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Revision as of 17:10, 15 June 2012

Name:stomach
Definition:"An expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ. A stomach is lined, in whole or in part by a glandular epithelium." [ISBN10:0073040584, UBERON:cjm, Wikipedia:Stomach]
Xrefs:
links:

AAO:0000579
ANISEED:1235297
BTO:0001307
EFO:0000837
EHDAA:2993
EHDAA2:0001915
EMAPA:17021
EMAPA:18889
EV:0100070
FMA:7148
GAID:293
galen:Stomach
[ 200px-Stomach_diagram.svg.png 200px-Stomach_diagram.svg.png]
MA:0000353
MAT:0000051
MESH:A.03.492.766
MIAA:0000051
ncithesaurus:Stomach
OpenCyc:Mx4rvVjlqpwpEbGdrcN5Y29ycA
SCTID:181246003
TAO:0002121
VHOG:0000408

XAO:0000128
Synonyms: "anterior intestine" RELATED []
"gaster" RELATED [BTO:0001307]
"mesenteron" RELATED []
"stomach" RELATED []
"ventriculus" RELATED []
Comments:Taxon notes: We restrict this to the vertebrate specific structure - see the grouping class 'food storage organ' for analogous structures in other species. Teleosts: Zebrafish is functionally stomach-less, but may retain ontogenic footprint. Although the precise shape and size of the stomach varies widely among different vertebrates, the relative positions of the oesophageal and duodenal openings remain relatively constant. As a result, the organ always curves somewhat to the left before curving back to meet the pyloric sphincter. However, lampreys, hagfishes, chimaeras, lungfishes, and some teleost fish have no stomach at all, with the oesophagus opening directly into the intestine. The gastric lining is usually divided into two regions, an anterior portion lined by fundic glands, and a posterior with pyloric glands. Cardiac glands are unique to mammals, and even then are absent in a number of species. The distributions of these glands vary between species, and do not always correspond with the same regions as in man. Furthermore, in many non-human mammals, a portion of the stomach anterior to the cardiac glands is lined with epithelium essentially identical to that of the oesophagus. Ruminants, in particular, have a complex stomach, the first three chambers of which are all lined with oesophageal mucosa -- Stomach#In_other_animals
Alt_id: UBERON:FBbt_00003138-FMA_7148-MA_0000353-MIAA_0000051-XAO_0000128
Subset: major_organ
organ_slim
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:0000077(mixed endoderm/mesoderm-derived structure),UBERON:0010039(food storage organ)
part_of:UBERON:0001041(foregut)



Children

derives from:FF:0010062 (human stomach - fetal sample),FF:0011312 (mouse stomach- adult sample),FF:0011321 (mouse stomach- embryo E12 sample),FF:0011358 (mouse stomach- embryo E16 sample),FF:0011410 (mouse stomach- neonate N07 sample),FF:0011492 (mouse stomach- embryo E17 sample),FF:0011493 (mouse stomach- neonate N25 sample),FF:0011494 (mouse stomach- neonate N30 sample),FF:0011498 (mouse stomach, neonate N03 sample),FF:0011514 (mouse stomach- embryo E18 sample),FF:0011523 (mouse stomach- embryo E15 sample),FF:0100787 (gastric cancer cell line sample)
