace=
|namespace=
|def="A midline paired symmetrical structure within the brains of vertebrates, including humans. It is situated between the cerebral cortex and midbrain, both in terms of location and neurological connections. Its function includes relaying sensation, special sense and motor signals to the cerebral cortex, along with the regulation of consciousness, sleep and alertness. The thalamus surrounds the third ventricle. It is the main product of the embryonic diencephalon." [Wikipedia:Thalamus]
|def="A midline paired symmetrical structure within the brains of vertebrates, including humans. It is situated between the cerebral cortex and midbrain, both in terms of location and neurological connections. Its function includes relaying sensation, special sense and motor signals to the cerebral cortex, along with the regulation of consciousness, sleep and alertness. The thalamus surrounds the third ventricle. It is the main product of the embryonic diencephalon." [Wikipedia:Thalamus]
|xref=AAO:0010483;;ABA:TH;;BTO:0001365;;EFO:0000910;;EHDAA2:0004469;;EMAPA:17540;;EV:0100195;;FMA:62007;;GAID:656;;galen:Thalamus;;http://upload.wikimedia.org/wikipedia/commons/thumb/c/ce/Brain_chrischan_thalamus.jpg/200px-Brain_chrischan_thalamus.jpg;;MA:0000179;;MAT:0000109;;MESH:A.08.186.211.730.385.826;;MIAA:0000109;;ncithesaurus:Thalamus;;NIF_GrossAnatomy:birnlex_954;;OpenCyc:Mx4rwMPQ65wpEbGdrcN5Y29ycA;;SCTID:244433007;;TAO:0001215;;VHOG:0000657;;ZFA:0001215
|xref=AAO:0010483;;ABA:TH;;BTO:0001365;;EFO:0000910;;EMAPA:17540;;EV:0100195;;FMA:62007;;GAID:656;;galen:Thalamus;;http://upload.wikimedia.org/wikipedia/commons/c/ce/Brain_chrischan_thalamus.jpg;;http://upload.wikimedia.org/wikipedia/commons/thumb/c/ce/Brain_chrischan_thalamus.jpg/200px-Brain_chrischan_thalamus.jpg;;MA:0000179;;MAT:0000109;;MESH:A.08.186.211.730.385.826;;MIAA:0000109;;ncithesaurus:Thalamus;;NIF_GrossAnatomy:birnlex_954;;OpenCyc:Mx4rwMPQ65wpEbGdrcN5Y29ycA;;SCTID:244433007;;TAO:0001215;;VHOG:0000657;;ZFA:0001215
|is_a=UBERON:0000481;;UBERON:0004121
|is_a=UBERON:0002784
|synonym="dorsal thalamus" RELATED [FMA:62007];;"dorsal thalamus (anthoney)" EXACT [FMA:62007];;"thalamic complex" EXACT DEVELOPMENTAL [EHDAA2:0004469];;"thalamus dorsalis" RELATED [BTO:0001365]
|synonym="dorsal thalamus" RELATED [FMA:62007];;"dorsal thalamus (anthoney)" EXACT [FMA:62007];;"thalamus dorsalis" RELATED LATIN [Wikipedia:Thalamus];;"thalamus dorsalis" RELATED [BTO:0001365]
|comment=AO notes: MA and ZFA think there is a distinct dorsal thalamus, but FMA says its an exact synonym. FMA has a distinct class for thalamic complex.
|comment=AO notes: MA and ZFA think there is a distinct dorsal thalamus, but FMA says its an exact synonym. FMA has a distinct class for thalamic complex.
