Personal tools

UBERON:0002328

From FANTOM5_SSTAR

Jump to: navigation, search

Name:notochord
Namespace:FANTOM
Definition:"Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue[VSAO]. The notochord is an elongate, rod-like, skeletal structure dorsal to the gut tube and ventral to the nerve cord. The notochord should not be confused with the backbone or vertebral column of most adult vertebrates. The notochord appears early in embryogeny and plays an important role in promoting or organizing the embryonic development of nearby structures. In most adult chordates the notochord disappears or becomes highly modified. In some non-vertebrate chordates and fishes the notochord persists as a laterally flexible but incompressible skeletal rod that prevents telescopic collapse of the body during swimming[TOLWEB]." https://github.com/cmungall/uberon/issues/25, ISBN:0815318960, NLM:notochord, VSAO:0000032, Wikipedia:Notochord, ZFIN:curator
Xrefs:
links:

AAO:0000327
BTO:0001768
EHDAA2:0001277
EHDAA:1241
EHDAA:6021
EMAPA:16191
EV:0100002
FMA:85521
GAID:1311
[ Gray19_with_color.png Gray19_with_color.png]
[ 200px-Gray19_with_color.png 200px-Gray19_with_color.png]
MAT:0000281
MESH:A.16.254.610
ncithesaurus:Notochord
SCTID:308820002
TAO:0000135
VHOG:0000199
VSAO:0000032
XAO:0000055

ZFA:0000135
Synonyms: "embryonic notocord" EXACT []
"notochorda" RELATED LATIN [Wikipedia:Notochord]
"notocord" EXACT [ZFA:0000135]
Comments:Development notes: In between vertebra the notochord becomes the nucleus pulposus, under it degenerates, and at anterior end in some species its tissue merges with some of the cranial bones.. Some organisms retain a post-embryonic notochord
Alt_id: UBERON:FMA_85521-XAO_0000055-ZFA_0000135
Subset: uberon_slim
vertebrate_core

Ontology association
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.

link to ontology dataset
data


Parents

is_a:UBERON:0000481(multi-tissue structure),UBERON:0004120(mesoderm-derived structure),UBERON:0004121(ectoderm-derived structure)
develops_from:UBERON:0004880(chordamesoderm),UBERON:0006267(notochordal plate)
part_of:UBERON:0011137(axial skeletal system)



Children

develops from:UBERON:0002242 (nucleus pulposus)

Ontology Tree: Loaded from BioPortal


FF samples
It includes FANTOM5 samples that overlay the Uberon ontology




Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0002328 (notochord), sorted by p-values
Analyst: Hideya Kawaji

