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{{UBERON
{{UBERON
|id=UBERON:0001555
|alt_id=UBERON:FMA_45615-MA_0000917-ZFA_0000112
|name=digestive tract
|namespace=
|def="Tube extending from the mouth to the anus." [http://en.wikipedia.org/wiki/Talk:Human_gastrointestinal_tract, http://sourceforge.net/tracker/?func=detail&atid=440764&aid=2991587&group_id=36855]
|xref=AAO:0010023;;BILA:0000083;;BTO:0000511;;BTO:0000545;;EHDAA2:0000726;;EHDAA:518;;EMAPA:16247;;FBbt:00003125;;FMA:45615;;galen:AlimentaryTract;;ncithesaurus:Gastrointestinal_Tract;;OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA;;TAO:0000112;;TGMA:0001819;;VHOG:0000309;;WBbt:0005743;;ZFA:0000112
|is_a=UBERON:0000481;;UBERON:0004119
|synonym="alimentary canal" EXACT [];;"digestive tube" RELATED [];;"enteric tract" EXACT [ZFA:0000112];;"gut" BROAD [];;"gut tube" RELATED []
|comment=GO says gut is region of DT, from intestines to anus. ZFA treats as synonym for alimentary canal, and treats it as the sum of DT + organs (ZF has no term from stomach). GO says intestines to anus (excludes stomach and esophagus). MA appears to agree with GO (stomach and esophagus are not parts). FMA includes stomach and esophagus as parts of gut -- the FMA divides gut into lower and upper GI tract; it's not clear if this is exhaustive (small intestine is in neither), but lower GI tract may correspond better to the GO definition. NOTE: GO now changed, see sf id in def xref. Note that FMA also has a term 'gastrointestinal tract', but this includes the liver
|comment=GO says gut is region of DT, from intestines to anus. ZFA treats as synonym for alimentary canal, and treats it as the sum of DT + organs (ZF has no term from stomach). GO says intestines to anus (excludes stomach and esophagus). MA appears to agree with GO (stomach and esophagus are not parts). FMA includes stomach and esophagus as parts of gut -- the FMA divides gut into lower and upper GI tract; it's not clear if this is exhaustive (small intestine is in neither), but lower GI tract may correspond better to the GO definition. NOTE: GO now changed, see sf id in def xref. Note that FMA also has a term 'gastrointestinal tract', but this includes the liver
|alt_id=UBERON:FMA_45615-MA_0000917-ZFA_0000112
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="Tube extending from the mouth to the anus." [http://en.wikipedia.org/wiki/Talk:Human_gastrointestinal_tract, http://sourceforge.net/tracker/?func
|subset=uberon_slim;;vertebrate_core
|derives_from=
|derives_from=
|develops_from=
|develops_from=UBERON:0007026
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0001555
|is_a=UBERON:0000025