|alt_id=UBERON:FMA_62007-MA_0000179-MIAA_0000109-ZFA_0001215
|alt_id=UBERON:FMA_62007-MA_0000179-MIAA_0000109-ZFA_0001215
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|obo_creation_date=
|obo_creation_date=
|subset=uberon_slim;;vertebrate_core
|subset=uberon_slim;;vertebrate_core
|adjacent_to=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|has_quality=
|has_quality=
|located_in=
|located_in=
|part_of=UBERON:0001894
|part_of=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl;;"spatially_disjoint_from" UBERON:0001898;;UBPROP:0000001 "Part of the diencephalon consisting of a mass of connecting fibers which relay sensory information to the cerebral cortex.[AAO]" xsd:string
|is_obsolete=
|is_obsolete=
|preceded_by=
|preceded_by=
}}
}}

Revision as of 17:00, 26 June 2012

Name:thalamus
Definition:"A midline paired symmetrical structure within the brains of vertebrates, including humans. It is situated between the cerebral cortex and midbrain, both in terms of location and neurological connections. Its function includes relaying sensation, special sense and motor signals to the cerebral cortex, along with the regulation of consciousness, sleep and alertness. The thalamus surrounds the third ventricle. It is the main product of the embryonic diencephalon." [Wikipedia:Thalamus]
Xrefs:
links:

AAO:0010483
ABA:TH
BTO:0001365
EFO:0000910
EMAPA:17540
EV:0100195
FMA:62007
GAID:656
galen:Thalamus
[1]
[2]
MA:0000179
MAT:0000109
MESH:A.08.186.211.730.385.826
MIAA:0000109
ncithesaurus:Thalamus
NIF_GrossAnatomy:birnlex_954
OpenCyc:Mx4rwMPQ65wpEbGdrcN5Y29ycA
SCTID:244433007
TAO:0001215
VHOG:0000657

ZFA:0001215
Synonyms: "dorsal thalamus" RELATED [FMA:62007]
"dorsal thalamus (anthoney)" EXACT [FMA:62007]
"thalamus dorsalis" RELATED LATIN [Wikipedia:Thalamus]
"thalamus dorsalis" RELATED [BTO:0001365]
Comments:AO notes: MA and ZFA think there is a distinct dorsal thalamus, but FMA says its an exact synonym. FMA has a distinct class for thalamic complex.
Alt_id: UBERON:FMA_62007-MA_0000179-MIAA_0000109-ZFA_0001215
Subset: uberon_slim
vertebrate_core

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:0002784(regional part of diencephalon)



Children

is a:FF:10366-105F6 (thalamus, newborn, donor10223),FF:10370-105G1 (thalamus, adult, donor10258)
derives from:FF:0010154 (human thalamus - adult donor sample)
part of:UBERON:0001899 (epithalamus)

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:0001897 (thalamus), 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 PHASE2:Hg19::chr2:198530770..198530773,-#_567a74e018288d8684baf3757e5f3ce5p@chr2:198530770..198530773, -
4.61e-131FFCP PHASE1:Hg19::chr2:198530770..198530773,-#_567a74e018288d8684baf3757e5f3ce5p@chr2:198530770..198530773, -
