Personal tools

UBERON:0000926: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{UBERON
{{UBERON
|id=UBERON:0000926
|alt_id=UBERON:0003263;;UBERON:FBbt_00000126-FMA_69072-MIAA_0000174-XAO_0000050-ZFA_0000041
|name=mesoderm
|namespace=
|def="The middle germ layer of the embryo, between the endoderm and ectoderm." [Wikipedia:Mesoderm]
|xref=AAO:0000304;;BILA:0000037;;BTO:0000839;;EFO:0001981;;EHDAA2:0001128;;EHDAA:124;;EHDAA:160;;EHDAA:168;;EHDAA:183;;EMAPA:16083;;EV:0100006;;FBbt:00000126;;FMA:69072;;GAID:522;;http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png;;http://upload.wikimedia.org/wikipedia/commons/thumb/e/e8/Mesoderm.png/200px-Mesoderm.png;;MAT:0000174;;MESH:A.16.254.425.660;;MIAA:0000174;;ncithesaurus:Mesoderm;;SCTID:362854004;;TAO:0000041;;VHOG:0000152;;XAO:0000050;;ZFA:0000041
|is_a=UBERON:0000923
|synonym="entire mesoderm" RELATED [SCTID:362854004, UBERON:cjm];;"mesodermal mantle" RELATED []
|comment=Taxon notes: sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates[UBERONREF:0000002]
|comment=Taxon notes: sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates[UBERONREF:0000002]
|alt_id=UBERON:0003263;;UBERON:FBbt_00000126-FMA_69072-MIAA_0000174-XAO_0000050-ZFA_0000041
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="The middle germ layer of the embryo, between the endoderm and ectoderm." [Wikipedia:Mesoderm]
|subset=uberon_slim;;vertebrate_core
|derives_from=
|derives_from=
|develops_from=UBERON:0006603
|develops_from=UBERON:0006603
|disjoint_from=
|has_quality=
|has_quality=
|id=UBERON:0000926
|is_a=UBERON:0000923
|is_obsolete=
|located_in=
|located_in=
|name=mesoderm
|namespace=
|obo_creation_date=
|part_of=
|part_of=
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl;;RO:0002161 NCBITaxon:6040;;UBPROP:0000001 "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/uberon.owl;;RO:0002161 NCBITaxon:6040;;UBPROP:0000001 "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string
|is_obsolete=
|subset=uberon_slim;;vertebrate_core
|preceded_by=
|synonym="entire mesoderm" RELATED [SCTID:362854004, UBERON:cjm];;"mesodermal mantle" RELATED []
|union_of=
|xref=AAO:0000304;;BILA:0000037;;BTO:0000839;;EFO:0001981;;EHDAA2:0001128;;EHDAA:124;;EHDAA:160;;EHDAA:168;;EHDAA:183;;EMAPA:16083;;EV:0100006;;FBbt:00000126;;FMA:69072;;GAID:522;;http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png;;http://upload.wikimedia.org/wikipedia/commons/thumb/e/e8/Mesoderm.png/200px-Mesoderm.png;;MAT:0000174;;MESH:A.16.254.425.660;;MIAA:0000174;;ncithesaurus:Mesoderm;;SCTID:362854004;;TAO:0000041;;VHOG:0000152;;XAO:0000050;;ZFA:0000041
}}
}}

Revision as of 10:56, 12 September 2014

Name:mesoderm
Definition:"The middle germ layer of the embryo, between the endoderm and ectoderm." [Wikipedia:Mesoderm]
Xrefs:
links:

AAO:0000304
BILA:0000037
BTO:0000839
EFO:0001981
EHDAA2:0001128
EHDAA:124
EHDAA:160
EHDAA:168
EHDAA:183
EMAPA:16083
EV:0100006
FBbt:00000126
FMA:69072
GAID:522
[ Mesoderm.png Mesoderm.png]
[ 200px-Mesoderm.png 200px-Mesoderm.png]
MAT:0000174
MESH:A.16.254.425.660
MIAA:0000174
ncithesaurus:Mesoderm
SCTID:362854004
TAO:0000041
VHOG:0000152
XAO:0000050

ZFA:0000041
Synonyms: "entire mesoderm" RELATED [SCTID:362854004, UBERON:cjm]
"mesodermal mantle" RELATED []
Comments:Taxon notes: sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[1]. Mesoderm may not be homologous across verteberates[UBERONREF:0000002]
Alt_id: UBERON:0003263
UBERON:FBbt_00000126-FMA_69072-MIAA_0000174-XAO_0000050-ZFA_0000041
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:0000923(germ layer)
develops_from:UBERON:0006603(presumptive mesoderm)