|is_obsolete=
|located_in=
|located_in=
|part_of=
|name=digestive tract
|namespace=FANTOM
|obo_creation_date=
|part_of=UBERON:0001007
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl-to-uberon.owl;;IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl;;UBPROP:0000001 "The alimentary or digestive tract, and associated organs.[TAO]" xsd:string
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl-to-uberon.owl;;IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl;;UBPROP:0000001 "The alimentary or digestive tract, and associated organs.[TAO]" xsd:string
|is_obsolete=
|subset=uberon_slim;;vertebrate_core
|preceded_by=
|synonym="alimentary canal" EXACT [];;"digestive tube" RELATED [];;"enteric tract" EXACT [ZFA:0000112];;"gut" BROAD [];;"gut tube" RELATED []
|union_of=
|xref=AAO:0010023;;BILA:0000083;;BTO:0000511;;BTO:0000545;;EHDAA2:0000726;;EHDAA:518;;EMAPA:16247;;FBbt:00003125;;FMA:45615;;galen:AlimentaryTract;;ncithesaurus:Gastrointestinal_Tract;;OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA;;TAO:0000112;;TGMA:0001819;;VHOG:0000309;;WBbt:0005743;;ZFA:0000112
}}
}}

Latest revision as of 17:19, 12 September 2014

Name:digestive tract
Namespace:FANTOM
Definition:"Tube extending from the mouth to the anus." [http://en.wikipedia.org/wiki/Talk:Human_gastrointestinal_tract, http://sourceforge.net/tracker/?func
Xrefs:
links:

AAO:0010023
BILA:0000083
BTO:0000511
BTO:0000545
EHDAA2:0000726
EHDAA:518
EMAPA:16247
FBbt:00003125
FMA:45615
galen:AlimentaryTract
ncithesaurus:Gastrointestinal_Tract
OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA
TAO:0000112
TGMA:0001819
VHOG:0000309
WBbt:0005743

ZFA:0000112
Synonyms: "alimentary canal" EXACT []
"digestive tube" RELATED []
"enteric tract" EXACT [ZFA:0000112]
"gut" BROAD []
"gut tube" RELATED []
Comments:GO says gut is region of DT, from intestines to anus. ZFA treats as synonym for alimentary canal, and treats it as the sum of DT + organs (ZF has no term from stomach). GO says intestines to anus (excludes stomach and esophagus). MA appears to agree with GO (stomach and esophagus are not parts). FMA includes stomach and esophagus as parts of gut -- the FMA divides gut into lower and upper GI tract; it's not clear if this is exhaustive (small intestine is in neither), but lower GI tract may correspond better to the GO definition. NOTE: GO now changed, see sf id in def xref. Note that FMA also has a term 'gastrointestinal tract', but this includes the liver
Alt_id: UBERON:FMA_45615-MA_0000917-ZFA_0000112
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:0000025(tube)
develops_from:UBERON:0007026(primitive gut)