1.55e-98FFCP PHASE2:Hg19::chrX:140890284..140890288,+#_13f95d81d65ad5d5990bab3e0389384ep@chrX:140890284..140890288, +
1.55e-98FFCP PHASE1:Hg19::chrX:140890284..140890288,+#_13f95d81d65ad5d5990bab3e0389384ep@chrX:140890284..140890288, +
1.05e-79FFCP PHASE1:Hg19::chr9:108129231..108129235,+#_4d5325952c82fe485cb04a5e15486013p@chr9:108129231..108129235, +
1.05e-79FFCP PHASE2:Hg19::chr9:108129231..108129235,+#_4d5325952c82fe485cb04a5e15486013p@chr9:108129231..108129235, +
1.45e-66FFCP PHASE2:Hg19::chr10:681520..681525,-#_a57cc756c6d8f8b09aa280295f0a6767p@chr10:681520..681525, -
1.45e-66FFCP PHASE1:Hg19::chr10:681520..681525,-#_a57cc756c6d8f8b09aa280295f0a6767p@chr10:681520..681525, -
5.53e-66FFCP PHASE2:Hg19::chr2:201599836..201599844,-#_eaf635fd29c2fd073d914ca4601347f5p3@LOC100507140
5.53e-66FFCP PHASE1:Hg19::chr2:201599836..201599844,-#_eaf635fd29c2fd073d914ca4601347f5p3@LOC100507140
1.13e-57FFCP PHASE1:Hg19::chr17:70890496..70890500,-#_5fdca351ac8b6a7493b17e6ef6a38c06p@chr17:70890496..70890500, -
1.13e-57FFCP PHASE2:Hg19::chr17:70890496..70890500,-#_5fdca351ac8b6a7493b17e6ef6a38c06p@chr17:70890496..70890500, -
1.51e-57FFCP PHASE2:Hg19::chr17:36605118..36605121,+#_ccad051a9d73981ec78810414c645a31p@chr17:36605118..36605121, +
1.51e-57FFCP PHASE1:Hg19::chr17:36605118..36605121,+#_ccad051a9d73981ec78810414c645a31p@chr17:36605118..36605121, +
4.77e-57FFCP PHASE2:Hg19::chr6:97520453..97520454,+#_88ad06a4e761491b84e6a80fc59374eap@chr6:97520453..97520454, +
4.77e-57FFCP PHASE1:Hg19::chr6:97520453..97520454,+#_88ad06a4e761491b84e6a80fc59374eap@chr6:97520453..97520454, +
6.36e-57FFCP PHASE2:Hg19::chr3:133487652..133487656,+#_ffe62bc7b862b5ee900240bd8c325616p@chr3:133487652..133487656, +
6.36e-57FFCP PHASE1:Hg19::chr3:133487652..133487656,+#_ffe62bc7b862b5ee900240bd8c325616p@chr3:133487652..133487656, +
6.36e-57FFCP PHASE2:Hg19::chr21:41300975..41300984,+#_ffe62bc7b862b5ee900240bd8c325616p@chr21:41300975..41300984, +
6.36e-57FFCP PHASE1:Hg19::chr21:41300975..41300984,+#_ffe62bc7b862b5ee900240bd8c325616p@chr21:41300975..41300984, +
8.82e-51FFCP PHASE2:Hg19::chr1:201476057..201476070,+#_99e3c7cf1409355323303c297d421cd2p4@ENST00000454651
8.82e-51FFCP PHASE1:Hg19::chr17:73865552..73865562,+#_99e3c7cf1409355323303c297d421cd2p@chr17:73865552..73865562, +
8.82e-51FFCP PHASE2:Hg19::chr17:73865552..73865562,+#_99e3c7cf1409355323303c297d421cd2p@chr17:73865552..73865562, +
8.82e-51FFCP PHASE1:Hg19::chr1:201476057..201476070,+#_99e3c7cf1409355323303c297d421cd2p4@ENST00000454651
1.88e-50FFCP PHASE2:Hg19::chr8:23127683..23127694,+#_ba19c25f4a65a96c446c81ac0d6a05bep8@R3HCC1
1.88e-50FFCP PHASE2:Hg19::chr6:134605007..134605011,-#_ba19c25f4a65a96c446c81ac0d6a05bep@chr6:134605007..134605011, -
