Personal tools

UBERON:0005409: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
 
(2 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{UBERON
{{UBERON
|id=UBERON:0005409
|alt_id=
|name=gastrointestinal system
|anatomical_img_id=FMA:71132
|namespace=
|def=
|xref=BTO:0000058;;EHDAA2:0000110;;EHDAA:514;;EMAPA:16246;;EV:0100056;;FMA:71132;;GAID:294;;MA:0000323;;MESH:A.03.492;;ncithesaurus:Gastrointestinal_System;;SCTID:373871007;;VHOG:0000412
|is_a=UBERON:0000467
|synonym="alimentary system" RELATED [MA:0000323];;"alimentary tract" RELATED [MA:0000323];;"gastro-intestinal system" RELATED [FMA:71132];;"gastrointestinal (GI) tract" RELATED [GAID:294];;"gastrointestinal system" RELATED [FMA:71132];;"gastrointestinal tract" RELATED INCONSISTENT [FMA:71132];;"GI tract" RELATED [GAID:294]
|comment=note that many anatomy ontologies consider this synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class. We have one entity that is part of both gastrointestinal and hepatobiliary systems: hepatopancreatic ampulla
|comment=note that many anatomy ontologies consider this synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class. We have one entity that is part of both gastrointestinal and hepatobiliary systems: hepatopancreatic ampulla
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def=
|subset=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0005409
|is_a=UBERON:0000467
|is_obsolete=
|located_in=
|located_in=
|name=gastrointestinal system
|namespace=FANTOM
|obo_creation_date=
|part_of=UBERON:0001007
|part_of=UBERON:0001007
|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=
|preceded_by=
|synonym="alimentary system" RELATED [MA:0000323];;"alimentary tract" RELATED [MA:0000323];;"gastro-intestinal system" RELATED [FMA:71132];;"gastrointestinal (GI) tract" RELATED [GAID:294];;"gastrointestinal system" RELATED [FMA:71132];;"gastrointestinal tract" RELATED INCONSISTENT [FMA:71132];;"GI tract" RELATED [GAID:294]
|union_of=
|xref=BTO:0000058;;EHDAA2:0000110;;EHDAA:514;;EMAPA:16246;;EV:0100056;;FMA:71132;;GAID:294;;MA:0000323;;MESH:A.03.492;;ncithesaurus:Gastrointestinal_System;;SCTID:373871007;;VHOG:0000412
}}
}}

Latest revision as of 17:53, 12 September 2014

Name:gastrointestinal system
Namespace:FANTOM
Xrefs:
links:

BTO:0000058
EHDAA2:0000110
EHDAA:514
EMAPA:16246
EV:0100056
FMA:71132
GAID:294
MA:0000323
MESH:A.03.492
ncithesaurus:Gastrointestinal_System
SCTID:373871007

VHOG:0000412
Synonyms: "alimentary system" RELATED [MA:0000323]
"alimentary tract" RELATED [MA:0000323]
"gastro-intestinal system" RELATED [FMA:71132]
"gastrointestinal (GI) tract" RELATED [GAID:294]
"gastrointestinal system" RELATED [FMA:71132]
"gastrointestinal tract" RELATED INCONSISTENT [FMA:71132]
"GI tract" RELATED [GAID:294]
Comments:note that many anatomy ontologies consider this synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class. We have one entity that is part of both gastrointestinal and hepatobiliary systems: hepatopancreatic ampulla

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:0000467(anatomical system)
part_of:UBERON:0001007(digestive system)



Children

part of:UBERON:0000160 (intestine),UBERON:0004782 (gastrointestinal system serosa),UBERON:0004786 (gastrointestinal system mucosa),UBERON:0004808 (gastrointestinal system epithelium),UBERON:0004854 (gastrointestinal system mesentery),UBERON:0004907 (lower digestive tract),UBERON:0010039 (food storage organ)

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)

... further results Mouse (Mus musculus)