link to source dataset
human : data
mouse : data


P-valueFFCPShort description
8.26e-98FFCP PHASE1:Hg19::chr3:174737010..174737023,+#_8a3240178a0d3906890ccc27ea164d27p@chr3:174737010..174737023, +
8.26e-98FFCP PHASE2:Hg19::chr3:174737010..174737023,+#_8a3240178a0d3906890ccc27ea164d27p@chr3:174737010..174737023, +
3.03e-84FFCP PHASE1:Hg19::chr20:21687193..21687206,+#_00b47d821e1a6dc7e783a7b2add9e886p4@PAX1
3.03e-84FFCP PHASE2:Hg19::chr20:21687193..21687206,+#_00b47d821e1a6dc7e783a7b2add9e886p4@PAX1
2.39e-66FFCP PHASE2:Hg19::chr9:33028063..33028067,-#_3e14fe85d457466589b197d26ad9628c-, p@chr9:33028063..33028067
2.39e-66FFCP PHASE1:Hg19::chr9:33028063..33028067,-#_3e14fe85d457466589b197d26ad9628cp@chr9:33028063..33028067, -
5.46e-60FFCP PHASE2:Hg19::chr5:30104176..30104187,-#_98bf58ac96501c398cdd8e3c7aed412ap@chr5:30104176..30104187, -
5.46e-60FFCP PHASE1:Hg19::chr5:30104176..30104187,-#_98bf58ac96501c398cdd8e3c7aed412ap@chr5:30104176..30104187, -
9.77e-45FFCP PHASE2:Hg19::chr2:241987807..241987808,+#_57c80b7ad5d56b23687297361d075373p22@SNED1
9.77e-45FFCP PHASE1:Hg19::chr2:241987807..241987808,+#_57c80b7ad5d56b23687297361d075373p22@SNED1
6.64e-41FFCP PHASE1:Hg19::chr2:242004292..242004308,+#_50c6d9ea9ea76b1b8b187518537c0ff6p15@SNED1
6.64e-41FFCP PHASE2:Hg19::chr2:242004292..242004308,+#_50c6d9ea9ea76b1b8b187518537c0ff6p15@SNED1
1.31e-40FFCP PHASE2:Hg19::chr1:19811132..19811155,-#_c0aab570daf6a340ea01333cf74b8d14p20@CAPZB
1.31e-40FFCP PHASE1:Hg19::chr1:19811132..19811155,-#_c0aab570daf6a340ea01333cf74b8d14p20@CAPZB
1.8e-38FFCP PHASE2:Hg19::chr2:12248310..12248334,-#_561c38e42f64585cc1abe8bd5a7938e8p@chr2:12248310..12248334, -
1.8e-38FFCP PHASE1:Hg19::chr2:12248310..12248334,-#_561c38e42f64585cc1abe8bd5a7938e8p@chr2:12248310..12248334, -
2.75e-34FFCP PHASE1:Hg19::chr14:61190754..61190776,-#_18cc461ea4499ef7468c5dcaa36189b4p6@SIX4
2.75e-34FFCP PHASE2:Hg19::chr14:61190754..61190776,-#_18cc461ea4499ef7468c5dcaa36189b4p6@SIX4
5.96e-34FFCP PHASE1:Hg19::chr13:51101468..51101499,-#_ec727959a65888726dd01a6e37d111cep1@ENST00000428276
5.96e-34FFCP PHASE1:Hg19::chr11:93468399..93468405,-#_ec727959a65888726dd01a6e37d111cep19@TAF1D, p1@SNORA40
5.96e-34FFCP PHASE2:Hg19::chr4:88727274..88727278,+#_ec727959a65888726dd01a6e37d111cep@chr4:88727274..88727278, +
5.96e-34FFCP PHASE2:Hg19::chr13:51101468..51101499,-#_ec727959a65888726dd01a6e37d111cep1@ENST00000428276
5.96e-34FFCP PHASE2:Hg19::chr11:93468399..93468405,-#_ec727959a65888726dd01a6e37d111cep19@TAF1D, p1@SNORA40
5.96e-34FFCP PHASE1:Hg19::chr4:88727274..88727278,+#_ec727959a65888726dd01a6e37d111cep@chr4:88727274..88727278, +
2.09e-33FFCP PHASE2:Hg19::chr4:13546130..13546145,-#_0234ad872f1b2f208d3472faeff2cca1p4@NKX3-2
2.09e-33FFCP PHASE1:Hg19::chr4:13546130..13546145,-#_0234ad872f1b2f208d3472faeff2cca1p4@NKX3-2
4.01e-31FFCP PHASE1:Hg19::chr7:18832913..18832946,+#_180f08942a01f302e2676936cb10e2cdp19@HDAC9
4.01e-31FFCP PHASE2:Hg19::chr7:18832913..18832946,+#_180f08942a01f302e2676936cb10e2cdp19@HDAC9