Children

is a:UBERON:0005721 (pronephric mesoderm)
derives from:FF:0200026 (mouse mesoderm, embryonic day 8.5 sample)
develops from:UBERON:0000042 (serous membrane),UBERON:0000077 (mixed endoderm/mesoderm-derived structure),UBERON:0000078 (mixed ectoderm/mesoderm/endoderm-derived structure),UBERON:0000990 (reproductive system),UBERON:0001136 (mesothelium),UBERON:0001235 (adrenal cortex),UBERON:0001986 (endothelium),UBERON:0002072 (hypodermis),UBERON:0002358 (peritoneum),UBERON:0002385 (muscle tissue),UBERON:0003064 (intermediate mesoderm),UBERON:0003068 (axial mesoderm),UBERON:0003081 (lateral plate mesoderm),UBERON:0004120 (mesoderm-derived structure),UBERON:0006904 (head mesenchyme from mesoderm),UBERON:0009617 (head paraxial mesoderm),UBERON:0009618 (trunk paraxial mesoderm),UBERON:0012275 (meso-epithelium)
part of:CL:0000222 (mesodermal cell),UBERON:0003064 (intermediate mesoderm),UBERON:0003068 (axial mesoderm),UBERON:0003077 (paraxial mesoderm),UBERON:0003081 (lateral plate mesoderm),UBERON:0003082 (myotome),UBERON:0004016 (dermatome),UBERON:0004290 (dermomyotome),UBERON:0007285 (presumptive paraxial mesoderm)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>It includes FANTOM5 samples that overlay the Uberon ontology

Mouse (Mus musculus)


Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0000926 (mesoderm), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
6.38e-40FFCP PHASE2:Hg19::chrX:153637534..153637567,-#_ef840cec790a7a3714ebf8810e09dd8ap1@DNASE1L1
6.38e-40FFCP PHASE1:Hg19::chrX:153637534..153637567,-#_ef840cec790a7a3714ebf8810e09dd8ap1@DNASE1L1
6.15e-39FFCP PHASE2:Hg19::chr1:228270784..228270847,+#_6c13f00b64ddc6c31fe4632305b109f9p2@ARF1
6.15e-39FFCP PHASE1:Hg19::chr1:228270784..228270847,+#_6c13f00b64ddc6c31fe4632305b109f9p2@ARF1
9.61e-38FFCP PHASE2:Hg19::chr12:54812992..54813035,-#_220a11004d78d2fc2c33d36af42b9a61p1@ITGA5
9.61e-38FFCP PHASE1:Hg19::chr12:54812992..54813035,-#_220a11004d78d2fc2c33d36af42b9a61p1@ITGA5
1.56e-36FFCP PHASE2:Hg19::chr7:143078379..143078454,+#_bc25188a6e6b60c0373d19a0103a2306p1@ZYX
1.56e-36FFCP PHASE1:Hg19::chr7:143078379..143078454,+#_bc25188a6e6b60c0373d19a0103a2306p1@ZYX
2.82e-36FFCP PHASE2:Hg19::chr4:103747936..103747993,-#_102549c8bf1fa933fd4ba975dffeca4cp6@UBE2D3
2.82e-36FFCP PHASE1:Hg19::chr4:103747936..103747993,-#_102549c8bf1fa933fd4ba975dffeca4cp6@UBE2D3
5.32e-36FFCP PHASE1:Hg19::chr15:90358115..90358195,-#_f3b10efc769a32e8d79b1784ca462011p3@ANPEP
5.32e-36FFCP PHASE2:Hg19::chr15:90358115..90358195,-#_f3b10efc769a32e8d79b1784ca462011p3@ANPEP
8.45e-36FFCP PHASE1:Hg19::chr5:180229791..180229829,-#_d7f248739dcba6ec1f4cad2b2606733bp1@MGAT1
8.45e-36FFCP PHASE2:Hg19::chr5:180229791..180229829,-#_d7f248739dcba6ec1f4cad2b2606733bp1@MGAT1
1.6e-35FFCP PHASE2:Hg19::chr11:504446..504486,-#_fdbc7c00e226a25c64a28dad997cb2cap4@RNH1
1.6e-35FFCP PHASE1:Hg19::chr11:504446..504486,-#_fdbc7c00e226a25c64a28dad997cb2cap4@RNH1
2.85e-35FFCP PHASE2:Hg19::chr19:44174330..44174355,-#_9ef84cbd9b0d0b16223a42f380498b7ep2@PLAUR
2.85e-35FFCP PHASE1:Hg19::chr19:44174330..44174355,-#_9ef84cbd9b0d0b16223a42f380498b7ep2@PLAUR
3.37e-35FFCP PHASE1:Hg19::chr1:21616690..21616719,-#_902e9d06d5508c464ae4ec9549320d84p4@ECE1
3.37e-35FFCP PHASE2:Hg19::chr1:21616690..21616719,-#_902e9d06d5508c464ae4ec9549320d84p4@ECE1
5.03e-35FFCP PHASE1:Hg19::chr7:143079458..143079487,+#_2352b848aae5ed0261fe54b912196d14p4@ZYX
5.03e-35FFCP PHASE2:Hg19::chr7:143079458..143079487,+#_2352b848aae5ed0261fe54b912196d14p4@ZYX
1.17e-34FFCP PHASE1:Hg19::chr4:15704679..15704733,+#_705cd95c97795ba13103f06d938f84b3p1@BST1
1.17e-34FFCP PHASE2:Hg19::chr4:15704679..15704733,+#_705cd95c97795ba13103f06d938f84b3p1@BST1
1.75e-34FFCP PHASE2:Hg19::chrX:153637522..153637533,-#_5848209969245f1b446438bb574fd3e5p4@DNASE1L1
1.75e-34FFCP PHASE1:Hg19::chrX:153637522..153637533,-#_5848209969245f1b446438bb574fd3e5p4@DNASE1L1
1.89e-34FFCP PHASE1:Hg19::chr19:50015870..50015934,+#_3bfa8521e47c0bfacc3109b78f3114bbp2@FCGRT
1.89e-34FFCP PHASE2:Hg19::chr19:50015870..50015934,+#_3bfa8521e47c0bfacc3109b78f3114bbp2@FCGRT
2.1e-34FFCP PHASE1:Hg19::chr12:54813229..54813273,-#_e08a5b61753d71f83631ed75e2cbda8cp3@ITGA5
2.1e-34FFCP PHASE2:Hg19::chr12:54813229..54813273,-#_e08a5b61753d71f83631ed75e2cbda8cp3@ITGA5
4.33e-34FFCP PHASE1:Hg19::chr19:44174310..44174329,-#_fa5b0ab59b853e16f8cb8adbca538512p1@PLAUR
4.33e-34FFCP PHASE2:Hg19::chr19:44174310..44174329,-#_fa5b0ab59b853e16f8cb8adbca538512p1@PLAUR
7.52e-34FFCP PHASE2:Hg19::chr1:221052776..221052799,+#_a1446ba40352037a24d48cc7f7ef9d91p1@HLX
7.52e-34FFCP PHASE1:Hg19::chr1:221052776..221052799,+#_a1446ba40352037a24d48cc7f7ef9d91p1@HLX