... further results


Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0005409 (gastrointestinal system), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
7.24e-79FFCP PHASE1:Hg19::chr10:101292731..101292741,+#_a13794892800fbc73a80f06e78d751a8p2@NKX2-3
7.24e-79FFCP PHASE2:Hg19::chr10:101292731..101292741,+#_a13794892800fbc73a80f06e78d751a8p2@NKX2-3
3.21e-68FFCP PHASE2:Hg19::chr4:120243266..120243277,-#_987382a7a1c1ad2eab0fb75504835a30p2@FABP2
3.21e-68FFCP PHASE1:Hg19::chr4:120243266..120243277,-#_987382a7a1c1ad2eab0fb75504835a30p2@FABP2
2.48e-66FFCP PHASE1:Hg19::chr13:28543388..28543406,-#_06c63d7048c356cc46281e8b8a69447ap3@CDX2
2.48e-66FFCP PHASE2:Hg19::chr13:28543388..28543406,-#_06c63d7048c356cc46281e8b8a69447ap3@CDX2
1.65e-64FFCP PHASE1:Hg19::chr5:180326145..180326166,+#_1f8956495c3d78489e6a8522fb0fbe8fp1@BTNL8
1.65e-64FFCP PHASE2:Hg19::chr5:180326145..180326166,+#_1f8956495c3d78489e6a8522fb0fbe8fp1@BTNL8
4.78e-61FFCP PHASE1:Hg19::chr16:1275258..1275289,-#_53b7626d17f47c95654f7c2fbc6d5cd5p1@TPSG1
4.78e-61FFCP PHASE2:Hg19::chr16:1275258..1275289,-#_53b7626d17f47c95654f7c2fbc6d5cd5p1@TPSG1
6.32e-61FFCP PHASE2:Hg19::chr14:103389369..103389380,+#_13625d0e7b1ab11b644245a9e952de75p3@AMN
6.32e-61FFCP PHASE1:Hg19::chr14:103389369..103389380,+#_13625d0e7b1ab11b644245a9e952de75p3@AMN
7.8e-61FFCP PHASE1:Hg19::chr1:167059763..167059776,-#_940f7b36a6335d69ff933b2cbfdfad90p4@GPA33
7.8e-61FFCP PHASE2:Hg19::chr1:167059763..167059776,-#_940f7b36a6335d69ff933b2cbfdfad90p4@GPA33
8.09e-60FFCP PHASE1:Hg19::chr17:48844868..48844891,-#_f8dcf21d0b5e928b47bbec210a3d5539p1@LINC00483
8.09e-60FFCP PHASE2:Hg19::chr17:48844868..48844891,-#_f8dcf21d0b5e928b47bbec210a3d5539p1@LINC00483
1.36e-58FFCP PHASE1:Hg19::chr2:241544866..241544882,+#_e83330d0261b17abc1a6b9f826c9c125p4@GPR35
1.36e-58FFCP PHASE2:Hg19::chr2:241544866..241544882,+#_e83330d0261b17abc1a6b9f826c9c125p4@GPR35
1.24e-57FFCP PHASE2:Hg19::chrX:65382664..65382675,+#_5892f611a0cf1794a058b80bce45db62p8@HEPH
1.24e-57FFCP PHASE1:Hg19::chrX:65382664..65382675,+#_5892f611a0cf1794a058b80bce45db62p8@HEPH
1.25e-56FFCP PHASE2:Hg19::chr17:48844903..48844922,-#_6be26110b96608617d8dd9de3a7430f8p2@LINC00483
1.25e-56FFCP PHASE1:Hg19::chr17:48844903..48844922,-#_6be26110b96608617d8dd9de3a7430f8p2@LINC00483
1.74e-56FFCP PHASE1:Hg19::chr19:50691437..50691453,+#_b6cd9cfe4773abcab66d10ac86b922b8p2@MYH14
1.74e-56FFCP PHASE2:Hg19::chr19:50691437..50691453,+#_b6cd9cfe4773abcab66d10ac86b922b8p2@MYH14
9.28e-56FFCP PHASE1:Hg19::chr13:28543316..28543329,-#_37410ce03fb214aef0aea4f160c9f259p4@CDX2