part_of:UBERON:0001007(digestive system)



Children

develops from:UBERON:0003922 (pancreatic epithelial bud)
part of:UBERON:0000162 (cloaca),UBERON:0000328 (gut wall),UBERON:0001962 (gut-associated lymphoid tissue),CL:0002251 (epithelial cell of alimentary canal),UBERON:0003408 (gland of gut),UBERON:0003929 (gut epithelium),UBERON:0004185 (endodermal part of digestive tract),UBERON:0004786 (gastrointestinal system mucosa),UBERON:0004906 (ectodermal part of digestive tract),UBERON:0004921 (subdivision of digestive tract),UBERON:0006235 (foregut-midgut junction),UBERON:0009854 (digestive tract diverticulum),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:0001555 (digestive tract), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
4.99e-36FFCP PHASE1:Hg19::chr14:38064429..38064486,-#_7f75b0375c6fe26d9b094e10355871f1p1@FOXA1
4.99e-36FFCP PHASE2:Hg19::chr14:38064429..38064486,-#_7f75b0375c6fe26d9b094e10355871f1p1@FOXA1
1.61e-35FFCP PHASE2:Hg19::chr5:134369879..134369898,-#_c8f0f97e11417d34d8f8e629f6703b89p2@PITX1
1.61e-35FFCP PHASE1:Hg19::chr5:134369879..134369898,-#_c8f0f97e11417d34d8f8e629f6703b89p2@PITX1
1.29e-32FFCP PHASE2:Hg19::chr16:68269971..68270059,-#_767126de888fa03e96b2452cef210942p1@ESRP2
1.29e-32FFCP PHASE1:Hg19::chr16:68269971..68270059,-#_767126de888fa03e96b2452cef210942p1@ESRP2
4.79e-32FFCP PHASE1:Hg19::chr16:86542652..86542692,-#_99d62107aaa25061e0af0383c84d3c1ep2@LOC400550
4.79e-32FFCP PHASE2:Hg19::chr16:86542652..86542692,-#_99d62107aaa25061e0af0383c84d3c1ep2@LOC400550
9.87e-31FFCP PHASE1:Hg19::chr16:86532148..86532166,-#_317e7af35b411b38b82fbdcb5db21944p@chr16:86532148..86532166, -
9.87e-31FFCP PHASE2:Hg19::chr16:86532148..86532166,-#_317e7af35b411b38b82fbdcb5db21944p@chr16:86532148..86532166, -
1.01e-30FFCP PHASE1:Hg19::chr18:47721315..47721430,-#_e060ea15e3b3cc8275fc9cd990a6c9cdp1@MYO5B
1.01e-30FFCP PHASE2:Hg19::chr18:47721315..47721430,-#_e060ea15e3b3cc8275fc9cd990a6c9cdp1@MYO5B
1.18e-30FFCP PHASE2:Hg19::chr14:65409452..65409479,-#_97e7bed5a0104503fc94b5fa5cc2d1bfp1@GPX2
1.18e-30FFCP PHASE1:Hg19::chr14:65409452..65409479,-#_97e7bed5a0104503fc94b5fa5cc2d1bfp1@GPX2
5.14e-30FFCP PHASE1:Mm9::chr12:58646974..58647003,-#_1d5588422492a5b2c068d5e9ff5c620ap1@Foxa1
5.14e-30FFCP PHASE2:Mm9::chr12:58646974..58647003,-#_1d5588422492a5b2c068d5e9ff5c620ap1@Foxa1
5.76e-30FFCP PHASE1:Mm9::chr13:4190454..4190472,+#_d168473410eedc48766151e84dd346b6p2@Akr1c13
5.76e-30FFCP PHASE2:Mm9::chr13:4190454..4190472,+#_d168473410eedc48766151e84dd346b6p2@Akr1c13
1.52e-29FFCP PHASE2:Hg19::chr20:62168672..62168713,-#_5aacedbdb36071a5845fec6c9a2bccb6p1@PTK6
1.52e-29FFCP PHASE1:Hg19::chr20:62168672..62168713,-#_5aacedbdb36071a5845fec6c9a2bccb6p1@PTK6
