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{{UBERON
{{UBERON
|id=UBERON:0000025
|alt_id=
|name=tube
|namespace=
|def="Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts. with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system" [GO:0035295, PMID:12526790]
|xref=galen:Tube
|is_a=UBERON:0004111
|synonym="epithelial or endothelial tube" EXACT []
|comment=
|comment=
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts. with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system" [GO:0035295, PMID:12526790]
|subset=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0000025
|is_a=UBERON:0004111
|is_obsolete=
|located_in=
|located_in=
|name=tube
|namespace=FANTOM
|obo_creation_date=
|part_of=
|part_of=
|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="epithelial or endothelial tube" EXACT []
|union_of=
|xref=galen:Tube
}}
}}

Latest revision as of 17:04, 12 September 2014

Name:tube
Namespace:FANTOM
Definition:"Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts. with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system" [GO:0035295, PMID:12526790]
Xrefs:
links:
galen:Tube
Synonyms: "epithelial or endothelial tube" EXACT []

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:0004111(anatomical conduit)



Children

is a:UBERON:0000058 (duct),UBERON:0000117 (respiratory tube),UBERON:0000993 (oviduct),UBERON:0001555 (digestive tract),UBERON:0001855 (cochlear duct of membranous labyrinth),UBERON:0003889 (fallopian tube),UBERON:0003890 (Mullerian duct),UBERON:0003914 (epithelial tube),UBERON:0006555 (excretory tube)
part of:UBERON:0013522 (subdivision of tube)