9.28e-56FFCP PHASE2:Hg19::chr13:28543316..28543329,-#_37410ce03fb214aef0aea4f160c9f259p4@CDX2
2.38e-55FFCP PHASE2:Hg19::chr14:47203595..47203635,-#_de3df431cd242c131f02bb7e179d842ap@chr14:47203595..47203635, -
2.38e-55FFCP PHASE2:Hg19::chr2:128293323..128293332,+#_de3df431cd242c131f02bb7e179d842ap4@MYO7B
2.38e-55FFCP PHASE1:Hg19::chr14:47203595..47203635,-#_de3df431cd242c131f02bb7e179d842ap@chr14:47203595..47203635, -
2.38e-55FFCP PHASE1:Hg19::chr2:128293323..128293332,+#_de3df431cd242c131f02bb7e179d842ap4@MYO7B
2.7e-55FFCP PHASE2:Hg19::chr8:48911486..48911495,-#_4ed92c238b334165470c8b4bfbf74a9ap@chr8:48911486..48911495, -
2.7e-55FFCP PHASE1:Hg19::chr8:48911486..48911495,-#_4ed92c238b334165470c8b4bfbf74a9ap@chr8:48911486..48911495, -
3.85e-54FFCP PHASE1:Hg19::chr6:80340818..80340825,+#_97a6e40d0373c365d955e0134c2cc674p7@SH3BGRL2
3.85e-54FFCP PHASE2:Hg19::chr6:80340818..80340825,+#_97a6e40d0373c365d955e0134c2cc674p7@SH3BGRL2
7.96e-54FFCP PHASE1:Hg19::chr8:95220775..95220820,-#_d8a0f55bb98b9ade4fc1825cbd9bca22p1@CDH17
7.96e-54FFCP PHASE2:Hg19::chr8:95220775..95220820,-#_d8a0f55bb98b9ade4fc1825cbd9bca22p1@CDH17
1.44e-53FFCP PHASE1:Hg19::chr5:180415839..180415851,+#_3dd89464ffbee7bf97a911f5ca13486ap2@BTNL3
1.44e-53FFCP PHASE1:Hg19::chr2:201242699..201242710,+#_3dd89464ffbee7bf97a911f5ca13486ap23@SPATS2L
1.44e-53FFCP PHASE2:Hg19::chr2:201242699..201242710,+#_3dd89464ffbee7bf97a911f5ca13486ap23@SPATS2L
1.44e-53FFCP PHASE2:Hg19::chr5:180415839..180415851,+#_3dd89464ffbee7bf97a911f5ca13486ap2@BTNL3
1.56e-53FFCP PHASE2:Hg19::chrX:65382622..65382653,+#_204bfd7c65b9c6935425da5fb52e6d42p3@HEPH
1.56e-53FFCP PHASE1:Hg19::chrX:65382622..65382653,+#_204bfd7c65b9c6935425da5fb52e6d42p3@HEPH
2.35e-53FFCP PHASE1:Hg19::chr19:55720809..55720819,-#_88ccdf5c9093759a576159da55a7ca22p3@PTPRH
2.35e-53FFCP PHASE2:Hg19::chr19:55720809..55720819,-#_88ccdf5c9093759a576159da55a7ca22p3@PTPRH
4.32e-53FFCP PHASE1:Hg19::chr10:101292921..101292931,+#_bc1f9c82988b93e3c7775dc70cc6e31ep4@NKX2-3
4.32e-53FFCP PHASE1:Hg19::chr12:12223888..12223897,+#_bc1f9c82988b93e3c7775dc70cc6e31ep6@BCL2L14
4.32e-53FFCP PHASE2:Hg19::chr10:101292921..101292931,+#_bc1f9c82988b93e3c7775dc70cc6e31ep4@NKX2-3
4.32e-53FFCP PHASE2:Hg19::chr1:45253840..45253843,-#_bc1f9c82988b93e3c7775dc70cc6e31ep1@BEST4
4.32e-53FFCP PHASE1:Hg19::chr1:45253840..45253843,-#_bc1f9c82988b93e3c7775dc70cc6e31ep1@BEST4
4.32e-53FFCP PHASE2:Hg19::chr12:12223888..12223897,+#_bc1f9c82988b93e3c7775dc70cc6e31ep6@BCL2L14
5.51e-53FFCP PHASE2:Hg19::chr11:69294647..69294668,-#_e46796c83a1c1af4c2be39a8c50b4a2dp1@ENST00000542064