part of:CL:0002178 (epithelial cell of stomach),UBERON:0003281 (mesentery of stomach),UBERON:0009034 (stomach region)

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:0000945 (stomach), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
4.57e-56FFCP PHASE1:Hg19::chr7:12997533..12997536,+#_698c5fd562c292e586625a858495b91bp@chr7:12997533..12997536, +
4.57e-56FFCP PHASE2:Hg19::chr7:12997533..12997536,+#_698c5fd562c292e586625a858495b91bp@chr7:12997533..12997536, +
3.99e-50FFCP PHASE1:Hg19::chr16:84218794..84218800,+#_f0201a6b861976eaecdd9988470a7087p@chr16:84218794..84218800, +
3.99e-50FFCP PHASE2:Hg19::chr7:13045950..13045959,+#_f0201a6b861976eaecdd9988470a7087p@chr7:13045950..13045959, +
3.99e-50FFCP PHASE1:Hg19::chr8:22436248..22436259,+#_f0201a6b861976eaecdd9988470a7087p11@PDLIM2
3.99e-50FFCP PHASE2:Hg19::chr19:32401253..32401271,-#_f0201a6b861976eaecdd9988470a7087p@chr19:32401253..32401271, -
3.99e-50FFCP PHASE2:Hg19::chr11:56859608..56859619,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859608..56859619, -
3.99e-50FFCP PHASE1:Hg19::chr17:78171885..78171900,+#_f0201a6b861976eaecdd9988470a7087p@chr17:78171885..78171900, +
3.99e-50FFCP PHASE2:Hg19::chr10:98014943..98014960,-#_f0201a6b861976eaecdd9988470a7087p@chr10:98014943..98014960, -
3.99e-50FFCP PHASE1:Hg19::chr1:159172187..159172197,-#_f0201a6b861976eaecdd9988470a7087p1@uc001ftm.1
3.99e-50FFCP PHASE1:Hg19::chr9:127269488..127269495,-#_f0201a6b861976eaecdd9988470a7087p5@NR5A1
3.99e-50FFCP PHASE2:Hg19::chr8:22424709..22424716,-#_f0201a6b861976eaecdd9988470a7087p2@ENST00000517384
3.99e-50FFCP PHASE2:Hg19::chr6:152639579..152639586,-#_f0201a6b861976eaecdd9988470a7087p60@SYNE1
3.99e-50FFCP PHASE1:Hg19::chr21:28820954..28820963,-#_f0201a6b861976eaecdd9988470a7087p3@ENST00000420186, p3@uc002ymh.2
3.99e-50FFCP PHASE1:Hg19::chrX:69645652..69645664,+#_f0201a6b861976eaecdd9988470a7087p7@GDPD2
3.99e-50FFCP PHASE1:Hg19::chr11:56859638..56859643,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859638..56859643, -
3.99e-50FFCP PHASE1:Hg19::chr14:75904485..75904519,+#_f0201a6b861976eaecdd9988470a7087p12@JDP2
3.99e-50FFCP PHASE1:Hg19::chr6:119812455..119812476,-#_f0201a6b861976eaecdd9988470a7087p1@uc003pyn.1
3.99e-50FFCP PHASE2:Hg19::chr9:127269434..127269438,-#_f0201a6b861976eaecdd9988470a7087p8@NR5A1
3.99e-50FFCP PHASE2:Hg19::chr21:28820911..28820933,-#_f0201a6b861976eaecdd9988470a7087p1@ENST00000420186, p1@uc002ymh.2
3.99e-50FFCP PHASE2:Hg19::chr14:75904485..75904519,+#_f0201a6b861976eaecdd9988470a7087p12@JDP2
3.99e-50FFCP PHASE2:Hg19::chr9:133973310..133973321,+#_f0201a6b861976eaecdd9988470a7087p18@AIF1L