1.88e-50FFCP PHASE1:Hg19::chr6:134605007..134605011,-#_ba19c25f4a65a96c446c81ac0d6a05bep@chr6:134605007..134605011, -
1.88e-50FFCP PHASE1:Hg19::chr8:23127683..23127694,+#_ba19c25f4a65a96c446c81ac0d6a05bep8@R3HCC1
2.74e-50FFCP PHASE2:Hg19::chr10:114886533..114886542,+#_179758f4c485a23f743100570227f85fp48@TCF7L2
2.74e-50FFCP PHASE1:Hg19::chr19:35788742..35788752,+#_179758f4c485a23f743100570227f85fp@chr19:35788742..35788752, +
2.74e-50FFCP PHASE2:Hg19::chr19:35788742..35788752,+#_179758f4c485a23f743100570227f85fp@chr19:35788742..35788752, +
2.74e-50FFCP PHASE1:Hg19::chr10:114886533..114886542,+#_179758f4c485a23f743100570227f85fp48@TCF7L2
4.0e-50FFCP PHASE2:Hg19::chr14:36367182..36367189,+#_a8f535089f21bb083b32da9e6d567c5dp5@ENST00000550089
4.0e-50FFCP PHASE1:Hg19::chr14:36367182..36367189,+#_a8f535089f21bb083b32da9e6d567c5dp5@ENST00000550089
4.52e-50FFCP PHASE1:Hg19::chr6:143858194..143858197,+#_fcf4307e83c2efa247ea14c29c922763p@chr6:143858194..143858197, +
4.52e-50FFCP PHASE2:Hg19::chr11:123502025..123502039,-#_fcf4307e83c2efa247ea14c29c922763p22@SCN3B
4.52e-50FFCP PHASE2:Hg19::chrX:1481635..1481645,-#_fcf4307e83c2efa247ea14c29c922763p@chrX:1481635..1481645, -
4.52e-50FFCP PHASE1:Hg19::chrX:134232704..134232705,-#_fcf4307e83c2efa247ea14c29c922763p4@LINC00087
4.52e-50FFCP PHASE2:Hg19::chr4:56229918..56229919,-#_fcf4307e83c2efa247ea14c29c922763p@chr4:56229918..56229919, -
4.52e-50FFCP PHASE1:Hg19::chr4:56229918..56229919,-#_fcf4307e83c2efa247ea14c29c922763p@chr4:56229918..56229919, -
4.52e-50FFCP PHASE2:Hg19::chr7:107883711..107883718,-#_fcf4307e83c2efa247ea14c29c922763p29@NRCAM
4.52e-50FFCP PHASE1:Hg19::chrX:1481635..1481645,-#_fcf4307e83c2efa247ea14c29c922763p@chrX:1481635..1481645, -
4.52e-50FFCP PHASE1:Hg19::chr11:123502025..123502039,-#_fcf4307e83c2efa247ea14c29c922763p22@SCN3B
4.52e-50FFCP PHASE1:Hg19::chr7:107883711..107883718,-#_fcf4307e83c2efa247ea14c29c922763p29@NRCAM
4.52e-50FFCP PHASE2:Hg19::chr3:155011771..155011808,-#_fcf4307e83c2efa247ea14c29c922763p1@ENST00000489090
4.52e-50FFCP PHASE2:Hg19::chrX:134232704..134232705,-#_fcf4307e83c2efa247ea14c29c922763p4@LINC00087
4.52e-50FFCP PHASE2:Hg19::chr6:143858194..143858197,+#_fcf4307e83c2efa247ea14c29c922763p@chr6:143858194..143858197, +
4.52e-50FFCP PHASE1:Hg19::chr3:155011771..155011808,-#_fcf4307e83c2efa247ea14c29c922763p1@ENST00000489090
8.5e-50FFCP PHASE2:Hg19::chr5:132111925..132111938,+#_ce1b05003bd77eecc48f00e2d34acc01p@chr5:132111925..132111938, +
8.5e-50FFCP PHASE1:Hg19::chr5:132111925..132111938,+#_ce1b05003bd77eecc48f00e2d34acc01p@chr5:132111925..132111938, +
1.09e-49FFCP PHASE2:Hg19::chr4:159175135..159175146,+#_f1145dac3b1bc551f23f36960e47dcccp@chr4:159175135..159175146, +
1.09e-49FFCP PHASE1:Hg19::chr4:159175135..159175146,+#_f1145dac3b1bc551f23f36960e47dcccp@chr4:159175135..159175146, +
