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{{UBERON
{{UBERON
|id=UBERON:0000353
|alt_id=UBERON:BTO_0000999-FMA_45732
|name=parenchyma
|namespace=
|def="functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues. Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin[WP]." [Wikipedia:Parenchyma]
|xref=EHDAA:3015;;EHDAA:3905;;EHDAA:3999;;EHDAA:4005;;EHDAA:6899;;EHDAA:6903;;EHDAA:6994;;EHDAA:8086;;EHDAA:9182;;EHDAA:9190;;EHDAA:9196;;EHDAA:9202;;FMA:45732;;ncithesaurus:Parenchyma
|is_a=UBERON:0000064
|synonym=
|comment=
|comment=
|alt_id=UBERON:BTO_0000999-FMA_45732
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues. Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin[WP]." [Wikipedia:Parenchyma]
|subset=
|derives_from=
|derives_from=
|develops_from=
|develops_from=
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0000353
|is_a=UBERON:0000064
|is_obsolete=
|located_in=
|located_in=
|name=parenchyma
|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=
|union_of=
|xref=EHDAA:3015;;EHDAA:3905;;EHDAA:3999;;EHDAA:4005;;EHDAA:6899;;EHDAA:6903;;EHDAA:6994;;EHDAA:8086;;EHDAA:9182;;EHDAA:9190;;EHDAA:9196;;EHDAA:9202;;FMA:45732;;ncithesaurus:Parenchyma
}}
}}

Latest revision as of 17:08, 12 September 2014

Name:parenchyma
Namespace:FANTOM
Definition:"functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues. Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin[WP]." [Wikipedia:Parenchyma]
Xrefs:
links:

EHDAA:3015
EHDAA:3905
EHDAA:3999
EHDAA:4005
EHDAA:6899
EHDAA:6903
EHDAA:6994
EHDAA:8086
EHDAA:9182
EHDAA:9190
EHDAA:9196
EHDAA:9202
FMA:45732

ncithesaurus:Parenchyma
Alt_id: UBERON:BTO_0000999-FMA_45732

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:0000064(organ part)



Children

is a:UBERON:0001280 (liver parenchyma),UBERON:0008987 (renal parenchyma)