3.99e-50FFCP PHASE2:Hg19::chr8:47834174..47834213,+#_f0201a6b861976eaecdd9988470a7087p1@ENST00000524012
3.99e-50FFCP PHASE2:Hg19::chr9:127260615..127260651,-#_f0201a6b861976eaecdd9988470a7087p@chr9:127260615..127260651, -
3.99e-50FFCP PHASE2:Hg19::chr11:56859638..56859643,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859638..56859643, -
3.99e-50FFCP PHASE2:Hg19::chr1:1064152..1064167,-#_f0201a6b861976eaecdd9988470a7087p@chr1:1064152..1064167, -
3.99e-50FFCP PHASE2:Hg19::chr8:22424743..22424759,-#_f0201a6b861976eaecdd9988470a7087p1@ENST00000517384
3.99e-50FFCP PHASE1:Hg19::chr9:124516729..124516752,+#_f0201a6b861976eaecdd9988470a7087p@chr9:124516729..124516752, +
3.99e-50FFCP PHASE2:Hg19::chr1:28520450..28520453,-#_f0201a6b861976eaecdd9988470a7087p21@PTAFR
3.99e-50FFCP PHASE1:Hg19::chr11:56859693..56859701,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859693..56859701, -
3.99e-50FFCP PHASE1:Hg19::chr15:95561320..95561328,-#_f0201a6b861976eaecdd9988470a7087p@chr15:95561320..95561328, -
3.99e-50FFCP PHASE1:Hg19::chr9:79894790..79894797,+#_f0201a6b861976eaecdd9988470a7087p10@VPS13A
3.99e-50FFCP PHASE2:Hg19::chr7:22259740..22259751,-#_f0201a6b861976eaecdd9988470a7087p19@RAPGEF5
3.99e-50FFCP PHASE1:Hg19::chr8:6594260..6594276,+#_f0201a6b861976eaecdd9988470a7087p@chr8:6594260..6594276, +
3.99e-50FFCP PHASE2:Hg19::chr9:127269462..127269484,-#_f0201a6b861976eaecdd9988470a7087p2@NR5A1
3.99e-50FFCP PHASE2:Hg19::chr1:157811772..157811796,-#_f0201a6b861976eaecdd9988470a7087p7@CD5L
3.99e-50FFCP PHASE2:Hg19::chr21:28820941..28820952,-#_f0201a6b861976eaecdd9988470a7087p2@ENST00000420186, p2@uc002ymh.2
3.99e-50FFCP PHASE1:Hg19::chr21:28820892..28820899,-#_f0201a6b861976eaecdd9988470a7087p4@ENST00000420186, p4@uc002ymh.2
3.99e-50FFCP PHASE1:Hg19::chr11:56859584..56859589,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859584..56859589, -
3.99e-50FFCP PHASE2:Hg19::chr4:76901930..76901942,+#_f0201a6b861976eaecdd9988470a7087p1@ENST00000501239
3.99e-50FFCP PHASE2:Hg19::chr11:56859693..56859701,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859693..56859701, -
3.99e-50FFCP PHASE2:Hg19::chr17:68365063..68365071,-#_f0201a6b861976eaecdd9988470a7087p@chr17:68365063..68365071, -
3.99e-50FFCP PHASE2:Hg19::chr8:22436248..22436259,+#_f0201a6b861976eaecdd9988470a7087p11@PDLIM2
3.99e-50FFCP PHASE1:Hg19::chr7:13045950..13045959,+#_f0201a6b861976eaecdd9988470a7087p@chr7:13045950..13045959, +
3.99e-50FFCP PHASE1:Hg19::chr19:32401253..32401271,-#_f0201a6b861976eaecdd9988470a7087p@chr19:32401253..32401271, -
3.99e-50FFCP PHASE2:Hg19::chr9:127269488..127269495,-#_f0201a6b861976eaecdd9988470a7087p5@NR5A1
3.99e-50FFCP PHASE1:Hg19::chr8:22424709..22424716,-#_f0201a6b861976eaecdd9988470a7087p2@ENST00000517384
3.99e-50FFCP PHASE2:Hg19::chr1:159172187..159172197,-#_f0201a6b861976eaecdd9988470a7087p1@uc001ftm.1