1.09e-49FFCP PHASE1:Hg19::chr18:74692038..74692048,+#_f1145dac3b1bc551f23f36960e47dcccp@chr18:74692038..74692048, +
1.09e-49FFCP PHASE2:Hg19::chr18:74692038..74692048,+#_f1145dac3b1bc551f23f36960e47dcccp@chr18:74692038..74692048, +
2.55e-45FFCP PHASE2:Hg19::chr7:35756400..35756409,+#_38de04c46e046604c5a538549d0b7519p4@ENST00000458087, p4@uc003tew.1
2.55e-45FFCP PHASE1:Hg19::chr7:35756400..35756409,+#_38de04c46e046604c5a538549d0b7519p4@ENST00000458087, p4@uc003tew.1
4.0e-45FFCP PHASE2:Hg19::chr3:50306390..50306399,+#_0ac90d7e0dfbc267fd88978d65b247fcp8@SEMA3B
4.0e-45FFCP PHASE1:Hg19::chr3:50306390..50306399,+#_0ac90d7e0dfbc267fd88978d65b247fcp8@SEMA3B
5.0e-45FFCP PHASE2:Hg19::chr3:42687264..42687266,-#_a3d876b60f32a58235b3c957d67280d7p@chr3:42687264..42687266, -
5.0e-45FFCP PHASE1:Hg19::chr3:42687264..42687266,-#_a3d876b60f32a58235b3c957d67280d7p@chr3:42687264..42687266, -
6.26e-45FFCP PHASE1:Hg19::chr7:30198187..30198200,+#_a13a8808ce373064cfc47ee0e0032c26p@chr7:30198187..30198200, +
6.26e-45FFCP PHASE2:Hg19::chr7:30198187..30198200,+#_a13a8808ce373064cfc47ee0e0032c26p@chr7:30198187..30198200, +
7.83e-45FFCP PHASE2:Hg19::chr12:26191828..26191840,+#_49f6b2081056ddaa4409fe27a618b2e5p@chr12:26191828..26191840, +
7.83e-45FFCP PHASE1:Hg19::chr12:26191828..26191840,+#_49f6b2081056ddaa4409fe27a618b2e5p@chr12:26191828..26191840, +
7.83e-45FFCP PHASE2:Hg19::chr2:74667046..74667051,-#_49f6b2081056ddaa4409fe27a618b2e5p20@RTKN
7.83e-45FFCP PHASE1:Hg19::chr2:74667046..74667051,-#_49f6b2081056ddaa4409fe27a618b2e5p20@RTKN
9.79e-45FFCP PHASE2:Hg19::chr4:95972775..95972786,+#_c4e1c5627450c699c77227ac43547b9ap16@BMPR1B
9.79e-45FFCP PHASE1:Hg19::chr4:95972775..95972786,+#_c4e1c5627450c699c77227ac43547b9ap16@BMPR1B
1.22e-44FFCP PHASE2:Hg19::chr4:167759804..167759851,-#_d2aa3586bb7e43659d19420addc9d269p@chr4:167759804..167759851, -
1.22e-44FFCP PHASE1:Hg19::chr4:167759804..167759851,-#_d2aa3586bb7e43659d19420addc9d269p@chr4:167759804..167759851, -
1.53e-44FFCP PHASE2:Hg19::chr5:148442824..148442835,+#_99e7a6647616cd53446f0f716cd68befp4@ENST00000515519
1.53e-44FFCP PHASE1:Hg19::chr5:148442824..148442835,+#_99e7a6647616cd53446f0f716cd68befp4@ENST00000515519
1.53e-44FFCP PHASE2:Hg19::chr4:158493753..158493770,+#_99e7a6647616cd53446f0f716cd68befp1@ENST00000455598
1.53e-44FFCP PHASE1:Hg19::chr4:158493753..158493770,+#_99e7a6647616cd53446f0f716cd68befp1@ENST00000455598
2.98e-44FFCP PHASE2:Hg19::chrX:103046902..103046909,+#_a5ed8540173fb36dea945e40fa89f27dp@chrX:103046902..103046909, +
2.98e-44FFCP PHASE1:Hg19::chrX:103046902..103046909,+#_a5ed8540173fb36dea945e40fa89f27dp@chrX:103046902..103046909, +
3.99e-41FFCP PHASE2:Hg19::chr2:58134822..58134832,+#_960f440b22fd71cb21d9ebe5f1286fb3p9@VRK2