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:0000025 (tube), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
4.06e-55FFCP PHASE2:Hg19::chr19:46477244..46477302,-#_24f3f3694125d69ff53e35f528a5206fp@chr19:46477244..46477302, -
4.06e-55FFCP PHASE1:Hg19::chr19:46477244..46477302,-#_24f3f3694125d69ff53e35f528a5206fp@chr19:46477244..46477302, -
2.25e-51FFCP PHASE2:Hg19::chr19:46105411..46105481,-#_4a0e84366264e754b0b2fff17f009a70p1@GPR4, p2@OPA3
2.25e-51FFCP PHASE1:Hg19::chr19:46105411..46105481,-#_4a0e84366264e754b0b2fff17f009a70p1@GPR4, p2@OPA3
8.28e-50FFCP PHASE1:Hg19::chr4:145567297..145567355,+#_6453b1c6b243b60a0bcff4e2f38711d3p1@HHIP
8.28e-50FFCP PHASE2:Hg19::chr4:145567297..145567355,+#_6453b1c6b243b60a0bcff4e2f38711d3p1@HHIP
3.03e-47FFCP PHASE2:Hg19::chr4:145662551..145662554,+#_601a94cf4c3b176881398b0daa2e9770p@chr4:145662551..145662554, +
3.03e-47FFCP PHASE1:Hg19::chr4:145662551..145662554,+#_601a94cf4c3b176881398b0daa2e9770p@chr4:145662551..145662554, +
1.07e-46FFCP PHASE2:Hg19::chr19:54412517..54412583,+#_f8604c27688210daa4d1362bb7ba8e89p1@CACNG7
1.07e-46FFCP PHASE1:Hg19::chr19:54412517..54412583,+#_f8604c27688210daa4d1362bb7ba8e89p1@CACNG7
6.26e-46FFCP PHASE1:Hg19::chr19:46476791..46476819,-#_d3f48f5804ac2de352f863a98ea889e0p1@NOVA2
6.26e-46FFCP PHASE2:Hg19::chr19:46476791..46476819,-#_d3f48f5804ac2de352f863a98ea889e0p1@NOVA2
1.66e-45FFCP PHASE2:Hg19::chr6:153019069..153019091,+#_6f449d62e9875a2ff360f91f154fedcfp1@MYCT1
1.66e-45FFCP PHASE1:Hg19::chr6:153019069..153019091,+#_6f449d62e9875a2ff360f91f154fedcfp1@MYCT1
2.98e-45FFCP PHASE2:Hg19::chr16:66400578..66400600,+#_63fd7b4c5c6a29e3b3bae9bebb207271p1@CDH5
2.98e-45FFCP PHASE1:Hg19::chr16:66400578..66400600,+#_63fd7b4c5c6a29e3b3bae9bebb207271p1@CDH5
4.56e-45FFCP PHASE1:Hg19::chr8:21924000..21924036,+#_7230010cc950e8875712df59ccccc6cfp4@EPB49
4.56e-45FFCP PHASE2:Hg19::chr8:21924000..21924036,+#_7230010cc950e8875712df59ccccc6cfp4@EPB49
1.68e-44FFCP PHASE1:Hg19::chr19:54411852..54411908,+#_f6f31a992ccc4f8dc1b9083518d5d35fp@chr19:54411852..54411908, +
1.68e-44FFCP PHASE2:Hg19::chr19:54411852..54411908,+#_f6f31a992ccc4f8dc1b9083518d5d35fp@chr19:54411852..54411908, +
8.85e-44FFCP PHASE2:Hg19::chr4:145567767..145567851,+#_17d4616b9f9abafc199721e0517064e1p2@HHIP
8.85e-44FFCP PHASE1:Hg19::chr4:145567767..145567851,+#_17d4616b9f9abafc199721e0517064e1p2@HHIP
1.13e-41FFCP PHASE2:Hg19::chr8:55370487..55370503,+#_ba120aefcc30e986a79d883d42f84b98p1@SOX17
1.13e-41FFCP PHASE1:Hg19::chr8:55370487..55370503,+#_ba120aefcc30e986a79d883d42f84b98p1@SOX17
1.75e-41FFCP PHASE1:Hg19::chr2:133427767..133427797,-#_78fc8a1089f7c7f34fdc85250bbfdb85p1@LYPD1
1.75e-41FFCP PHASE2:Hg19::chr2:133427767..133427797,-#_78fc8a1089f7c7f34fdc85250bbfdb85p1@LYPD1
5.44e-41FFCP PHASE2:Hg19::chr3:195619579..195619630,-#_5e0d60162c364c9030236479eb2360b0p2@TNK2
5.44e-41FFCP PHASE1:Hg19::chr3:195619579..195619630,-#_5e0d60162c364c9030236479eb2360b0p2@TNK2
9.93e-41FFCP PHASE1:Hg19::chr2:228736335..228736397,+#_c489e3b0b5c9b506f040867786a20f24p1@WDR69
9.93e-41FFCP PHASE2:Hg19::chr2:228736335..228736397,+#_c489e3b0b5c9b506f040867786a20f24p1@WDR69
1.13e-40FFCP PHASE2:Hg19::chr9:101471138..101471256,-#_75ad5c7f5d9ba22f4f4bf78bf94f60ecp1@GABBR2
1.13e-40FFCP PHASE1:Hg19::chr9:101471138..101471256,-#_75ad5c7f5d9ba22f4f4bf78bf94f60ecp1@GABBR2
1.4e-40FFCP PHASE1:Hg19::chr4:145567278..145567296,+#_4881dbcb6b7103c5c2858ffa05edec03p3@HHIP
