UBERON:0002329: Difference between revisions
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|located_in= | |located_in= | ||
|name=somite | |name=somite | ||
|namespace= | |namespace=FANTOM | ||
|obo_creation_date= | |obo_creation_date= | ||
|part_of= | |part_of= | ||
Latest revision as of 17:29, 12 September 2014
| Name: | somite | ||
|---|---|---|---|
| Namespace: | FANTOM | ||
| Definition: | "A segmental mass of mesoderm in the vertebrate embryo, occurring in pairs along the notochord and developing into muscles and vertebrae[BTO]. Portion of mesoderm distributed along the two sides of the neural tube and that will eventually become dermis (dermatome), skeletal muscle (myotome), and vertebrae (sclerotome)[WP]. In Zebrafish: Any of the approximately 45 bilaterally paired blocks of mesoderm cells, lying on either side of the notochord and neural tube, and forming sequentially starting at the head during development of the embryo. Together they give rise to the axial skeleton (from the sclerotome), associated musculature (from the myotome), and dermis (from the dermatome). // Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. <a href | ||
| Xrefs: |
| ||
| Synonyms: |
"epithelial somite" RELATED [UBERONREF:0000002] "mesodermal cluster" EXACT [GO:0001756] "somites" RELATED PLURAL [] "somitic mesoderm" RELATED [] "somitus" RELATED LATIN [Wikipedia:Somite] | ||
| Comments: | Editor notes: currently classified as an epithelial vesicle, consistent with EHDAA2 and UBERONREF:0000002. Consider making "somitic mesoderm" a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk // When the somite becomes segmented from the segmental plate, it is composed of an epithelial sac enclosing mesenchymal somitocoel cells. Thereafter the somite differentiates into two parts, the ventro-medial mesenchymal sclerotome and the dorso-lateral epithelial dermomyotome. This change in the epithelial somite depends on surrounding tissue [PMID:15906248] | ||
| Alt_id: | UBERON:FMA_85522-MIAA_0000068-XAO_0000058-ZFA_0000155 | ||
| Subset: |
uberon_slim vertebrate_core |
Gray19_with_color.png]
200px-Gray19_with_color.png]
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:0005423(developing anatomical structure),UBERON:0007503(epithelial vesicle),UBERON:0012275(meso-epithelium) |
|---|---|
| develops_from: | UBERON:0003059(presomitic mesoderm) |
Children
| develops from: | UBERON:0003082 (myotome),UBERON:0003089 (sclerotome),UBERON:0004016 (dermatome),UBERON:0004290 (dermomyotome) |
|---|---|
| part of: | FF:0000226 (chicken embryo whole body day1 HH7 1-3 somites),FF:0000227 (chicken embryo whole body day1 HH7 2-3 somites) |
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:0002329 (somite), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data
| P-value | FFCP | Short description |
|---|---|---|
| 5.24e-58 | FFCP PHASE1:Mm9::chrX:160838683..160838694,+#_8d7fbf366c0b7d7622c6a385f39e419d | p@chrX:160838683..160838694, + |