4.1e-29FFCP PHASE1:Hg19::chr16:68260798..68260800,-#_86306adcc72821c11503c9208035b43fp@chr16:68260798..68260800, -
4.1e-29FFCP PHASE2:Hg19::chr16:68260798..68260800,-#_86306adcc72821c11503c9208035b43fp@chr16:68260798..68260800, -
6.23e-29FFCP PHASE2:Hg19::chr1:201979743..201979762,+#_f4fa1389399c91a6202e20b9c5986d27p1@ELF3
6.23e-29FFCP PHASE1:Hg19::chr1:201979743..201979762,+#_f4fa1389399c91a6202e20b9c5986d27p1@ELF3
7.64e-29FFCP PHASE1:Mm9::chr2:180976725..180976753,-#_7d02d1f545bb5a5c8816e70655e771b4p2@BC006779
7.64e-29FFCP PHASE2:Mm9::chr2:180976725..180976753,-#_7d02d1f545bb5a5c8816e70655e771b4p2@BC006779
1.66e-28FFCP PHASE1:Hg19::chr19:42212526..42212575,+#_15cacbbb6ad3321bc8481012173f3013p1@CEACAM5
1.66e-28FFCP PHASE2:Hg19::chr19:42212526..42212575,+#_15cacbbb6ad3321bc8481012173f3013p1@CEACAM5
2.87e-28FFCP PHASE2:Hg19::chr17:7164410..7164457,-#_4728d0952ad18d5fe407f5a5ba67b801p3@CLDN7
2.87e-28FFCP PHASE1:Hg19::chr17:7164410..7164457,-#_4728d0952ad18d5fe407f5a5ba67b801p3@CLDN7
7.57e-28FFCP PHASE1:Mm9::chr8:70018742..70018782,+#_de711064b9b5ceae8f8bf0496847262dp1@Nat2
7.57e-28FFCP PHASE2:Mm9::chr8:70018742..70018782,+#_de711064b9b5ceae8f8bf0496847262dp1@Nat2
1.1e-27FFCP PHASE1:Hg19::chr5:134369905..134369972,-#_f4c73e7aa53e1f36b37facebd8120b94p1@PITX1
1.1e-27FFCP PHASE2:Hg19::chr5:134369905..134369972,-#_f4c73e7aa53e1f36b37facebd8120b94p1@PITX1
1.82e-27FFCP PHASE2:Mm9::chr5:65194752..65194769,+#_63b32ea7ed7c92a53b5c34234d5e9c1dp1@Klf3
1.82e-27FFCP PHASE1:Mm9::chr5:65194752..65194769,+#_63b32ea7ed7c92a53b5c34234d5e9c1dp1@Klf3
3.7e-27FFCP PHASE1:Mm9::chr2:51828449..51828501,-#_6ebc98aef51fb6154484a476c151077bp1@Nmi
3.7e-27FFCP PHASE2:Mm9::chr2:51828449..51828501,-#_6ebc98aef51fb6154484a476c151077bp1@Nmi
3.88e-27FFCP PHASE1:Hg19::chr6:1312325..1312340,+#_92eb9ce425e7dbe8822a5354f68118b4p1@FOXQ1
3.88e-27FFCP PHASE2:Hg19::chr6:1312325..1312340,+#_92eb9ce425e7dbe8822a5354f68118b4p1@FOXQ1
5.02e-27FFCP PHASE2:Hg19::chr1:26503974..26504025,+#_0c2dd3a21f06c73cd3d4bd6f57d198cap1@CNKSR1
5.02e-27FFCP PHASE1:Hg19::chr1:26503974..26504025,+#_0c2dd3a21f06c73cd3d4bd6f57d198cap1@CNKSR1
5.37e-27FFCP PHASE1:Mm9::chr1:37722539..37722560,-#_39417cb28fa558695bd4694c6a9d2a34p@chr1:37722539..37722560, -
5.37e-27FFCP PHASE2:Mm9::chr1:37722539..37722560,-#_39417cb28fa558695bd4694c6a9d2a34p@chr1:37722539..37722560, -
5.43e-27FFCP PHASE2:Hg19::chr11:394196..394258,+#_b89bbe271cfc24ca87f65ef3652f36e5p1@PKP3
5.43e-27FFCP PHASE1:Hg19::chr11:394196..394258,+#_b89bbe271cfc24ca87f65ef3652f36e5p1@PKP3
6.53e-27FFCP PHASE2:Mm9::chr13:4278636..4278655,-#_f14d6e3c268212a14fa757ba77094c83p1@Akr1c12