3.99e-50FFCP PHASE2:Hg19::chrX:69645652..69645664,+#_f0201a6b861976eaecdd9988470a7087p7@GDPD2
3.99e-50FFCP PHASE2:Hg19::chr11:56859584..56859589,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859584..56859589, -
3.99e-50FFCP PHASE1:Hg19::chr6:152639579..152639586,-#_f0201a6b861976eaecdd9988470a7087p60@SYNE1
3.99e-50FFCP PHASE2:Hg19::chr21:28820954..28820963,-#_f0201a6b861976eaecdd9988470a7087p3@ENST00000420186, p3@uc002ymh.2
3.99e-50FFCP PHASE2:Hg19::chr16:84218794..84218800,+#_f0201a6b861976eaecdd9988470a7087p@chr16:84218794..84218800, +
3.99e-50FFCP PHASE1:Hg19::chr9:127269434..127269438,-#_f0201a6b861976eaecdd9988470a7087p8@NR5A1
3.99e-50FFCP PHASE2:Hg19::chr17:78171885..78171900,+#_f0201a6b861976eaecdd9988470a7087p@chr17:78171885..78171900, +
3.99e-50FFCP PHASE2:Hg19::chr15:95561320..95561328,-#_f0201a6b861976eaecdd9988470a7087p@chr15:95561320..95561328, -
3.99e-50FFCP PHASE2:Hg19::chr6:119812455..119812476,-#_f0201a6b861976eaecdd9988470a7087p1@uc003pyn.1
3.99e-50FFCP PHASE1:Hg19::chr10:98014908..98014919,-#_f0201a6b861976eaecdd9988470a7087p@chr10:98014908..98014919, -
3.99e-50FFCP PHASE1:Hg19::chr21:28820911..28820933,-#_f0201a6b861976eaecdd9988470a7087p1@ENST00000420186, p1@uc002ymh.2
3.99e-50FFCP PHASE1:Hg19::chr11:56859603..56859606,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859603..56859606, -
3.99e-50FFCP PHASE1:Hg19::chr8:47834174..47834213,+#_f0201a6b861976eaecdd9988470a7087p1@ENST00000524012
3.99e-50FFCP PHASE1:Hg19::chr9:127260615..127260651,-#_f0201a6b861976eaecdd9988470a7087p@chr9:127260615..127260651, -
3.99e-50FFCP PHASE2:Hg19::chr11:925449..925458,+#_f0201a6b861976eaecdd9988470a7087p17@AP2A2
3.99e-50FFCP PHASE1:Hg19::chr8:22424743..22424759,-#_f0201a6b861976eaecdd9988470a7087p1@ENST00000517384
3.99e-50FFCP PHASE2:Hg19::chr9:124516729..124516752,+#_f0201a6b861976eaecdd9988470a7087p@chr9:124516729..124516752, +
3.99e-50FFCP PHASE2:Hg19::chr11:56859603..56859606,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859603..56859606, -
3.99e-50FFCP PHASE1:Hg19::chr11:1891326..1891337,-#_f0201a6b861976eaecdd9988470a7087p@chr11:1891326..1891337, -
3.99e-50FFCP PHASE1:Hg19::chr1:28520450..28520453,-#_f0201a6b861976eaecdd9988470a7087p21@PTAFR
3.99e-50FFCP PHASE1:Hg19::chr11:925449..925458,+#_f0201a6b861976eaecdd9988470a7087p17@AP2A2
3.99e-50FFCP PHASE2:Hg19::chr9:79894790..79894797,+#_f0201a6b861976eaecdd9988470a7087p10@VPS13A
3.99e-50FFCP PHASE2:Hg19::chr10:98014908..98014919,-#_f0201a6b861976eaecdd9988470a7087p@chr10:98014908..98014919, -
3.99e-50FFCP PHASE2:Hg19::chr8:6594260..6594276,+#_f0201a6b861976eaecdd9988470a7087p@chr8:6594260..6594276, +
3.99e-50FFCP PHASE1:Hg19::chr1:157811772..157811796,-#_f0201a6b861976eaecdd9988470a7087p7@CD5L
3.99e-50FFCP PHASE1:Hg19::chr7:22259740..22259751,-#_f0201a6b861976eaecdd9988470a7087p19@RAPGEF5
3.99e-50FFCP PHASE1:Hg19::chr9:127269462..127269484,-#_f0201a6b861976eaecdd9988470a7087p2@NR5A1