8.49e-34FFCP PHASE2:Hg19::chr4:159093517..159093533,-#_8c85a728f89a11fd03bba24f3341e4cfp1@FAM198B
8.49e-34FFCP PHASE1:Hg19::chr4:159093517..159093533,-#_8c85a728f89a11fd03bba24f3341e4cfp1@FAM198B
3.78e-33FFCP PHASE1:Hg19::chr15:90358048..90358103,-#_0511f154ba60356ec188990130384b07p1@ANPEP
3.78e-33FFCP PHASE2:Hg19::chr15:90358048..90358103,-#_0511f154ba60356ec188990130384b07p1@ANPEP
3.32e-32FFCP PHASE2:Hg19::chr7:97911007..97911027,+#_26435938e3239e70d376d510cef8423ap3@BRI3
3.32e-32FFCP PHASE1:Hg19::chr7:97911007..97911027,+#_26435938e3239e70d376d510cef8423ap3@BRI3
5.72e-32FFCP PHASE1:Hg19::chr7:97910981..97911006,+#_100faa4865664d5161f520a0008f41e6p1@BRI3
5.72e-32FFCP PHASE2:Hg19::chr7:97910981..97911006,+#_100faa4865664d5161f520a0008f41e6p1@BRI3
5.73e-32FFCP PHASE2:Hg19::chr19:54371114..54371180,+#_d61cfb42500136991ccc245a081f2934p1@MYADM
5.73e-32FFCP PHASE1:Hg19::chr19:54371114..54371180,+#_d61cfb42500136991ccc245a081f2934p1@MYADM
7.25e-32FFCP PHASE2:Hg19::chr4:103747996..103748022,-#_90041e8a0ad2a882952d5083ea20fc85p4@UBE2D3
7.25e-32FFCP PHASE1:Hg19::chr4:103747996..103748022,-#_90041e8a0ad2a882952d5083ea20fc85p4@UBE2D3
7.82e-32FFCP PHASE1:Hg19::chr19:50015936..50015981,+#_cd91040758a5d2574d519cedd378f5e2p3@FCGRT
7.82e-32FFCP PHASE2:Hg19::chr19:50015936..50015981,+#_cd91040758a5d2574d519cedd378f5e2p3@FCGRT
8.33e-32FFCP PHASE2:Hg19::chr8:134584101..134584143,-#_fab013e5644acfadca752ea3bd0b898cp2@ST3GAL1
8.33e-32FFCP PHASE1:Hg19::chr8:134584101..134584143,-#_fab013e5644acfadca752ea3bd0b898cp2@ST3GAL1
1.49e-31FFCP PHASE1:Hg19::chr7:143078652..143078754,+#_80f55d84fa4d989503b80ebdc41c0e34p2@ZYX
1.49e-31FFCP PHASE2:Hg19::chr7:143078652..143078754,+#_80f55d84fa4d989503b80ebdc41c0e34p2@ZYX
2.42e-31FFCP PHASE1:Hg19::chr1:17944856..17944906,+#_d7151b05a4f1b1319895e485cabb2488p3@ARHGEF10L
2.42e-31FFCP PHASE2:Hg19::chr1:17944856..17944906,+#_d7151b05a4f1b1319895e485cabb2488p3@ARHGEF10L
2.88e-31FFCP PHASE1:Hg19::chr12:65153154..65153171,-#_6039359dceb2a7b1f40413f4ecdd75a2p2@GNS
2.88e-31FFCP PHASE2:Hg19::chr12:65153154..65153171,-#_6039359dceb2a7b1f40413f4ecdd75a2p2@GNS
8.04e-31FFCP PHASE2:Hg19::chr1:221053049..221053075,+#_ff7735fc58cd4e6d179c18ea5b02a783p3@HLX
8.04e-31FFCP PHASE1:Hg19::chr1:221053049..221053075,+#_ff7735fc58cd4e6d179c18ea5b02a783p3@HLX
8.77e-31FFCP PHASE2:Hg19::chr1:87170448..87170539,+#_6d84a4359abfd89df11fcd7bdb822c12p1@SH3GLB1
8.77e-31FFCP PHASE1:Hg19::chr1:87170448..87170539,+#_6d84a4359abfd89df11fcd7bdb822c12p1@SH3GLB1
9.41e-31FFCP PHASE1:Hg19::chr10:104403641..104403699,+#_f23d32b302a4971dcdd71b7d02eb07d5p@chr10:104403641..104403699, +
9.41e-31FFCP PHASE2:Hg19::chr10:104403641..104403699,+#_f23d32b302a4971dcdd71b7d02eb07d5p@chr10:104403641..104403699, +
9.71e-31FFCP PHASE2:Hg19::chr4:80994210..80994284,-#_c2af42866f36622f2a099a2888441e60p2@ANTXR2
9.71e-31FFCP PHASE1:Hg19::chr4:80994210..80994284,-#_c2af42866f36622f2a099a2888441e60p2@ANTXR2
9.83e-31FFCP PHASE2:Hg19::chr4:122618095..122618161,-#_016568157f0bdad1fa07b37c8b31fb49p1@ANXA5
9.83e-31FFCP PHASE1:Hg19::chr4:122618095..122618161,-#_016568157f0bdad1fa07b37c8b31fb49p1@ANXA5
1.49e-30FFCP PHASE1:Hg19::chr9:130616952..130616973,-#_b7a543cd39b1db02aaf4b5fd1c35f5b5p3@ENG
1.49e-30FFCP PHASE2:Hg19::chr9:130616952..130616973,-#_b7a543cd39b1db02aaf4b5fd1c35f5b5p3@ENG