1.98e-30FFCP PHASE1:Hg19::chr2:241897125..241897142,-#_749191faec073636787b41e8ec1ec2c5p@chr2:241897125..241897142, -
1.98e-30FFCP PHASE2:Hg19::chr2:241897125..241897142,-#_749191faec073636787b41e8ec1ec2c5p@chr2:241897125..241897142, -
4.84e-30FFCP PHASE2:Hg19::chr3:80727046..80727051,-#_39b752a1f265d331b20b884524e3313cp@chr3:80727046..80727051, -
4.84e-30FFCP PHASE1:Hg19::chr3:80727046..80727051,-#_39b752a1f265d331b20b884524e3313cp@chr3:80727046..80727051, -
7.46e-30FFCP PHASE1:Hg19::chr7:158224707..158224729,-#_048fad19a32c7c03b71306683f78acdb-, p@chr7:158224707..158224729
7.46e-30FFCP PHASE2:Hg19::chr7:158224707..158224729,-#_048fad19a32c7c03b71306683f78acdbp@chr7:158224707..158224729, -
1.48e-29FFCP PHASE1:Hg19::chr1:65888177..65888194,+#_eb97d37fee927423bddc4c5937fc5bb0p@chr1:65888177..65888194, +
1.48e-29FFCP PHASE2:Hg19::chr1:65888177..65888194,+#_eb97d37fee927423bddc4c5937fc5bb0+, p@chr1:65888177..65888194
2.72e-28FFCP PHASE1:Hg19::chr14:100848311..100848321,+#_9a455a8d30f4041fcb6346b5777debcap5@WDR25
2.72e-28FFCP PHASE2:Hg19::chr14:100848311..100848321,+#_9a455a8d30f4041fcb6346b5777debcap5@WDR25
3.26e-27FFCP PHASE1:Hg19::chr1:78695274..78695292,+#_3873de80edea86ea51f2e815f1c3f9f4p1@MGC27382
3.26e-27FFCP PHASE2:Hg19::chr1:78695274..78695292,+#_3873de80edea86ea51f2e815f1c3f9f4p1@MGC27382
6.92e-27FFCP PHASE1:Hg19::chr1:19778678..19778689,-#_cf92f71908f7a5ca4716451f8582a6aep@chr1:19778678..19778689, -
6.92e-27FFCP PHASE2:Hg19::chr1:19778678..19778689,-#_cf92f71908f7a5ca4716451f8582a6ae-, p@chr1:19778678..19778689
1.46e-26FFCP PHASE1:Hg19::chr7:18832834..18832859,+#_4aa387d562cfa025ee6fc1ebfc66e31dp18@HDAC9
1.46e-26FFCP PHASE2:Hg19::chr7:18832834..18832859,+#_4aa387d562cfa025ee6fc1ebfc66e31dp18@HDAC9
1.74e-26FFCP PHASE2:Hg19::chr4:156129991..156130013,+#_c2acf486de8f694aed859a96854c483ep2@NPY2R
1.74e-26FFCP PHASE1:Hg19::chr4:156129991..156130013,+#_c2acf486de8f694aed859a96854c483ep2@NPY2R
7.41e-26FFCP PHASE2:Hg19::chr14:61113228..61113233,-#_70057bc12ed127e0aabe4730e2d9badcp@chr14:61113228..61113233, -
7.41e-26FFCP PHASE1:Hg19::chr14:61113228..61113233,-#_70057bc12ed127e0aabe4730e2d9badcp@chr14:61113228..61113233, -
2.04e-25FFCP PHASE1:Hg19::chr7:27212374..27212387,-#_6e09eca32f3aabd1523d20ef7cf285c6p12@HOXA10
2.04e-25FFCP PHASE2:Hg19::chr7:27212374..27212387,-#_6e09eca32f3aabd1523d20ef7cf285c6p12@HOXA10
6.22e-25FFCP PHASE2:Hg19::chr14:23574186..23574212,-#_54e28f53917ae1dc027aedcffd46f378p1@uc010aki.1
6.22e-25FFCP PHASE1:Hg19::chr14:23574186..23574212,-#_54e28f53917ae1dc027aedcffd46f378p1@uc010aki.1
9.49e-25FFCP PHASE1:Hg19::chr20:21686317..21686350,+#_49a50482c07e783223bea7c6de2d4bebp1@PAX1
9.49e-25FFCP PHASE2:Hg19::chr20:21686317..21686350,+#_49a50482c07e783223bea7c6de2d4bebp1@PAX1
4.58e-24FFCP PHASE2:Hg19::chr5:140887761..140887777,+#_4affc2abef7a76e561aa59785b55c03fp@chr5:140887761..140887777, +
4.58e-24FFCP PHASE1:Hg19::chr5:140887761..140887777,+#_4affc2abef7a76e561aa59785b55c03fp@chr5:140887761..140887777, +