| 5.24e-58 | FFCP PHASE2:Mm9::chrX:160838683..160838694,+#_8d7fbf366c0b7d7622c6a385f39e419d | p@chrX:160838683..160838694, + |
| 5.11e-50 | FFCP PHASE2:Mm9::chr12:105433069..105433075,-#_ad7de030602e659e6670afb0e206724c | p@chr12:105433069..105433075, - |
| 5.11e-50 | FFCP PHASE1:Mm9::chrX:65748600..65748616,+#_ad7de030602e659e6670afb0e206724c | p@chrX:65748600..65748616, + |
| 5.11e-50 | FFCP PHASE2:Mm9::chrX:65748600..65748616,+#_ad7de030602e659e6670afb0e206724c | p@chrX:65748600..65748616, + |
| 5.11e-50 | FFCP PHASE1:Mm9::chr12:105433069..105433075,-#_ad7de030602e659e6670afb0e206724c | p@chr12:105433069..105433075, - |
| 1.47e-48 | FFCP PHASE1:Mm9::chrX:160838787..160838800,+#_17e5945434357ee6519245a1e6e2c703 | p@chrX:160838787..160838800, + |
| 1.47e-48 | FFCP PHASE2:Mm9::chrX:160838787..160838800,+#_17e5945434357ee6519245a1e6e2c703 | p@chrX:160838787..160838800, + |
| 1.58e-44 | FFCP PHASE1:Hg19::chr10:49813077..49813087,-#_82df0112630a26a80032e9da8afbadb6 | p8@ARHGAP22 |
| 1.58e-44 | FFCP PHASE2:Hg19::chr10:49813077..49813087,-#_82df0112630a26a80032e9da8afbadb6 | p8@ARHGAP22 |
| 8.42e-44 | FFCP PHASE1:Mm9::chr11:81849982..81850000,+#_0df4e201676a5363253cef527811eb2c | p@chr11:81849982..81850000, + |
| 8.42e-44 | FFCP PHASE2:Mm9::chr11:81849982..81850000,+#_0df4e201676a5363253cef527811eb2c | p@chr11:81849982..81850000, + |
| 9.2e-41 | FFCP PHASE1:Hg19::chr6:53359400..53359406,+#_e83a70b101c1a9efccee38e5733b6364 | p@chr6:53359400..53359406, + |
| 9.2e-41 | FFCP PHASE2:Hg19::chr6:53359400..53359406,+#_e83a70b101c1a9efccee38e5733b6364 | p@chr6:53359400..53359406, + |
| 1.15e-40 | FFCP PHASE1:Mm9::chr17:14813242..14813246,-#_510087d49285d4fe4c987cc083584e67 | p@chr17:14813242..14813246, - |
| 1.15e-40 | FFCP PHASE2:Mm9::chr17:14813242..14813246,-#_510087d49285d4fe4c987cc083584e67 | p@chr17:14813242..14813246, - |
| 2.26e-39 | FFCP PHASE1:Hg19::chr10:49813051..49813064,-#_f85682b92040c00d57025e257e5add09 | p4@ARHGAP22 |
| 2.26e-39 | FFCP PHASE2:Hg19::chr10:49813051..49813064,-#_f85682b92040c00d57025e257e5add09 | p4@ARHGAP22 |
| 2.88e-39 | FFCP PHASE1:Hg19::chr9:35685631..35685657,+#_d51e437ad7d1610bf1a4b347ef57196b | p@chr9:35685631..35685657, + |
| 2.88e-39 | FFCP PHASE2:Hg19::chr9:35685631..35685657,+#_d51e437ad7d1610bf1a4b347ef57196b | p@chr9:35685631..35685657, + |
| 3.7e-39 | FFCP PHASE1:Mm9::chr1:127573795..127573810,+#_5319746916cfef281573dddfab755315 | p4@Gpr39 |
| 3.7e-39 | FFCP PHASE2:Mm9::chr1:127573795..127573810,+#_5319746916cfef281573dddfab755315 | p4@Gpr39 |
| 3.75e-39 | FFCP PHASE2:Mm9::chrX:160840025..160840037,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160840025..160840037, + |
| 3.75e-39 | FFCP PHASE1:Mm9::chrX:160840048..160840057,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160840048..160840057, + |
| 3.75e-39 | FFCP PHASE1:Mm9::chrX:160840025..160840037,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160840025..160840037, + |
| 3.75e-39 | FFCP PHASE2:Mm9::chrX:160823859..160823870,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160823859..160823870, + |