1.4e-40FFCP PHASE2:Hg19::chr4:145567278..145567296,+#_4881dbcb6b7103c5c2858ffa05edec03p3@HHIP
2.61e-40FFCP PHASE1:Hg19::chr10:15413035..15413131,-#_6732d626ff9ba5757d566c868b684bc6p1@FAM171A1
2.61e-40FFCP PHASE2:Hg19::chr10:15413035..15413131,-#_6732d626ff9ba5757d566c868b684bc6p1@FAM171A1
1.36e-39FFCP PHASE1:Hg19::chr9:27109440..27109456,+#_5eebd93faf08ad686ce843259491dc6ap2@TEK
1.36e-39FFCP PHASE2:Hg19::chr9:27109440..27109456,+#_5eebd93faf08ad686ce843259491dc6ap2@TEK
2.13e-39FFCP PHASE1:Hg19::chr15:57668695..57668734,+#_db5e1b05d3f3b71d2fc4522601648d34p1@CGNL1
2.13e-39FFCP PHASE2:Hg19::chr15:57668695..57668734,+#_db5e1b05d3f3b71d2fc4522601648d34p1@CGNL1
3.9e-39FFCP PHASE2:Hg19::chr4:145567426..145567455,+#_8e1bd79172010a593817bbfb41c907c0p5@HHIP
3.9e-39FFCP PHASE1:Hg19::chr4:145567426..145567455,+#_8e1bd79172010a593817bbfb41c907c0p5@HHIP
5.33e-39FFCP PHASE2:Hg19::chr19:16045331..16045344,-#_0ad232bf57d42458bff3346c4a962443p4@CYP4F11
5.33e-39FFCP PHASE1:Hg19::chr19:16045331..16045344,-#_0ad232bf57d42458bff3346c4a962443p4@CYP4F11
5.37e-39FFCP PHASE2:Hg19::chr9:27109392..27109435,+#_66fef9155e53eab218a62139d0f66452p1@TEK
5.37e-39FFCP PHASE1:Hg19::chr9:27109392..27109435,+#_66fef9155e53eab218a62139d0f66452p1@TEK
1.13e-38FFCP PHASE1:Hg19::chr15:44487453..44487476,-#_cf7b74574d2e9bacbfc2a19cfb9cf7e1p1@FRMD5
1.13e-38FFCP PHASE2:Hg19::chr15:44487453..44487476,-#_cf7b74574d2e9bacbfc2a19cfb9cf7e1p1@FRMD5
1.44e-38FFCP PHASE1:Hg19::chr16:19896150..19896205,-#_62ad7d097e53475d25a661f37414a1e2p1@GPRC5B
1.44e-38FFCP PHASE2:Hg19::chr16:19896150..19896205,-#_62ad7d097e53475d25a661f37414a1e2p1@GPRC5B
6.49e-38FFCP PHASE2:Hg19::chrX:50557095..50557207,-#_cd2f48fe3b85ffabef30ba6202e4fa53p1@SHROOM4
6.49e-38FFCP PHASE1:Hg19::chrX:50557095..50557207,-#_cd2f48fe3b85ffabef30ba6202e4fa53p1@SHROOM4
1.0e-37FFCP PHASE2:Hg19::chr19:46476654..46476725,-#_fd94832e5376342cc700554af17bd718p2@NOVA2
1.0e-37FFCP PHASE1:Hg19::chr19:46476654..46476725,-#_fd94832e5376342cc700554af17bd718p2@NOVA2
1.64e-37FFCP PHASE2:Hg19::chr5:87439352..87439386,-#_b8b8bdb676075c8b919449f18f2c4a7bp@chr5:87439352..87439386, -
1.64e-37FFCP PHASE1:Hg19::chr5:87439352..87439386,-#_b8b8bdb676075c8b919449f18f2c4a7bp@chr5:87439352..87439386, -
2.03e-37FFCP PHASE1:Hg19::chr6:136358591..136358656,+#_c574bb69f621c37cbd7d149ee43309a8p@chr6:136358591..136358656, +
2.03e-37FFCP PHASE2:Hg19::chr6:136358591..136358656,+#_c574bb69f621c37cbd7d149ee43309a8p@chr6:136358591..136358656, +
3.17e-37FFCP PHASE2:Hg19::chr8:55370720..55370733,+#_8a8b6f3086aaa1cebb29cf6615e0dbd4p2@SOX17
3.17e-37FFCP PHASE1:Hg19::chr8:55370720..55370733,+#_8a8b6f3086aaa1cebb29cf6615e0dbd4p2@SOX17
4.06e-37FFCP PHASE2:Hg19::chr11:19736307..19736327,-#_e9b067e745a8e1b895c016aad45f351dp2@LOC100126784
4.06e-37FFCP PHASE1:Hg19::chr11:19736307..19736327,-#_e9b067e745a8e1b895c016aad45f351dp2@LOC100126784
4.93e-37FFCP PHASE2:Hg19::chr7:108096770..108096784,-#_31a5373b28059957736deda7d709141fp2@NRCAM
4.93e-37FFCP PHASE1:Hg19::chr7:108096770..108096784,-#_31a5373b28059957736deda7d709141fp2@NRCAM
1.24e-36FFCP PHASE1:Hg19::chr10:88717337..88717379,-#_15bbf28e8fb51788097679338feab795p1@MMRN2
1.24e-36FFCP PHASE2:Hg19::chr10:88717337..88717379,-#_15bbf28e8fb51788097679338feab795p1@MMRN2
2.18e-36FFCP PHASE1:Hg19::chr6:170482999..170483030,+#_c95d971c487ccc84fe6c6aa5a7fb598ap@chr6:170482999..170483030, +