5.35e-24FFCP PHASE1:Hg19::chr20:21686290..21686311,+#_295fc94342614cf105e312e8c8d7eff7p2@PAX1
5.35e-24FFCP PHASE2:Hg19::chr20:21686290..21686311,+#_295fc94342614cf105e312e8c8d7eff7p2@PAX1
8.55e-24FFCP PHASE2:Hg19::chr7:18832759..18832786,+#_516bf2545c0f628d14786b65c365ea89p16@HDAC9
8.55e-24FFCP PHASE1:Hg19::chr7:18832759..18832786,+#_516bf2545c0f628d14786b65c365ea89p16@HDAC9
2.01e-23FFCP PHASE2:Hg19::chr4:77068930..77068959,-#_da0363a228d2389cf78cc7bd4d852914p4@NUP54
2.01e-23FFCP PHASE1:Hg19::chr4:77068930..77068959,-#_da0363a228d2389cf78cc7bd4d852914p4@NUP54
2.28e-23FFCP PHASE2:Hg19::chr4:13546632..13546662,-#_73cd600376c33c8f2923808404d54d62p1@NKX3-2
2.28e-23FFCP PHASE1:Hg19::chr4:13546632..13546662,-#_73cd600376c33c8f2923808404d54d62p1@NKX3-2
3.27e-23FFCP PHASE1:Hg19::chr14:23574164..23574179,-#_ba2e7c86eac00bd2025393ff885f70ccp3@uc010aki.1
3.27e-23FFCP PHASE2:Hg19::chr14:23574164..23574179,-#_ba2e7c86eac00bd2025393ff885f70ccp3@uc010aki.1
1.25e-22FFCP PHASE2:Hg19::chr1:78695343..78695353,+#_4c2df3e4e5275379ce07e696563b65a9p2@ENST00000413519
1.25e-22FFCP PHASE1:Hg19::chr1:78695343..78695353,+#_4c2df3e4e5275379ce07e696563b65a9p2@ENST00000413519
1.46e-22FFCP PHASE1:Hg19::chr9:123239747..123239765,-#_217ecd4f2e0f468e4f6e505ea7e4ddefp12@CDK5RAP2
1.46e-22FFCP PHASE2:Hg19::chr9:123239747..123239765,-#_217ecd4f2e0f468e4f6e505ea7e4ddefp12@CDK5RAP2
9.47e-22FFCP PHASE2:Hg19::chr1:171076859..171076870,+#_ff05c6131f4dfcd2c9b2a00c6b8b846fp@chr1:171076859..171076870, +
9.47e-22FFCP PHASE1:Hg19::chr1:171076859..171076870,+#_ff05c6131f4dfcd2c9b2a00c6b8b846fp@chr1:171076859..171076870, +
1.35e-21FFCP PHASE2:Hg19::chr7:100202784..100202796,-#_b3933814a97729b98dd1e740637f25a5p@chr7:100202784..100202796, -
1.35e-21FFCP PHASE1:Hg19::chr7:100202784..100202796,-#_b3933814a97729b98dd1e740637f25a5p@chr7:100202784..100202796, -
3.83e-21FFCP PHASE2:Hg19::chr14:37126814..37126834,+#_f9a4d5452b130f38c2bca9f3227db7bbp4@PAX9
3.83e-21FFCP PHASE1:Hg19::chr14:37126814..37126834,+#_f9a4d5452b130f38c2bca9f3227db7bbp4@PAX9
4.02e-21FFCP PHASE2:Hg19::chr3:176765178..176765190,-#_87abf25145586a1c404a66fb7947be1ep@chr3:176765178..176765190, -
4.02e-21FFCP PHASE1:Hg19::chr3:176765178..176765190,-#_87abf25145586a1c404a66fb7947be1ep@chr3:176765178..176765190, -
4.06e-21FFCP PHASE2:Hg19::chr1:19810947..19810977,-#_e5219796d2af0293585526ed5bdf95e1p17@CAPZB
4.06e-21FFCP PHASE1:Hg19::chr1:19810947..19810977,-#_e5219796d2af0293585526ed5bdf95e1p17@CAPZB
5.43e-21FFCP PHASE1:Hg19::chr12:54422268..54422278,+#_f0efbbac3771c79d107c2ec9d69e2d7ep8@HOXC6
5.43e-21FFCP PHASE2:Hg19::chr12:54422268..54422278,+#_f0efbbac3771c79d107c2ec9d69e2d7ep8@HOXC6
4.94e-20FFCP PHASE1:Hg19::chr17:38613285..38613298,-#_2bbaed7afb43a98ea84e55a6f49f7546p@chr17:38613285..38613298, -
4.94e-20FFCP PHASE2:Hg19::chr17:38613285..38613298,-#_2bbaed7afb43a98ea84e55a6f49f7546p@chr17:38613285..38613298, -
9.53e-20FFCP PHASE1:Hg19::chr20:43343596..43343608,+#_ebd326f8730d0e5538a7318e0f10220ap6@WISP2