| 3.75e-39 | FFCP PHASE1:Mm9::chrX:160823859..160823870,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160823859..160823870, + |
| 3.75e-39 | FFCP PHASE2:Mm9::chrX:160840048..160840057,+#_251f24ab76de1d11be3a7e9df3fc5032 | p@chrX:160840048..160840057, + |
| 1.14e-38 | FFCP PHASE1:Hg19::chr6:148593425..148593498,+#_de2bec7ff2c5ff93b2ac81f7c2ea9cf3 | p2@SASH1 |
| 1.14e-38 | FFCP PHASE2:Hg19::chr6:148593425..148593498,+#_de2bec7ff2c5ff93b2ac81f7c2ea9cf3 | p2@SASH1 |
| 1.34e-36 | FFCP PHASE1:Hg19::chr10:49813013..49813032,-#_5eb9edbe5512000df56a99b717e2384e | p3@ARHGAP22 |
| 1.34e-36 | FFCP PHASE2:Hg19::chr10:49813013..49813032,-#_5eb9edbe5512000df56a99b717e2384e | p3@ARHGAP22 |
| 1.46e-35 | FFCP PHASE1:Hg19::chr19:50031567..50031632,+#_e1d4094095cedc3d8ae347add85dbdd0 | p2@RCN3 |
| 1.46e-35 | FFCP PHASE2:Hg19::chr19:50031567..50031632,+#_e1d4094095cedc3d8ae347add85dbdd0 | p2@RCN3 |
| 3.31e-35 | FFCP PHASE2:Mm9::chr3:79689074..79689090,+#_5672f3cb1383dc64c1ea17968a314a60 | p11@Fam198b |
| 3.31e-35 | FFCP PHASE1:Mm9::chr3:79689074..79689090,+#_5672f3cb1383dc64c1ea17968a314a60 | p11@Fam198b |
| 3.69e-35 | FFCP PHASE2:Mm9::chr1:127574253..127574264,+#_55f9dce0cbdcaeec2b7eeb1d1ad9bee2 | p@chr1:127574253..127574264, + |
| 3.69e-35 | FFCP PHASE1:Mm9::chr1:127574253..127574264,+#_55f9dce0cbdcaeec2b7eeb1d1ad9bee2 | p@chr1:127574253..127574264, + |
| 5.09e-35 | FFCP PHASE1:Mm9::chr1:127573733..127573745,+#_88f84c983bb641dda4464496dfb5ce1a | p7@Gpr39 |
| 5.09e-35 | FFCP PHASE2:Mm9::chr1:127573733..127573745,+#_88f84c983bb641dda4464496dfb5ce1a | p7@Gpr39 |
| 5.98e-35 | FFCP PHASE1:Mm9::chr1:127573690..127573699,+#_bc2dd3d1dc18c514c2c17d8ca874d36e | p11@Gpr39 |
| 5.98e-35 | FFCP PHASE2:Mm9::chr1:127573690..127573699,+#_bc2dd3d1dc18c514c2c17d8ca874d36e | p11@Gpr39 |
| 7.03e-35 | FFCP PHASE1:Mm9::chrX:160839768..160839780,+#_641e6e29543c48fa5a5e9179e3b40dc6 | p@chrX:160839768..160839780, + |
| 7.03e-35 | FFCP PHASE2:Mm9::chrX:160839768..160839780,+#_641e6e29543c48fa5a5e9179e3b40dc6 | p@chrX:160839768..160839780, + |
| 9.95e-35 | FFCP PHASE1:Hg19::chr9:35685445..35685517,+#_098ac8bcc815e2e18b63c37d16875e4a | p@chr9:35685445..35685517, + |
| 9.95e-35 | FFCP PHASE2:Hg19::chr9:35685445..35685517,+#_098ac8bcc815e2e18b63c37d16875e4a | p@chr9:35685445..35685517, + |
| 1.33e-34 | FFCP PHASE2:Mm9::chr1:127573462..127573472,+#_a9b6b0118a7b44e2efb15bd26e87af23 | p8@Gpr39 |
| 1.33e-34 | FFCP PHASE1:Mm9::chr1:127573462..127573472,+#_a9b6b0118a7b44e2efb15bd26e87af23 | p8@Gpr39 |
| 1.89e-34 | FFCP PHASE2:Hg19::chr9:35684475..35684520,+#_439c3e3d2505f0c9ea1deb4cd589b0e7 | p@chr9:35684475..35684520, + |
| 1.89e-34 | FFCP PHASE1:Hg19::chr9:35684475..35684520,+#_439c3e3d2505f0c9ea1deb4cd589b0e7 | p@chr9:35684475..35684520, + |
| 4.48e-34 | FFCP PHASE1:Hg19::chr14:94595800..94595811,-#_0072eeb789af01f589db066694702f19 | p3@IFI27L2 |
| 4.48e-34 | FFCP PHASE2:Hg19::chr14:94595800..94595811,-#_0072eeb789af01f589db066694702f19 | p3@IFI27L2 |
| 5.0e-34 | FFCP PHASE2:Hg19::chr7:102553470..102553487,+#_55b43bf77e1fabcb839d1a821dbf4b45 | p2@LRRC17 |