3.99e-41FFCP PHASE1:Hg19::chr2:58134822..58134832,+#_960f440b22fd71cb21d9ebe5f1286fb3p9@VRK2
4.89e-41FFCP PHASE2:Hg19::chr1:84413166..84413168,-#_fedb8c3224fd8cf9a39aaffa61b4da9fp4@TTLL7
4.89e-41FFCP PHASE1:Hg19::chr1:84413166..84413168,-#_fedb8c3224fd8cf9a39aaffa61b4da9fp4@TTLL7
5.99e-41FFCP PHASE1:Hg19::chr10:64133988..64133999,-#_c2bfc114fb230d6dd11e09dd2a069390p@chr10:64133988..64133999, -
5.99e-41FFCP PHASE2:Hg19::chr10:64133988..64133999,-#_c2bfc114fb230d6dd11e09dd2a069390p@chr10:64133988..64133999, -
7.33e-41FFCP PHASE2:Hg19::chr16:83741439..83741440,-#_eb02425ba1147eaf4e1a25ff7ab6b97cp@chr16:83741439..83741440, -
7.33e-41FFCP PHASE1:Hg19::chr16:83741439..83741440,-#_eb02425ba1147eaf4e1a25ff7ab6b97cp@chr16:83741439..83741440, -
1.1e-40FFCP PHASE1:Hg19::chr11:119846813..119846826,+#_4096737e177f9fed624660abf783dba6p@chr11:119846813..119846826, +
1.1e-40FFCP PHASE2:Hg19::chr11:119846813..119846826,+#_4096737e177f9fed624660abf783dba6p@chr11:119846813..119846826, +
1.1e-40FFCP PHASE2:Hg19::chr16:19612967..19612983,+#_4096737e177f9fed624660abf783dba6p7@C16orf62
1.1e-40FFCP PHASE1:Hg19::chr16:19612967..19612983,+#_4096737e177f9fed624660abf783dba6p7@C16orf62
2.01e-40FFCP PHASE1:Hg19::chr19:35783038..35783039,+#_6e9898d44aec3ad8f5a4c4780d62f8b1p4@MAG
2.01e-40FFCP PHASE2:Hg19::chr21:22175450..22175461,-#_6e9898d44aec3ad8f5a4c4780d62f8b1p2@LINC00320
2.01e-40FFCP PHASE1:Hg19::chr21:22175450..22175461,-#_6e9898d44aec3ad8f5a4c4780d62f8b1p2@LINC00320
2.01e-40FFCP PHASE2:Hg19::chr19:35783038..35783039,+#_6e9898d44aec3ad8f5a4c4780d62f8b1p4@MAG
3.01e-40FFCP PHASE1:Hg19::chr11:113078055..113078071,+#_305d7de94d22fca2cb56ba3e1707b259p@chr11:113078055..113078071, +
3.01e-40FFCP PHASE2:Hg19::chr11:113078055..113078071,+#_305d7de94d22fca2cb56ba3e1707b259p@chr11:113078055..113078071, +
5.49e-40FFCP PHASE1:Hg19::chr11:47616800..47616812,-#_c290521774ba7980a81a8a374a1d3a64p@chr11:47616800..47616812, -
5.49e-40FFCP PHASE2:Hg19::chr11:47616800..47616812,-#_c290521774ba7980a81a8a374a1d3a64p@chr11:47616800..47616812, -
3.28e-37FFCP PHASE2:Hg19::chr1:204839880..204839889,+#_c2d105205fa85fec70b58257e4ff2247p7@NFASC
3.28e-37FFCP PHASE1:Hg19::chr1:204839880..204839889,+#_c2d105205fa85fec70b58257e4ff2247p7@NFASC
4.73e-37FFCP PHASE1:Hg19::chr21:18885024..18885035,+#_2a434e20aeee63565c401d1139f7b1acp4@CXADR
4.73e-37FFCP PHASE2:Hg19::chr3:58551936..58551947,+#_2a434e20aeee63565c401d1139f7b1acp@chr3:58551936..58551947, +










Property "Property value" (as page type) with input value "UBPROP:0000001 "Part of the diencephalon consisting of a mass of connecting fibers which relay sensory information to the cerebral cortex.[AAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

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