9.53e-20FFCP PHASE2:Hg19::chr20:43343596..43343608,+#_ebd326f8730d0e5538a7318e0f10220ap6@WISP2
1.46e-19FFCP PHASE1:Hg19::chr1:78958320..78958332,+#_c3ec549a7cc2c3f80bab8446b2b1c2b5p2@PTGFR
1.46e-19FFCP PHASE2:Hg19::chr1:78958320..78958332,+#_c3ec549a7cc2c3f80bab8446b2b1c2b5p2@PTGFR
2.04e-19FFCP PHASE2:Hg19::chr4:70707689..70707711,-#_a56caf97592aabe91c7b89a41ff2374ep@chr4:70707689..70707711, -
2.04e-19FFCP PHASE1:Hg19::chr4:70707689..70707711,-#_a56caf97592aabe91c7b89a41ff2374ep@chr4:70707689..70707711, -
3.75e-19FFCP PHASE1:Hg19::chr14:37126870..37126882,+#_8ad8f6a92828cc65b575801c464674fbp1@ENST00000555639
3.75e-19FFCP PHASE2:Hg19::chr14:37126870..37126882,+#_8ad8f6a92828cc65b575801c464674fbp1@ENST00000555639
4.68e-19FFCP PHASE2:Hg19::chr2:12246664..12246694,+#_246f088c29f41a083e52905124e4baa3p1@ENST00000449986
4.68e-19FFCP PHASE1:Hg19::chr2:12246664..12246694,+#_246f088c29f41a083e52905124e4baa3p1@ENST00000449986
1.04e-18FFCP PHASE2:Hg19::chr3:158390171..158390180,-#_9c15f3e7c82c66e01531c7bd22565226p3@LXN
1.04e-18FFCP PHASE1:Hg19::chr3:158390171..158390180,-#_9c15f3e7c82c66e01531c7bd22565226p3@LXN
5.12e-18FFCP PHASE2:Hg19::chr6:112375300..112375334,+#_dad1b191333330a3bb45e665f760d375p1@WISP3
5.12e-18FFCP PHASE1:Hg19::chr6:112375300..112375334,+#_dad1b191333330a3bb45e665f760d375p1@WISP3
9.14e-18FFCP PHASE1:Hg19::chr8:77595678..77595688,+#_a6e635053be9b60fd99dc11a00ea0bd2p9@ZFHX4
9.14e-18FFCP PHASE2:Hg19::chr8:77595678..77595688,+#_a6e635053be9b60fd99dc11a00ea0bd2p9@ZFHX4










Property "Property value" (as page type) with input value "UBPROP:0000001 "Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process., Property "Property value" (as page type) with input value "UBPROP:0000001 "Rod-like principal supportive element of the embryo and larva, present in the midline just ventral to the neural tube, and differentiating during the segmentation period to form large vacuolated epithelial cells and a surrounding a sheath of fibrous and elastic layers. Layering of the sheath may differ in structure, thickness and development among groups; in cypriniforms there are actually three very thin layers to the sheath. A functional, well developed notochord is present throughout life in certain basal fish groups but not in cypriniforms. Kimmel et al, 1995.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process., Property "Property value" (as page type) with input value "UBPROP:0000001 "Slender rod of fibrous connective tissue surrounding a core of fluid-filled cells of mesodermal origin; it lies above the gut and directly beneath the spinal cord. The notochord is present during early development and in a few cases it is retained through life; however, usually the notochord is replaced by the vertebral column.[AAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process., Property "Property value" (as page type) with input value "UBPROP:0000002 "relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.