2.18e-36FFCP PHASE2:Hg19::chr6:170482999..170483030,+#_c95d971c487ccc84fe6c6aa5a7fb598ap@chr6:170482999..170483030, +
2.89e-36FFCP PHASE1:Hg19::chr5:11384884..11384916,-#_a943c3b3b248db14ea8f2cc3a7435330p8@CTNND2
2.89e-36FFCP PHASE2:Hg19::chr5:11384884..11384916,-#_a943c3b3b248db14ea8f2cc3a7435330p8@CTNND2
3.64e-36FFCP PHASE2:Hg19::chr2:50201220..50201261,-#_22545aa2c703a9966a22f15cf712a0bep3@NRXN1
3.64e-36FFCP PHASE1:Hg19::chr2:50201220..50201261,-#_22545aa2c703a9966a22f15cf712a0bep3@NRXN1
4.55e-36FFCP PHASE2:Hg19::chr10:134599649..134599653,-#_57b6a35dc0fe23afebf4877583ca78eep1@NKX6-2
4.55e-36FFCP PHASE1:Hg19::chr10:134599649..134599653,-#_57b6a35dc0fe23afebf4877583ca78eep1@NKX6-2
6.07e-36FFCP PHASE1:Hg19::chr3:50360165..50360183,-#_f25eb234f630c21d331def887576a875p2@HYAL2
6.07e-36FFCP PHASE2:Hg19::chr3:50360165..50360183,-#_f25eb234f630c21d331def887576a875p2@HYAL2
7.08e-36FFCP PHASE2:Hg19::chr8:21924052..21924103,+#_47786edaf84b8c4f9e73aca9b8f6475fp6@EPB49
7.08e-36FFCP PHASE1:Hg19::chr8:21924052..21924103,+#_47786edaf84b8c4f9e73aca9b8f6475fp6@EPB49
1.07e-35FFCP PHASE2:Hg19::chr7:36446001..36446028,+#_d5b02d473940d8e0756a3dd561681f0bp4@ANLN
1.07e-35FFCP PHASE1:Hg19::chr7:36446001..36446028,+#_d5b02d473940d8e0756a3dd561681f0bp4@ANLN
1.21e-35FFCP PHASE1:Hg19::chr1:45962297..45962320,-#_884022f8d0f465757d14af5f5f67caedp@chr1:45962297..45962320, -
1.21e-35FFCP PHASE2:Hg19::chr1:45962297..45962320,-#_884022f8d0f465757d14af5f5f67caedp@chr1:45962297..45962320, -
1.31e-35FFCP PHASE1:Hg19::chr17:5973740..5973785,+#_891a9be9953fd8dd0c72315cca0eeac2p1@WSCD1
1.31e-35FFCP PHASE2:Hg19::chr17:5973740..5973785,+#_891a9be9953fd8dd0c72315cca0eeac2p1@WSCD1
1.42e-35FFCP PHASE1:Hg19::chr17:54230819..54230848,+#_5948d1df288cff722350cb39b3fc2cb6p1@ANKFN1
1.42e-35FFCP PHASE2:Hg19::chr17:54230819..54230848,+#_5948d1df288cff722350cb39b3fc2cb6p1@ANKFN1
1.46e-35FFCP PHASE2:Hg19::chr10:83634077..83634101,+#_15354ce068325f1bfd5ffea2491509c3p@chr10:83634077..83634101, +
1.46e-35FFCP PHASE1:Hg19::chr10:83634077..83634101,+#_15354ce068325f1bfd5ffea2491509c3p@chr10:83634077..83634101, +
1.95e-35FFCP PHASE1:Hg19::chr6:12290586..12290600,+#_9623610ca816ac668482e194bf1e3367p1@EDN1
1.95e-35FFCP PHASE2:Hg19::chr6:12290586..12290600,+#_9623610ca816ac668482e194bf1e3367p1@EDN1
2.16e-35FFCP PHASE2:Hg19::chr5:146314142..146314146,-#_59b634e49c746311cba94ca2b9b6c3cbp@chr5:146314142..146314146, -
2.16e-35FFCP PHASE1:Hg19::chr5:146314142..146314146,-#_59b634e49c746311cba94ca2b9b6c3cbp@chr5:146314142..146314146, -
2.24e-35FFCP PHASE1:Hg19::chr2:74612644..74612670,+#_29b10fec29e1c58adf34ece5c1c43e85p1@ENST00000412957
2.24e-35FFCP PHASE2:Hg19::chr2:74612644..74612670,+#_29b10fec29e1c58adf34ece5c1c43e85p1@ENST00000412957
3.44e-35FFCP PHASE1:Hg19::chr20:19867269..19867283,+#_dd88d6e83f56a85a51735afa89548568p3@RIN2
3.44e-35FFCP PHASE2:Hg19::chr20:19867269..19867283,+#_dd88d6e83f56a85a51735afa89548568p3@RIN2
4.3e-35FFCP PHASE1:Hg19::chr3:184055379..184055401,+#_02ce7263a8f5f0fd2071b0cbbf793ec1p2@FAM131A
4.3e-35FFCP PHASE2:Hg19::chr3:184055379..184055401,+#_02ce7263a8f5f0fd2071b0cbbf793ec1p2@FAM131A
4.35e-35FFCP PHASE1:Hg19::chr5:141257961..141258006,-#_c70aaf52cb91365d2beb35c47adec4a3p1@PCDH1
4.35e-35FFCP PHASE2:Hg19::chr5:141257961..141258006,-#_c70aaf52cb91365d2beb35c47adec4a3p1@PCDH1

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=UBERON:0000025&oldid=3277036"