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:0000353 (parenchyma), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
3.07e-86FFCP PHASE2:Mm9::chr13:96429602..96429605,-#_986f5708225d9b91a75c567d6eeb21dap@chr13:96429602..96429605, -
3.07e-86FFCP PHASE2:Mm9::chr8:114123814..114123821,-#_986f5708225d9b91a75c567d6eeb21dap@chr8:114123814..114123821, -
3.07e-86FFCP PHASE2:Mm9::chr17:35106363..35106372,-#_986f5708225d9b91a75c567d6eeb21dap@chr17:35106363..35106372, -
3.07e-86FFCP PHASE2:Mm9::chr12:74684893..74684910,-#_986f5708225d9b91a75c567d6eeb21dap@chr12:74684893..74684910, -
3.07e-86FFCP PHASE1:Mm9::chr18:35900327..35900366,+#_986f5708225d9b91a75c567d6eeb21dap@chr18:35900327..35900366, +
3.07e-86FFCP PHASE2:Mm9::chr10:60279719..60279737,-#_986f5708225d9b91a75c567d6eeb21dap@chr10:60279719..60279737, -
3.07e-86FFCP PHASE1:Mm9::chr5:75375903..75375931,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:75375903..75375931, +
3.07e-86FFCP PHASE1:Mm9::chr16:11009028..11009039,+#_986f5708225d9b91a75c567d6eeb21dap4@Gm4262
3.07e-86FFCP PHASE2:Mm9::chr18:5125608..5125613,+#_986f5708225d9b91a75c567d6eeb21dap@chr18:5125608..5125613, +
3.07e-86FFCP PHASE2:Mm9::chr6:92938260..92938264,-#_986f5708225d9b91a75c567d6eeb21dap@chr6:92938260..92938264, -
3.07e-86FFCP PHASE2:Mm9::chr15:97402708..97402712,+#_986f5708225d9b91a75c567d6eeb21dap@chr15:97402708..97402712, +
3.07e-86FFCP PHASE2:Mm9::chr18:39297570..39297573,-#_986f5708225d9b91a75c567d6eeb21dap@chr18:39297570..39297573, -
3.07e-86FFCP PHASE1:Mm9::chr8:114123814..114123821,-#_986f5708225d9b91a75c567d6eeb21dap@chr8:114123814..114123821, -
3.07e-86FFCP PHASE2:Mm9::chr14:15179132..15179141,+#_986f5708225d9b91a75c567d6eeb21dap8@Il3ra
3.07e-86FFCP PHASE2:Mm9::chr11:54785454..54785456,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:54785454..54785456, -
3.07e-86FFCP PHASE2:Mm9::chr6:129180613..129180616,+#_986f5708225d9b91a75c567d6eeb21dap@chr6:129180613..129180616, +
3.07e-86FFCP PHASE1:Mm9::chr6:129180613..129180616,+#_986f5708225d9b91a75c567d6eeb21dap@chr6:129180613..129180616, +
3.07e-86FFCP PHASE1:Mm9::chr4:141645056..141645068,+#_986f5708225d9b91a75c567d6eeb21dap@chr4:141645056..141645068, +
3.07e-86FFCP PHASE2:Mm9::chr17:34798597..34798606,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:34798597..34798606, +
3.07e-86FFCP PHASE2:Mm9::chr5:32912678..32912687,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:32912678..32912687, +
3.07e-86FFCP PHASE1:Mm9::chr11:109223756..109223764,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:109223756..109223764, -
3.07e-86FFCP PHASE2:Mm9::chr10:93499468..93499494,-#_986f5708225d9b91a75c567d6eeb21dap@chr10:93499468..93499494, -
3.07e-86FFCP PHASE1:Mm9::chr6:48398664..48398684,-#_986f5708225d9b91a75c567d6eeb21dap@chr6:48398664..48398684, -
3.07e-86FFCP PHASE1:Mm9::chr15:88669906..88669914,+#_986f5708225d9b91a75c567d6eeb21dap@chr15:88669906..88669914, +
3.07e-86FFCP PHASE2:Mm9::chr12:8400090..8400093,+#_986f5708225d9b91a75c567d6eeb21dap@chr12:8400090..8400093, +
3.07e-86FFCP PHASE2:Mm9::chr1:173044327..173044331,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:173044327..173044331, +
3.07e-86FFCP PHASE1:Mm9::chr1:137570295..137570315,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:137570295..137570315, +
3.07e-86FFCP PHASE1:Mm9::chr18:5125608..5125613,+#_986f5708225d9b91a75c567d6eeb21dap@chr18:5125608..5125613, +
3.07e-86FFCP PHASE1:Mm9::chr10:93819538..93819549,+#_986f5708225d9b91a75c567d6eeb21dap@chr10:93819538..93819549, +
3.07e-86FFCP PHASE2:Mm9::chr7:109031260..109031268,+#_986f5708225d9b91a75c567d6eeb21dap@chr7:109031260..109031268, +
3.07e-86FFCP PHASE2:Mm9::chr18:65159026..65159034,-#_986f5708225d9b91a75c567d6eeb21dap@chr18:65159026..65159034, -
3.07e-86FFCP PHASE2:Mm9::chr9:42915101..42915106,-#_986f5708225d9b91a75c567d6eeb21dap@chr9:42915101..42915106, -
3.07e-86FFCP PHASE1:Mm9::chr17:35106363..35106372,-#_986f5708225d9b91a75c567d6eeb21dap@chr17:35106363..35106372, -