| 5.0e-34 | FFCP PHASE1:Hg19::chr7:102553470..102553487,+#_55b43bf77e1fabcb839d1a821dbf4b45 | p2@LRRC17 |
| 2.06e-33 | FFCP PHASE1:Hg19::chr9:35689148..35689192,+#_4e0701c10d46047e544830f6aae50fa4 | p@chr9:35689148..35689192, + |
| 2.06e-33 | FFCP PHASE2:Hg19::chr9:35689148..35689192,+#_4e0701c10d46047e544830f6aae50fa4 | p@chr9:35689148..35689192, + |
| 7.56e-33 | FFCP PHASE2:Hg19::chr7:102553430..102553456,+#_aa5283807ab111003111e205ce78dd75 | p1@LRRC17 |
| 7.56e-33 | FFCP PHASE1:Hg19::chr7:102553430..102553456,+#_aa5283807ab111003111e205ce78dd75 | p1@LRRC17 |
| 1.21e-32 | FFCP PHASE1:Hg19::chr21:47518695..47518709,+#_7ab05bd9f6f364bd6a860c96c66f57be | p6@COL6A2 |
| 1.21e-32 | FFCP PHASE2:Hg19::chr21:47518695..47518709,+#_7ab05bd9f6f364bd6a860c96c66f57be | p6@COL6A2 |
| 2.74e-32 | FFCP PHASE2:Hg19::chr21:47518637..47518688,+#_c9cd3137477bf8d3edf76fd55c1b6c7b | p2@COL6A2 |
| 2.74e-32 | FFCP PHASE1:Hg19::chr21:47518637..47518688,+#_c9cd3137477bf8d3edf76fd55c1b6c7b | p2@COL6A2 |
| 3.94e-32 | FFCP PHASE2:Mm9::chr7:96658543..96658553,-#_a6e7e74e4c73bb4a8b5d314a852d9e8f | p@chr7:96658543..96658553, - |
| 3.94e-32 | FFCP PHASE1:Mm9::chr7:96658543..96658553,-#_a6e7e74e4c73bb4a8b5d314a852d9e8f | p@chr7:96658543..96658553, - |
| 5.83e-32 | FFCP PHASE1:Hg19::chr4:74703497..74703511,+#_e4e0e9e497230735d3b0a1b44eecd92a | p@chr4:74703497..74703511, + |
| 5.83e-32 | FFCP PHASE2:Hg19::chr4:74703497..74703511,+#_e4e0e9e497230735d3b0a1b44eecd92a | p@chr4:74703497..74703511, + |
| 9.0e-32 | FFCP PHASE2:Hg19::chr2:134548872..134548879,-#_f07d4ec536b6adb9a7025324cec8e2b2 | p@chr2:134548872..134548879, - |
| 9.0e-32 | FFCP PHASE1:Hg19::chr2:134548872..134548879,-#_f07d4ec536b6adb9a7025324cec8e2b2 | p@chr2:134548872..134548879, - |
| 9.7e-32 | FFCP PHASE1:Hg19::chr9:35685273..35685313,+#_5947da35b0fbd3b5a842914c426d79d8 | p@chr9:35685273..35685313, + |
| 9.7e-32 | FFCP PHASE2:Hg19::chr9:35685273..35685313,+#_5947da35b0fbd3b5a842914c426d79d8 | p@chr9:35685273..35685313, + |
| 1.33e-31 | FFCP PHASE2:Mm9::chr7:91081998..91082010,-#_b43ebe74a85e9e21b2a4e229dcc358a3 | p@chr7:91081998..91082010, - |
| 1.33e-31 | FFCP PHASE1:Mm9::chr7:91081998..91082010,-#_b43ebe74a85e9e21b2a4e229dcc358a3 | p@chr7:91081998..91082010, - |
| 1.33e-31 | FFCP PHASE2:Mm9::chr5:30339923..30339935,+#_b43ebe74a85e9e21b2a4e229dcc358a3 | p2@Il6 |
| 1.33e-31 | FFCP PHASE1:Mm9::chr5:30339923..30339935,+#_b43ebe74a85e9e21b2a4e229dcc358a3 | p2@Il6 |
| 1.59e-31 | FFCP PHASE2:Mm9::chr10:67598037..67598049,-#_d34c6228e9a2ae72a442c6041f803ab0 | p@chr10:67598037..67598049, - |
| 1.59e-31 | FFCP PHASE1:Mm9::chr10:67598037..67598049,-#_d34c6228e9a2ae72a442c6041f803ab0 | p@chr10:67598037..67598049, - |
| 2.72e-31 | FFCP PHASE1:Mm9::chr2:65009852..65009866,-#_91476aae558fb97cdc58e1ad3dff05f0 | p@chr2:65009852..65009866, - |
| 2.72e-31 | FFCP PHASE2:Mm9::chr2:65009852..65009866,-#_91476aae558fb97cdc58e1ad3dff05f0 | p@chr2:65009852..65009866, - |
| 2.8e-31 | FFCP PHASE2:Mm9::chr18:52678391..52678395,-#_05677ff3c00ad0d4c3fe915138f5e5f2 | p@chr18:52678391..52678395, - |
