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Revision as of 17:16, 15 June 2012

Name:notochord
Definition:"Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue[VAO]. 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, VAO:0000032, Wikipedia:Notochord, ZFIN:curator
Xrefs:
links:

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

ZFA:0000135
Synonyms: "embryonic notocord" EXACT []
"notocord" EXACT [ZFA:0000135]
Comments:Some organisms retain a post-embryonic notochord
Alt_id: UBERON:FMA_85521-XAO_0000055-ZFA_0000135
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:0000481(multi-tissue structure),UBERON:0002050(embryonic structure),UBERON:0004120(mesoderm-derived structure)
develops_from:UBERON:0004880(chordamesoderm)



Children

develops from:UBERON:0002242 (nucleus pulposus)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)

FF samples<br>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 <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
8.26e-98FFCP PHASE2:Hg19::chr3:174737010..174737023,+#_8a3240178a0d3906890ccc27ea164d27p@chr3:174737010..174737023, +
8.26e-98FFCP PHASE1: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,-#_3e14fe85d457466589b197d26ad9628cp@chr9:33028063..33028067, -
2.39e-66FFCP PHASE1:Hg19::chr9:33028063..33028067,-#_3e14fe85d457466589b197d26ad9628cp@chr9:33028063..33028067, -
5.46e-60FFCP PHASE1:Hg19::chr5:30104176..30104187,-#_98bf58ac96501c398cdd8e3c7aed412ap@chr5:30104176..30104187, -
5.46e-60FFCP PHASE2:Hg19::chr5:30104176..30104187,-#_98bf58ac96501c398cdd8e3c7aed412ap@chr5:30104176..30104187, -
9.77e-45FFCP PHASE1:Hg19::chr2:241987807..241987808,+#_57c80b7ad5d56b23687297361d075373p22@SNED1
9.77e-45FFCP PHASE2: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 PHASE2:Hg19::chr14:61190754..61190776,-#_18cc461ea4499ef7468c5dcaa36189b4p6@SIX4
2.75e-34FFCP PHASE1:Hg19::chr14:61190754..61190776,-#_18cc461ea4499ef7468c5dcaa36189b4p6@SIX4
5.96e-34FFCP PHASE2:Hg19::chr4:88727274..88727278,+#_ec727959a65888726dd01a6e37d111cep@chr4:88727274..88727278, +
5.96e-34FFCP PHASE2:Hg19::chr11:93468399..93468405,-#_ec727959a65888726dd01a6e37d111cep19@TAF1D, p1@SNORA40
5.96e-34FFCP PHASE1:Hg19::chr13:51101468..51101499,-#_ec727959a65888726dd01a6e37d111cep1@ENST00000428276
5.96e-34FFCP PHASE1:Hg19::chr4:88727274..88727278,+#_ec727959a65888726dd01a6e37d111cep@chr4:88727274..88727278, +
5.96e-34FFCP PHASE1:Hg19::chr11:93468399..93468405,-#_ec727959a65888726dd01a6e37d111cep19@TAF1D, p1@SNORA40
5.96e-34FFCP PHASE2:Hg19::chr13:51101468..51101499,-#_ec727959a65888726dd01a6e37d111cep1@ENST00000428276
2.09e-33FFCP PHASE1:Hg19::chr4:13546130..13546145,-#_0234ad872f1b2f208d3472faeff2cca1p4@NKX3-2
2.09e-33FFCP PHASE2: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 PHASE2:Hg19::chr2:241897125..241897142,-#_749191faec073636787b41e8ec1ec2c5p@chr2:241897125..241897142, -
1.98e-30FFCP PHASE1: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 PHASE2:Hg19::chr7:158224707..158224729,-#_048fad19a32c7c03b71306683f78acdbp@chr7:158224707..158224729, -
7.46e-30FFCP PHASE1: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,+#_eb97d37fee927423bddc4c5937fc5bb0p@chr1:65888177..65888194, +
2.72e-28FFCP PHASE2:Hg19::chr14:100848311..100848321,+#_9a455a8d30f4041fcb6346b5777debcap5@WDR25
2.72e-28FFCP PHASE1: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 PHASE2:Hg19::chr1:19778678..19778689,-#_cf92f71908f7a5ca4716451f8582a6aep@chr1:19778678..19778689, -
6.92e-27FFCP PHASE1:Hg19::chr1:19778678..19778689,-#_cf92f71908f7a5ca4716451f8582a6aep@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 PHASE2:Hg19::chr7:27212374..27212387,-#_6e09eca32f3aabd1523d20ef7cf285c6p12@HOXA10
2.04e-25FFCP PHASE1:Hg19::chr7:27212374..27212387,-#_6e09eca32f3aabd1523d20ef7cf285c6p12@HOXA10
6.22e-25FFCP PHASE1:Hg19::chr14:23574186..23574212,-#_54e28f53917ae1dc027aedcffd46f378p1@uc010aki.1
6.22e-25FFCP PHASE2: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 PHASE1:Hg19::chr4:77068930..77068959,-#_da0363a228d2389cf78cc7bd4d852914p4@NUP54
2.01e-23FFCP PHASE2: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 PHASE2:Hg19::chr9:123239747..123239765,-#_217ecd4f2e0f468e4f6e505ea7e4ddefp12@CDK5RAP2
1.46e-22FFCP PHASE1:Hg19::chr9:123239747..123239765,-#_217ecd4f2e0f468e4f6e505ea7e4ddefp12@CDK5RAP2
9.47e-22FFCP PHASE1:Hg19::chr1:171076859..171076870,+#_ff05c6131f4dfcd2c9b2a00c6b8b846fp@chr1:171076859..171076870, +
9.47e-22FFCP PHASE2: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 PHASE1:Hg19::chr14:37126814..37126834,+#_f9a4d5452b130f38c2bca9f3227db7bbp4@PAX9
3.83e-21FFCP PHASE2: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 PHASE1:Hg19::chr1:19810947..19810977,-#_e5219796d2af0293585526ed5bdf95e1p17@CAPZB
4.06e-21FFCP PHASE2: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 PHASE2:Hg19::chr17:38613285..38613298,-#_2bbaed7afb43a98ea84e55a6f49f7546p@chr17:38613285..38613298, -
4.94e-20FFCP PHASE1: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 PHASE2:Hg19::chr14:37126870..37126882,+#_8ad8f6a92828cc65b575801c464674fbp1@ENST00000555639
3.75e-19FFCP PHASE1: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 PHASE2:Hg19::chr8:77595678..77595688,+#_a6e635053be9b60fd99dc11a00ea0bd2p9@ZFHX4
9.14e-18FFCP PHASE1:Hg19::chr8:77595678..77595688,+#_a6e635053be9b60fd99dc11a00ea0bd2p9@ZFHX4

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