1.87e-30FFCP PHASE1:Hg19::chr1:20987936..20987969,-#_e35b513ee7cd2296a23b3aa521c3fb62p2@DDOST
1.87e-30FFCP PHASE2:Hg19::chr1:20987936..20987969,-#_e35b513ee7cd2296a23b3aa521c3fb62p2@DDOST
3.28e-30FFCP PHASE2:Hg19::chrX:46433193..46433237,+#_3864dfe743d7e7088fe5ea47c54c2b66p1@CHST7
3.28e-30FFCP PHASE1:Hg19::chrX:46433193..46433237,+#_3864dfe743d7e7088fe5ea47c54c2b66p1@CHST7
3.51e-30FFCP PHASE1:Hg19::chr17:81037473..81037498,+#_ec3e97853942bad3cced97866597fb57p1@METRNL
3.51e-30FFCP PHASE2:Hg19::chr17:81037473..81037498,+#_ec3e97853942bad3cced97866597fb57p1@METRNL
3.8e-30FFCP PHASE1:Hg19::chr6:146864960..146864999,+#_b453996d2df6bbb53234ed380bd561bbp1@RAB32
3.8e-30FFCP PHASE2:Hg19::chr6:146864960..146864999,+#_b453996d2df6bbb53234ed380bd561bbp1@RAB32
5.98e-30FFCP PHASE1:Hg19::chr3:50273625..50273655,+#_8e06489cf03982f4df517860e79d8c00p1@GNAI2
5.98e-30FFCP PHASE2:Hg19::chr3:50273625..50273655,+#_8e06489cf03982f4df517860e79d8c00p1@GNAI2
6.52e-30FFCP PHASE1:Hg19::chr7:143077956..143078096,-#_963879b71e8c7e9cb80b02b9999713e3p1@ENST00000429630
6.52e-30FFCP PHASE2:Hg19::chr7:143077956..143078096,-#_963879b71e8c7e9cb80b02b9999713e3p1@ENST00000429630
7.62e-30FFCP PHASE2:Hg19::chr9:35732119..35732199,-#_972538a1a3f36d9b23cae1dfce250b06p1@TLN1
7.62e-30FFCP PHASE1:Hg19::chr9:35732119..35732199,-#_972538a1a3f36d9b23cae1dfce250b06p1@TLN1
9.35e-30FFCP PHASE1:Hg19::chr5:114938090..114938226,-#_4aabd60a6a325b6f9d59e5e8f1120629p1@TICAM2, p2@TMED7-TICAM2
9.35e-30FFCP PHASE2:Hg19::chr5:114938090..114938226,-#_4aabd60a6a325b6f9d59e5e8f1120629p1@TICAM2, p2@TMED7-TICAM2
1.51e-29FFCP PHASE1:Hg19::chr1:59762730..59762773,+#_cd8c85a2db32daafd75499928599070fp1@FGGY
1.51e-29FFCP PHASE2:Hg19::chr1:59762730..59762773,+#_cd8c85a2db32daafd75499928599070fp1@FGGY
1.57e-29FFCP PHASE2:Hg19::chr11:67120956..67120972,-#_6b4ce1c12cd94cdbe93f18c7a3ef0f4dp2@POLD4
1.57e-29FFCP PHASE1:Hg19::chr11:67120956..67120972,-#_6b4ce1c12cd94cdbe93f18c7a3ef0f4dp2@POLD4
1.96e-29FFCP PHASE1:Hg19::chr11:504867..504925,-#_a7db9716dd0988b362c9702063a72b24p3@RNH1
1.96e-29FFCP PHASE2:Hg19::chr11:504867..504925,-#_a7db9716dd0988b362c9702063a72b24p3@RNH1
3.49e-29FFCP PHASE1:Hg19::chr4:159092525..159092574,-#_2ce8cf32429c5fc912b829bfe47ec407p4@FAM198B
3.49e-29FFCP PHASE2:Hg19::chr4:159092525..159092574,-#_2ce8cf32429c5fc912b829bfe47ec407p4@FAM198B
5.21e-29FFCP PHASE2:Hg19::chr3:148709310..148709337,+#_f08f810aec085ad6fe464433a8630549p1@GYG1
5.21e-29FFCP PHASE1:Hg19::chr3:148709310..148709337,+#_f08f810aec085ad6fe464433a8630549p1@GYG1
6.23e-29FFCP PHASE1:Hg19::chr8:146078927..146078951,-#_91cf648a38ab4db34710588de59827ccp4@COMMD5
6.23e-29FFCP PHASE2:Hg19::chr8:146078927..146078951,-#_91cf648a38ab4db34710588de59827ccp4@COMMD5
7.59e-29FFCP PHASE2:Hg19::chr4:10118348..10118395,-#_37e2a6f50ca407a63a9601f89740b2a5p1@WDR1
7.59e-29FFCP PHASE1:Hg19::chr4:10118348..10118395,-#_37e2a6f50ca407a63a9601f89740b2a5p1@WDR1
8.57e-29FFCP PHASE1:Hg19::chr12:53694132..53694153,-#_a18b8dec27dce98f5093bf2092377fd8p1@ENST00000550263
8.57e-29FFCP PHASE2:Hg19::chr12:53694132..53694153,-#_a18b8dec27dce98f5093bf2092377fd8p1@ENST00000550263










Property "Property value" (as page type) with input value "UBPROP:0000001 "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=UBERON:0000926&oldid=3273819"