3.99e-50FFCP PHASE1:Hg19::chr9:133973310..133973321,+#_f0201a6b861976eaecdd9988470a7087p18@AIF1L
3.99e-50FFCP PHASE1:Hg19::chr10:98014943..98014960,-#_f0201a6b861976eaecdd9988470a7087p@chr10:98014943..98014960, -
3.99e-50FFCP PHASE1:Hg19::chr21:28820941..28820952,-#_f0201a6b861976eaecdd9988470a7087p2@ENST00000420186, p2@uc002ymh.2
3.99e-50FFCP PHASE1:Hg19::chr11:56859608..56859619,-#_f0201a6b861976eaecdd9988470a7087p@chr11:56859608..56859619, -
3.99e-50FFCP PHASE1:Hg19::chr17:68365063..68365071,-#_f0201a6b861976eaecdd9988470a7087p@chr17:68365063..68365071, -
3.99e-50FFCP PHASE1:Hg19::chr1:1064152..1064167,-#_f0201a6b861976eaecdd9988470a7087p@chr1:1064152..1064167, -
3.99e-50FFCP PHASE1:Hg19::chr4:76901930..76901942,+#_f0201a6b861976eaecdd9988470a7087p1@ENST00000501239
3.99e-50FFCP PHASE2:Hg19::chr21:28820892..28820899,-#_f0201a6b861976eaecdd9988470a7087p4@ENST00000420186, p4@uc002ymh.2
3.99e-50FFCP PHASE2:Hg19::chr11:1891326..1891337,-#_f0201a6b861976eaecdd9988470a7087p@chr11:1891326..1891337, -
5.04e-45FFCP PHASE1:Hg19::chr7:13545393..13545395,+#_9abb749188d52b7ca84139c73ea00537p@chr7:13545393..13545395, +
5.04e-45FFCP PHASE2:Hg19::chr7:13545393..13545395,+#_9abb749188d52b7ca84139c73ea00537p@chr7:13545393..13545395, +
5.86e-45FFCP PHASE1:Hg19::chr17:55185128..55185169,+#_9996019393eb97d0706c44f167a4277bp@chr17:55185128..55185169, +
5.86e-45FFCP PHASE2:Hg19::chr17:55185128..55185169,+#_9996019393eb97d0706c44f167a4277bp@chr17:55185128..55185169, +
3.37e-38FFCP PHASE1:Mm9::chr19:45224323..45224368,+#_92f22233c34457b81cf27dd43ce1d0b6p@chr19:45224323..45224368, +
3.37e-38FFCP PHASE2:Mm9::chr19:45224323..45224368,+#_92f22233c34457b81cf27dd43ce1d0b6p@chr19:45224323..45224368, +
3.37e-38FFCP PHASE1:Mm9::chr3:107019000..107019013,-#_92f22233c34457b81cf27dd43ce1d0b6p@chr3:107019000..107019013, -
3.37e-38FFCP PHASE2:Mm9::chr3:107019000..107019013,-#_92f22233c34457b81cf27dd43ce1d0b6p@chr3:107019000..107019013, -
1.02e-36FFCP PHASE2:Mm9::chr13:48758328..48758335,+#_5a49e50b5ebcca2b5116505f0fadc128p4@Barx1
1.02e-36FFCP PHASE1:Mm9::chr13:48758328..48758335,+#_5a49e50b5ebcca2b5116505f0fadc128p4@Barx1
5.31e-35FFCP PHASE2:Mm9::chr13:48758431..48758443,+#_a6fb22895eb31e14fd862073fa253b00p3@Barx1
5.31e-35FFCP PHASE1:Mm9::chr13:48758431..48758443,+#_a6fb22895eb31e14fd862073fa253b00p3@Barx1
7.22e-35FFCP PHASE2:Mm9::chr13:48758072..48758117,-#_a5c38a4c250ffffe9b874173ebba5d10p@chr13:48758072..48758117, -
7.22e-35FFCP PHASE1:Mm9::chr13:48758072..48758117,-#_a5c38a4c250ffffe9b874173ebba5d10p@chr13:48758072..48758117, -
6.5e-34FFCP PHASE1:Hg19::chr3:130267501..130267516,+#_b478abfc764aee45f3fbd2548703134bp@chr3:130267501..130267516, +
6.5e-34FFCP PHASE1:Hg19::chr22:36718586..36718593,-#_b478abfc764aee45f3fbd2548703134bp@chr22:36718586..36718593, -

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