6.53e-27FFCP PHASE1:Mm9::chr13:4278636..4278655,-#_f14d6e3c268212a14fa757ba77094c83p1@Akr1c12
1.11e-26FFCP PHASE2:Mm9::chr1:58852306..58852403,+#_04fd46990bf0d785ca2f212572033004p2@Casp8
1.11e-26FFCP PHASE1:Mm9::chr1:58852306..58852403,+#_04fd46990bf0d785ca2f212572033004p2@Casp8
2.45e-26FFCP PHASE2:Mm9::chr6:7795251..7795299,+#_084dd3bb8e51942116e54c7ac8fd7b08p1@C1galt1
2.45e-26FFCP PHASE1:Mm9::chr6:7795251..7795299,+#_084dd3bb8e51942116e54c7ac8fd7b08p1@C1galt1
2.56e-26FFCP PHASE1:Hg19::chr14:65409484..65409495,-#_beaaeeeec519676b5e69c11e9d2f4326p2@GPX2
2.56e-26FFCP PHASE2:Hg19::chr14:65409484..65409495,-#_beaaeeeec519676b5e69c11e9d2f4326p2@GPX2
2.62e-26FFCP PHASE1:Hg19::chr6:116381918..116381977,-#_b0a1adadae29dce8331eaf827b1f0611p1@FRK
2.62e-26FFCP PHASE2:Hg19::chr6:116381918..116381977,-#_b0a1adadae29dce8331eaf827b1f0611p1@FRK
2.79e-26FFCP PHASE2:Hg19::chr11:32851450..32851485,+#_f0b0c276060584f1bb46222af8a8a51cp1@PRRG4
2.79e-26FFCP PHASE1:Hg19::chr11:32851450..32851485,+#_f0b0c276060584f1bb46222af8a8a51cp1@PRRG4
3.02e-26FFCP PHASE2:Hg19::chr8:82644741..82644791,+#_dcf567df5ba7b248c21c1120884b287ep2@CHMP4C
3.02e-26FFCP PHASE1:Hg19::chr8:82644741..82644791,+#_dcf567df5ba7b248c21c1120884b287ep2@CHMP4C
3.55e-26FFCP PHASE2:Hg19::chr1:209825762..209825779,-#_440c4fdede1bbc3aa8a355c19c1497ffp1@LAMB3
3.55e-26FFCP PHASE1:Hg19::chr1:209825762..209825779,-#_440c4fdede1bbc3aa8a355c19c1497ffp1@LAMB3
4.15e-26FFCP PHASE2:Mm9::chr18:38369387..38369401,-#_ec22a68436d879837003a61c4e4bc4c3p4@Pcdh1
4.15e-26FFCP PHASE1:Mm9::chr18:38369387..38369401,-#_ec22a68436d879837003a61c4e4bc4c3p4@Pcdh1
4.54e-26FFCP PHASE2:Hg19::chr13:76334824..76334862,+#_67eecdf451f0c5237c8483d36d525e53p2@LMO7
4.54e-26FFCP PHASE1:Hg19::chr13:76334824..76334862,+#_67eecdf451f0c5237c8483d36d525e53p2@LMO7
4.87e-26FFCP PHASE2:Mm9::chr11:106781922..106781957,-#_45e498904e56ab67c281907ef363cd0bp4@Smurf2
4.87e-26FFCP PHASE1:Mm9::chr11:106781922..106781957,-#_45e498904e56ab67c281907ef363cd0bp4@Smurf2
4.9e-26FFCP PHASE2:Mm9::chr1:58852462..58852483,+#_ddb98a7eb8857b617c4a37506be697f2p4@Casp8
4.9e-26FFCP PHASE1:Mm9::chr1:58852462..58852483,+#_ddb98a7eb8857b617c4a37506be697f2p4@Casp8
5.37e-26FFCP PHASE1:Hg19::chr3:142315294..142315315,+#_86fc046f1ab8150da28dd8bc0800f184p3@PLS1
5.37e-26FFCP PHASE2:Hg19::chr3:142315294..142315315,+#_86fc046f1ab8150da28dd8bc0800f184p3@PLS1
5.52e-26FFCP PHASE1:Mm9::chr4:124428852..124428893,+#_523da6ba4cf21ae2b72cf9919a000f00p1@Inpp5b
5.52e-26FFCP PHASE2:Mm9::chr4:124428852..124428893,+#_523da6ba4cf21ae2b72cf9919a000f00p1@Inpp5b
5.79e-26FFCP PHASE2:Mm9::chr13:101322621..101322632,-#_693db625421e8c002b4238d020cb4a6ep4@Ocln