5.51e-53FFCP PHASE1:Hg19::chr11:69294647..69294668,-#_e46796c83a1c1af4c2be39a8c50b4a2dp1@ENST00000542064
9.43e-52FFCP PHASE1:Hg19::chr13:28543431..28543487,-#_a93947db35d0318688a47ff3d64a13f9p1@CDX2
9.43e-52FFCP PHASE2:Hg19::chr13:28543431..28543487,-#_a93947db35d0318688a47ff3d64a13f9p1@CDX2
4.78e-51FFCP PHASE2:Hg19::chr1:120354079..120354091,-#_49143aa488105baf7d5ff04e4b8be17bp1@REG4
4.78e-51FFCP PHASE1:Hg19::chr1:120354079..120354091,-#_49143aa488105baf7d5ff04e4b8be17bp1@REG4
8.9e-51FFCP PHASE1:Hg19::chr16:75569970..75570015,-#_34759ce0e8db8bcc3f5977ee58d41128p@chr16:75569970..75570015, -
8.9e-51FFCP PHASE2:Hg19::chr16:75569970..75570015,-#_34759ce0e8db8bcc3f5977ee58d41128p@chr16:75569970..75570015, -
1.07e-50FFCP PHASE2:Mm9::chr1:74455772..74455802,+#_36b3ee031d6fe72de7acabfa9c3c7747p2@Vil1
1.07e-50FFCP PHASE1:Mm9::chr1:74455772..74455802,+#_36b3ee031d6fe72de7acabfa9c3c7747p2@Vil1
1.17e-50FFCP PHASE2:Mm9::chr11:58203590..58203637,+#_922144388e0e12e563461fa8cd07e5a1p@chr11:58203590..58203637, +
1.17e-50FFCP PHASE1:Mm9::chr11:58203590..58203637,+#_922144388e0e12e563461fa8cd07e5a1p@chr11:58203590..58203637, +
1.59e-50FFCP PHASE1:Hg19::chr15:41224934..41224945,-#_43f3ee1d4aa7288da1082b1513a7ee91p@chr15:41224934..41224945, -
1.59e-50FFCP PHASE2:Hg19::chr15:41224934..41224945,-#_43f3ee1d4aa7288da1082b1513a7ee91p@chr15:41224934..41224945, -
1.71e-50FFCP PHASE1:Mm9::chr11:58198109..58198122,+#_557238971b30da40df187da33985949bp@chr11:58198109..58198122, +
1.71e-50FFCP PHASE2:Mm9::chr11:58198109..58198122,+#_557238971b30da40df187da33985949bp@chr11:58198109..58198122, +
2.14e-50FFCP PHASE2:Mm9::chr19:39135488..39135505,+#_59f6e12f9ae00e85ef492a7e84115a88p1@Cyp2c65
2.14e-50FFCP PHASE1:Mm9::chr19:39135488..39135505,+#_59f6e12f9ae00e85ef492a7e84115a88p1@Cyp2c65
5.9e-50FFCP PHASE1:Hg19::chr7:107443661..107443675,-#_5a190da46903e786d4b875db6906409cp1@SLC26A3
5.9e-50FFCP PHASE2:Hg19::chr7:107443661..107443675,-#_5a190da46903e786d4b875db6906409cp1@SLC26A3
7.25e-50FFCP PHASE1:Hg19::chr5:180326100..180326136,+#_4e949b0851ceba0914ad2ce80acd06a2p2@BTNL8
7.25e-50FFCP PHASE2:Hg19::chr5:180326100..180326136,+#_4e949b0851ceba0914ad2ce80acd06a2p2@BTNL8
7.64e-50FFCP PHASE2:Hg19::chr13:28543409..28543420,-#_fbd3ab94188d3bdbcb7c3a0787717dd6p8@CDX2
7.64e-50FFCP PHASE1:Hg19::chr13:28543409..28543420,-#_fbd3ab94188d3bdbcb7c3a0787717dd6p8@CDX2
2.06e-49FFCP PHASE1:Mm9::chr11:58195782..58195801,+#_67c8180e87fd5989ab095d0a42b590abp@chr11:58195782..58195801, +
2.06e-49FFCP PHASE2:Mm9::chr11:58195782..58195801,+#_67c8180e87fd5989ab095d0a42b590abp@chr11:58195782..58195801, +