3.07e-86FFCP PHASE2:Mm9::chr13:113543694..113543702,-#_986f5708225d9b91a75c567d6eeb21dap@chr13:113543694..113543702, -
3.07e-86FFCP PHASE1:Mm9::chr2:169549462..169549477,+#_986f5708225d9b91a75c567d6eeb21dap@chr2:169549462..169549477, +
3.07e-86FFCP PHASE1:Mm9::chr17:67870501..67870507,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:67870501..67870507, +
3.07e-86FFCP PHASE1:Mm9::chr12:81955014..81955018,+#_986f5708225d9b91a75c567d6eeb21dap@chr12:81955014..81955018, +
3.07e-86FFCP PHASE1:Mm9::chr9:116223548..116223551,+#_986f5708225d9b91a75c567d6eeb21dap@chr9:116223548..116223551, +
3.07e-86FFCP PHASE2:Mm9::chr8:114250006..114250039,-#_986f5708225d9b91a75c567d6eeb21dap@chr8:114250006..114250039, -
3.07e-86FFCP PHASE1:Mm9::chr11:119254092..119254100,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:119254092..119254100, -
3.07e-86FFCP PHASE1:Mm9::chr10:85586219..85586227,+#_986f5708225d9b91a75c567d6eeb21dap@chr10:85586219..85586227, +
3.07e-86FFCP PHASE2:Mm9::chr10:8586393..8586401,+#_986f5708225d9b91a75c567d6eeb21dap@chr10:8586393..8586401, +
3.07e-86FFCP PHASE1:Mm9::chr17:34798555..34798562,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:34798555..34798562, +
3.07e-86FFCP PHASE1:Mm9::chr7:118133901..118133904,-#_986f5708225d9b91a75c567d6eeb21dap@chr7:118133901..118133904, -
3.07e-86FFCP PHASE1:Mm9::chr4:43407825..43407830,+#_986f5708225d9b91a75c567d6eeb21dap@chr4:43407825..43407830, +
3.07e-86FFCP PHASE2:Mm9::chr17:35094068..35094092,-#_986f5708225d9b91a75c567d6eeb21dap@chr17:35094068..35094092, -
3.07e-86FFCP PHASE1:Mm9::chr11:117737077..117737096,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:117737077..117737096, -
3.07e-86FFCP PHASE2:Mm9::chr7:87919399..87919406,+#_986f5708225d9b91a75c567d6eeb21dap@chr7:87919399..87919406, +
3.07e-86FFCP PHASE2:Mm9::chr14:101778294..101778296,+#_986f5708225d9b91a75c567d6eeb21dap@chr14:101778294..101778296, +
3.07e-86FFCP PHASE2:Mm9::chr9:62199266..62199267,+#_986f5708225d9b91a75c567d6eeb21dap@chr9:62199266..62199267, +
3.07e-86FFCP PHASE2:Mm9::chr10:85586219..85586227,+#_986f5708225d9b91a75c567d6eeb21dap@chr10:85586219..85586227, +
3.07e-86FFCP PHASE2:Mm9::chr3:9705000..9705004,-#_986f5708225d9b91a75c567d6eeb21dap4@Pag1
3.07e-86FFCP PHASE2:Mm9::chr5:124112234..124112240,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:124112234..124112240, +
3.07e-86FFCP PHASE2:Mm9::chr15:90508949..90508955,-#_986f5708225d9b91a75c567d6eeb21dap@chr15:90508949..90508955, -
3.07e-86FFCP PHASE2:Mm9::chr17:67870501..67870507,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:67870501..67870507, +
3.07e-86FFCP PHASE2:Mm9::chr8:87745380..87745385,+#_986f5708225d9b91a75c567d6eeb21dap@chr8:87745380..87745385, +
3.07e-86FFCP PHASE2:Mm9::chr11:117829935..117829959,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:117829935..117829959, -
3.07e-86FFCP PHASE2:Mm9::chr10:93942324..93942342,-#_986f5708225d9b91a75c567d6eeb21dap@chr10:93942324..93942342, -
3.07e-86FFCP PHASE2:Mm9::chr7:118133901..118133904,-#_986f5708225d9b91a75c567d6eeb21dap@chr7:118133901..118133904, -
3.07e-86FFCP PHASE1:Mm9::chr7:109031260..109031268,+#_986f5708225d9b91a75c567d6eeb21dap@chr7:109031260..109031268, +
3.07e-86FFCP PHASE1:Mm9::chr17:35945332..35945335,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:35945332..35945335, +
3.07e-86FFCP PHASE1:Mm9::chr19:29573929..29573932,+#_986f5708225d9b91a75c567d6eeb21dap@chr19:29573929..29573932, +
3.07e-86FFCP PHASE2:Mm9::chr5:76329688..76329692,-#_986f5708225d9b91a75c567d6eeb21dap@chr5:76329688..76329692, -
3.07e-86FFCP PHASE1:Mm9::chr12:85288471..85288502,+#_986f5708225d9b91a75c567d6eeb21dap@chr12:85288471..85288502, +
3.07e-86FFCP PHASE2:Mm9::chr7:117101788..117101793,+#_986f5708225d9b91a75c567d6eeb21dap@chr7:117101788..117101793, +
3.07e-86FFCP PHASE1:Mm9::chr5:32912678..32912687,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:32912678..32912687, +
3.07e-86FFCP PHASE2:Mm9::chr10:21389022..21389032,+#_986f5708225d9b91a75c567d6eeb21dap@chr10:21389022..21389032, +