5.79e-26FFCP PHASE1:Mm9::chr13:101322621..101322632,-#_693db625421e8c002b4238d020cb4a6ep4@Ocln
6.23e-26FFCP PHASE1:Hg19::chr19:3708338..3708374,+#_2d1d58553ed13ad83eaa8dc9c4469315p2@TJP3
6.23e-26FFCP PHASE2:Hg19::chr19:3708338..3708374,+#_2d1d58553ed13ad83eaa8dc9c4469315p2@TJP3
6.37e-26FFCP PHASE2:Mm9::chr10:128180925..128180966,-#_bfcbeb10147aa0a6854344ab8cf6fb78p2@Dgka
6.37e-26FFCP PHASE1:Mm9::chr10:128180925..128180966,-#_bfcbeb10147aa0a6854344ab8cf6fb78p2@Dgka
7.63e-26FFCP PHASE2:Hg19::chr17:19651668..19651682,-#_7e524f95640b910478e3c2971e4ebb30p2@ALDH3A1
7.63e-26FFCP PHASE1:Hg19::chr17:19651668..19651682,-#_7e524f95640b910478e3c2971e4ebb30p2@ALDH3A1
8.05e-26FFCP PHASE1:Mm9::chr9:110782790..110782819,+#_309c0914c7ce25ec1fcb2066aa0e178fp1@Als2cl
8.05e-26FFCP PHASE2:Mm9::chr9:110782790..110782819,+#_309c0914c7ce25ec1fcb2066aa0e178fp1@Als2cl
8.42e-26FFCP PHASE2:Mm9::chr11:116072277..116072320,+#_b1809921aff73b3b62a26365c07486fbp2@2310004N24Rik
8.42e-26FFCP PHASE1:Mm9::chr11:116072277..116072320,+#_b1809921aff73b3b62a26365c07486fbp2@2310004N24Rik
9.38e-26FFCP PHASE2:Hg19::chr7:1595831..1595858,-#_6b3d542dbba5a033dd4792451a8effe2p1@TMEM184A
9.38e-26FFCP PHASE1:Hg19::chr7:1595831..1595858,-#_6b3d542dbba5a033dd4792451a8effe2p1@TMEM184A
1.03e-25FFCP PHASE1:Hg19::chr10:101690650..101690683,-#_bffb6333378b9425b2112daf8ca1f27bp2@DNMBP
1.03e-25FFCP PHASE2:Hg19::chr10:101690650..101690683,-#_bffb6333378b9425b2112daf8ca1f27bp2@DNMBP
1.14e-25FFCP PHASE2:Hg19::chr1:201979703..201979721,+#_54556349aa1251b663c5f4ffadec4f04p2@ELF3
1.14e-25FFCP PHASE1:Hg19::chr1:201979703..201979721,+#_54556349aa1251b663c5f4ffadec4f04p2@ELF3
1.37e-25FFCP PHASE1:Hg19::chr10:114133905..114133922,+#_5a6803a6b70a3758c604869f0386d567p2@ACSL5
1.37e-25FFCP PHASE2:Hg19::chr10:114133905..114133922,+#_5a6803a6b70a3758c604869f0386d567p2@ACSL5
1.44e-25FFCP PHASE2:Hg19::chr18:61144160..61144214,+#_59f29aa032d18c21a00d42e45897aee8p1@SERPINB5
1.44e-25FFCP PHASE1:Hg19::chr18:61144160..61144214,+#_59f29aa032d18c21a00d42e45897aee8p1@SERPINB5
1.48e-25FFCP PHASE2:Mm9::chr6:117867010..117867024,+#_b053ee2028becff173778aa7d36ef619p3@Hnrnpf
1.48e-25FFCP PHASE1:Mm9::chr6:117867010..117867024,+#_b053ee2028becff173778aa7d36ef619p3@Hnrnpf
1.51e-25FFCP PHASE1:Hg19::chr3:111451321..111451372,+#_5ed19a7b6089494955e9ef7deb2cbefbp3@PHLDB2
1.51e-25FFCP PHASE2:Hg19::chr3:111451321..111451372,+#_5ed19a7b6089494955e9ef7deb2cbefbp3@PHLDB2










Property "Property value" (as page type) with input value "UBPROP:0000001 "The alimentary or digestive tract, and associated organs.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

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