4.09e-49FFCP PHASE2:Mm9::chr10:127140579..127140608,+#_d3db12c0b9d224c3c7d5c6707f29d3bbp@chr10:127140579..127140608, +
4.09e-49FFCP PHASE1:Mm9::chr10:127140579..127140608,+#_d3db12c0b9d224c3c7d5c6707f29d3bbp@chr10:127140579..127140608, +
4.18e-49FFCP PHASE2:Mm9::chr8:108804944..108804958,-#_3cd51582607a610a51ab06fc700bd47ep5@Smpd3
4.18e-49FFCP PHASE1:Mm9::chr8:108804944..108804958,-#_3cd51582607a610a51ab06fc700bd47ep5@Smpd3
5.91e-49FFCP PHASE2:Mm9::chr11:58203659..58203736,+#_9fccf4e690237426eab8430071017304p@chr11:58203659..58203736, +
5.91e-49FFCP PHASE1:Mm9::chr11:58203659..58203736,+#_9fccf4e690237426eab8430071017304p@chr11:58203659..58203736, +
8.08e-49FFCP PHASE2:Hg19::chr19:748430..748446,+#_1ea08b350f53b3e246ab163c0577cd8bp@chr19:748430..748446, +
8.08e-49FFCP PHASE1:Hg19::chr19:748430..748446,+#_1ea08b350f53b3e246ab163c0577cd8bp@chr19:748430..748446, +
1.85e-48FFCP PHASE2:Mm9::chr7:19851891..19851932,-#_21bb9f7c45710f261857cfec41206494p@chr7:19851891..19851932, -
1.85e-48FFCP PHASE1:Mm9::chr7:19851891..19851932,-#_21bb9f7c45710f261857cfec41206494p@chr7:19851891..19851932, -
2.72e-48FFCP PHASE2:Mm9::chr11:58195835..58195850,+#_4e1e7a944f283396b5c4d2bfcbac148bp@chr11:58195835..58195850, +
2.72e-48FFCP PHASE1:Mm9::chr11:58195835..58195850,+#_4e1e7a944f283396b5c4d2bfcbac148bp@chr11:58195835..58195850, +
2.98e-48FFCP PHASE1:Mm9::chr8:67653423..67653439,-#_0ee655f6e68147bb1db79c10526be90dp3@BC030870
2.98e-48FFCP PHASE2:Mm9::chr8:67653423..67653439,-#_0ee655f6e68147bb1db79c10526be90dp3@BC030870
3.13e-48FFCP PHASE1:Hg19::chr1:167059674..167059697,-#_f3dbd31d9d87c0f30729f58ebf23d0b6p3@GPA33
3.13e-48FFCP PHASE2:Hg19::chr1:167059674..167059697,-#_f3dbd31d9d87c0f30729f58ebf23d0b6p3@GPA33
3.13e-48FFCP PHASE1:Hg19::chr12:27849378..27849385,+#_f3dbd31d9d87c0f30729f58ebf23d0b6p1@REP15
3.13e-48FFCP PHASE2:Hg19::chr12:27849378..27849385,+#_f3dbd31d9d87c0f30729f58ebf23d0b6p1@REP15
4.24e-48FFCP PHASE2:Mm9::chr8:108804912..108804931,-#_7d8fe8d0b117a2bb34026879f61dd46ep3@Smpd3
4.24e-48FFCP PHASE1:Mm9::chr8:108804912..108804931,-#_7d8fe8d0b117a2bb34026879f61dd46ep3@Smpd3
1.18e-47FFCP PHASE2:Hg19::chr16:86229728..86229756,+#_1352c93759b761307a6224dc93208081p@chr16:86229728..86229756, +
1.18e-47FFCP PHASE1:Hg19::chr16:86229728..86229756,+#_1352c93759b761307a6224dc93208081p@chr16:86229728..86229756, +
1.75e-47FFCP PHASE1:Mm9::chr1:94847277..94847308,-#_e43b1041976a9b6b90a1608d6c2c636ap1@9430060I03Rik
1.75e-47FFCP PHASE2:Mm9::chr1:94847277..94847308,-#_e43b1041976a9b6b90a1608d6c2c636ap1@9430060I03Rik

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=UBERON:0005409&oldid=3277774"