3.07e-86FFCP PHASE1:Mm9::chr8:25530071..25530072,+#_986f5708225d9b91a75c567d6eeb21dap@chr8:25530071..25530072, +
3.07e-86FFCP PHASE1:Mm9::chr4:100890388..100890423,+#_986f5708225d9b91a75c567d6eeb21dap@chr4:100890388..100890423, +
3.07e-86FFCP PHASE1:Mm9::chr9:42915185..42915192,-#_986f5708225d9b91a75c567d6eeb21dap@chr9:42915185..42915192, -
3.07e-86FFCP PHASE1:Mm9::chr6:91441074..91441080,-#_986f5708225d9b91a75c567d6eeb21dap@chr6:91441074..91441080, -
3.07e-86FFCP PHASE2:Mm9::chr1:163794592..163794593,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:163794592..163794593, +
3.07e-86FFCP PHASE1:Mm9::chr17:35094068..35094092,-#_986f5708225d9b91a75c567d6eeb21dap@chr17:35094068..35094092, -
3.07e-86FFCP PHASE2:Mm9::chr4:100890388..100890423,+#_986f5708225d9b91a75c567d6eeb21dap@chr4:100890388..100890423, +
3.07e-86FFCP PHASE2:Mm9::chr12:86691503..86691504,-#_986f5708225d9b91a75c567d6eeb21dap@chr12:86691503..86691504, -
3.07e-86FFCP PHASE2:Mm9::chr5:75375903..75375931,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:75375903..75375931, +
3.07e-86FFCP PHASE2:Mm9::chr17:35106749..35106752,-#_986f5708225d9b91a75c567d6eeb21dap@chr17:35106749..35106752, -
3.07e-86FFCP PHASE1:Mm9::chr1:132405466..132405470,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:132405466..132405470, +
3.07e-86FFCP PHASE1:Mm9::chr14:101778294..101778296,+#_986f5708225d9b91a75c567d6eeb21dap@chr14:101778294..101778296, +
3.07e-86FFCP PHASE1:Mm9::chr12:87046930..87046933,+#_986f5708225d9b91a75c567d6eeb21dap@chr12:87046930..87046933, +
3.07e-86FFCP PHASE1:Mm9::chr5:76329688..76329692,-#_986f5708225d9b91a75c567d6eeb21dap@chr5:76329688..76329692, -
3.07e-86FFCP PHASE2:Mm9::chr6:15678147..15678149,-#_986f5708225d9b91a75c567d6eeb21dap@chr6:15678147..15678149, -
3.07e-86FFCP PHASE1:Mm9::chr13:113554186..113554192,+#_986f5708225d9b91a75c567d6eeb21dap@chr13:113554186..113554192, +
3.07e-86FFCP PHASE2:Mm9::chr18:60398371..60398393,-#_986f5708225d9b91a75c567d6eeb21dap@chr18:60398371..60398393, -
3.07e-86FFCP PHASE2:Mm9::chr17:35093377..35093381,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:35093377..35093381, +
3.07e-86FFCP PHASE1:Mm9::chr13:5840965..5840966,+#_986f5708225d9b91a75c567d6eeb21dap@chr13:5840965..5840966, +
3.07e-86FFCP PHASE1:Mm9::chr8:114250006..114250039,-#_986f5708225d9b91a75c567d6eeb21dap@chr8:114250006..114250039, -
3.07e-86FFCP PHASE1:Mm9::chr4:57687477..57687488,+#_986f5708225d9b91a75c567d6eeb21dap@chr4:57687477..57687488, +
3.07e-86FFCP PHASE1:Mm9::chr15:97402708..97402712,+#_986f5708225d9b91a75c567d6eeb21dap@chr15:97402708..97402712, +
3.07e-86FFCP PHASE1:Mm9::chr1:163794592..163794593,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:163794592..163794593, +
3.07e-86FFCP PHASE2:Mm9::chr17:35945332..35945335,+#_986f5708225d9b91a75c567d6eeb21dap@chr17:35945332..35945335, +
3.07e-86FFCP PHASE1:Mm9::chr18:65159026..65159034,-#_986f5708225d9b91a75c567d6eeb21dap@chr18:65159026..65159034, -
3.07e-86FFCP PHASE2:Mm9::chr9:116223548..116223551,+#_986f5708225d9b91a75c567d6eeb21dap@chr9:116223548..116223551, +
3.07e-86FFCP PHASE1:Mm9::chr9:62199266..62199267,+#_986f5708225d9b91a75c567d6eeb21dap@chr9:62199266..62199267, +
3.07e-86FFCP PHASE1:Mm9::chr7:117101788..117101793,+#_986f5708225d9b91a75c567d6eeb21dap@chr7:117101788..117101793, +
3.07e-86FFCP PHASE2:Mm9::chr13:113053257..113053258,+#_986f5708225d9b91a75c567d6eeb21dap@chr13:113053257..113053258, +
3.07e-86FFCP PHASE1:Mm9::chr1:186559285..186559288,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:186559285..186559288, +
3.07e-86FFCP PHASE2:Mm9::chr1:137570295..137570315,+#_986f5708225d9b91a75c567d6eeb21dap@chr1:137570295..137570315, +
3.07e-86FFCP PHASE2:Mm9::chr5:33088768..33088773,+#_986f5708225d9b91a75c567d6eeb21dap@chr5:33088768..33088773, +
3.07e-86FFCP PHASE1:Mm9::chr11:109223779..109223789,-#_986f5708225d9b91a75c567d6eeb21dap@chr11:109223779..109223789, -

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