| 2.8e-31 | FFCP PHASE1:Mm9::chr18:52678391..52678395,-#_05677ff3c00ad0d4c3fe915138f5e5f2 | p@chr18:52678391..52678395, - |
| 7.65e-31 | FFCP PHASE2:Mm9::chr6:91222095..91222107,+#_397df25ef20a6ef22f8b024f9182b549 | p@chr6:91222095..91222107, + |
| 7.65e-31 | FFCP PHASE1:Mm9::chr6:91222095..91222107,+#_397df25ef20a6ef22f8b024f9182b549 | p@chr6:91222095..91222107, + |
| 9.72e-31 | FFCP PHASE2:Hg19::chr1:79472477..79472510,-#_1c636a0c7fc3745c8e1d13ab22629a62 | p2@ELTD1 |
| 9.72e-31 | FFCP PHASE1:Hg19::chr1:79472477..79472510,-#_1c636a0c7fc3745c8e1d13ab22629a62 | p2@ELTD1 |
| 1.01e-30 | FFCP PHASE2:Hg19::chr7:100773764..100773799,-#_dafc4b4414a696ce4e286e36b5994a0f | p@chr7:100773764..100773799, - |
| 1.01e-30 | FFCP PHASE2:Mm9::chr5:114822634..114822665,-#_3dbaaf9aa2c8d5f90d54f174d652c6ba | p9@Kctd10 |
| 1.01e-30 | FFCP PHASE1:Mm9::chr5:114822634..114822665,-#_3dbaaf9aa2c8d5f90d54f174d652c6ba | p9@Kctd10 |
| 1.01e-30 | FFCP PHASE1:Hg19::chr7:100773764..100773799,-#_dafc4b4414a696ce4e286e36b5994a0f | p@chr7:100773764..100773799, - |
| 1.17e-30 | FFCP PHASE1:Mm9::chr1:127573773..127573786,+#_c410863f2a736fb680e40085799be469 | p6@Gpr39 |
| 1.17e-30 | FFCP PHASE2:Mm9::chr1:127573773..127573786,+#_c410863f2a736fb680e40085799be469 | p6@Gpr39 |
| 1.26e-30 | FFCP PHASE2:Hg19::chr12:53491743..53491754,+#_e80ffea9e1262d3c824ea97a596586ae | p1@AK074416 |
| 1.26e-30 | FFCP PHASE1:Hg19::chr12:53491743..53491754,+#_e80ffea9e1262d3c824ea97a596586ae | p1@AK074416 |
| 1.4e-30 | FFCP PHASE2:Hg19::chr7:93516035..93516056,+#_9dab122ec2675a2748aabc025b6e119e | p1@CU675118 |
| 1.4e-30 | FFCP PHASE1:Hg19::chr7:93516035..93516056,+#_9dab122ec2675a2748aabc025b6e119e | p1@CU675118 |
| 1.8e-30 | FFCP PHASE2:Hg19::chr21:47532318..47532355,+#_1f9b1e0635bb1449e83ade5e5523c338 | p8@COL6A2 |
| 1.8e-30 | FFCP PHASE1:Hg19::chr21:47532318..47532355,+#_1f9b1e0635bb1449e83ade5e5523c338 | p8@COL6A2 |
| 2.01e-30 | FFCP PHASE2:Hg19::chr2:33359687..33359717,+#_b8994909235a9bcd121b08df619732c4 | p2@LTBP1 |
| 2.01e-30 | FFCP PHASE1:Hg19::chr2:33359687..33359717,+#_b8994909235a9bcd121b08df619732c4 | p2@LTBP1 |
| 3.87e-30 | FFCP PHASE1:Hg19::chr21:47542827..47542859,-#_4e873785dd3c87663e99005ba19c6827 | p@chr21:47542827..47542859, - |
| 3.87e-30 | FFCP PHASE2:Hg19::chr21:47542827..47542859,-#_4e873785dd3c87663e99005ba19c6827 | p@chr21:47542827..47542859, - |
Property "Property value" (as page type) with input value "UBPROP:0000001 "Post-cranial axial segments which form sclerotome and dermomyotome.[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:0000001 "Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. 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:0000002 "relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[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:0000002 "relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[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: part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.
