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UBERON:0005562

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Name:thymus primordium
Namespace:FANTOM
Definition:"A small outgrowth of the pharyngeal epithelium that is the site of lymphocyte cell production[ZFA]. [PMID]." [ZFA:0001077]
Xrefs:
links:

EFO:0003622
EHDAA2:0002023
EHDAA:2969
EMAPA:17523
EMAPA:18536
TAO:0001077

ZFA:0001077
Synonyms: "thymic primordium" EXACT [Obol:automatic]
"thymic rudiment" EXACT [ZFA:0001077]
Comments:Editor notes: we follow Kardong table 13.1 in having some developmental contribution of pouch 4 in mammals, but this isn't reflected in EHDAA2. Development notes: Consider adding distinct term for mesenchyme (see EHDAA2), to indicate NC constribution. Taxon notes: variability of developmental origin: In fish, thymic primordia are generated by all the pouches except the first. However, in avians the thymus arises from pouches 3 and 4, whereas in humans it is only generated by the third pouch[PMID:16313389] The thymus arises from the second pouch in frogs, 2-6 in cartilaginous fish, 2-3 in reptiles, 3 or 4 in bony fish, birds and mammals. The final number is variable - 5 paired organs in sharks, 4 in caecilians, 3 in urodeles, 1 in many teleost, anurans and many mammals[ISBN-10:0781714125]
Subset: 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:0001048(primordium),UBERON:0003351(pharyngeal epithelium)
develops_from:UBERON:0007690(early pharyngeal endoderm)
part_of:UBERON:0000974(neck),UBERON:0002405(immune system),UBERON:0003295(pharyngeal gland)



Children

develops from:UBERON:0002370 (thymus)

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:0005562 (thymus primordium), sorted by p-values
Analyst: Hideya Kawaji

link to source dataset
human : data
mouse : data


P-valueFFCPShort description
6.94e-147FFCP PHASE1:Hg19::chr14:22928012..22928031,+#_0273faff036d23caa0d105641de9c797p3@uc001wea.3, p3@uc010ajt.2, p3@uc010aju.1
6.94e-147FFCP PHASE2:Hg19::chr14:22928012..22928031,+#_0273faff036d23caa0d105641de9c797p3@uc001wea.3, p3@uc010ajt.2, p3@uc010aju.1
8.91e-111FFCP PHASE2:Hg19::chr14:22927984..22927999,+#_f975cfd9f3472c82de4ae00d46b2b00ep4@uc001wea.3, p4@uc010ajt.2, p4@uc010aju.1
8.91e-111FFCP PHASE1:Hg19::chr14:22927984..22927999,+#_f975cfd9f3472c82de4ae00d46b2b00ep4@uc001wea.3, p4@uc010ajt.2, p4@uc010aju.1
1.55e-98FFCP PHASE1:Hg19::chr10:11486829..11486836,+#_7897f2c0d8afffba533695b9bee075bep@chr10:11486829..11486836, +
1.55e-98FFCP PHASE1:Hg19::chr10:11486877..11486886,+#_7897f2c0d8afffba533695b9bee075bep@chr10:11486877..11486886, +
1.55e-98FFCP PHASE1:Hg19::chr10:115022988..115023001,+#_7897f2c0d8afffba533695b9bee075bep@chr10:115022988..115023001, +
1.55e-98FFCP PHASE1:Hg19::chr10:115023005..115023015,+#_7897f2c0d8afffba533695b9bee075bep@chr10:115023005..115023015, +
1.55e-98FFCP PHASE1:Hg19::chr10:115023055..115023072,+#_7897f2c0d8afffba533695b9bee075bep@chr10:115023055..115023072, +
1.55e-98FFCP PHASE1:Hg19::chr10:115023094..115023106,+#_7897f2c0d8afffba533695b9bee075bep@chr10:115023094..115023106, +
1.55e-98FFCP PHASE1:Hg19::chr10:26726728..26726731,+#_7897f2c0d8afffba533695b9bee075bep17@APBB1IP
1.55e-98FFCP PHASE1:Hg19::chr10:72542272..72542281,-#_7897f2c0d8afffba533695b9bee075bep6@C10orf27
1.55e-98FFCP PHASE1:Hg19::chr11:36589389..36589398,-#_7897f2c0d8afffba533695b9bee075bep@chr11:36589389..36589398, -
1.55e-98FFCP PHASE1:Hg19::chr11:36622593..36622605,+#_7897f2c0d8afffba533695b9bee075bep@chr11:36622593..36622605, +
1.55e-98FFCP PHASE1:Hg19::chr11:6953654..6953661,+#_7897f2c0d8afffba533695b9bee075bep5@ZNF215
1.55e-98FFCP PHASE1:Hg19::chr11:8954087..8954092,-#_7897f2c0d8afffba533695b9bee075bep1@AB527792
1.55e-98FFCP PHASE1:Hg19::chr12:123559708..123559720,-#_7897f2c0d8afffba533695b9bee075bep@chr12:123559708..123559720, -
1.55e-98FFCP PHASE1:Hg19::chr12:123559773..123559784,-#_7897f2c0d8afffba533695b9bee075bep@chr12:123559773..123559784, -
1.55e-98FFCP PHASE1:Hg19::chr12:123560608..123560615,-#_7897f2c0d8afffba533695b9bee075bep24@PITPNM2
1.55e-98FFCP PHASE1:Hg19::chr12:123560793..123560802,+#_7897f2c0d8afffba533695b9bee075bep@chr12:123560793..123560802, +
1.55e-98FFCP PHASE1:Hg19::chr12:123607146..123607168,-#_7897f2c0d8afffba533695b9bee075bep@chr12:123607146..123607168, -
1.55e-98FFCP PHASE1:Hg19::chr12:123627753..123627760,+#_7897f2c0d8afffba533695b9bee075bep@chr12:123627753..123627760, +
1.55e-98FFCP PHASE1:Hg19::chr12:123634449..123634460,-#_7897f2c0d8afffba533695b9bee075bep25@PITPNM2
1.55e-98FFCP PHASE1:Hg19::chr12:123636839..123636885,-#_7897f2c0d8afffba533695b9bee075bep@chr12:123636839..123636885, -
1.55e-98FFCP PHASE1:Hg19::chr12:133413547..133413557,-#_7897f2c0d8afffba533695b9bee075bep13@POLE
1.55e-98FFCP PHASE1:Hg19::chr12:133414662..133414671,-#_7897f2c0d8afffba533695b9bee075bep@chr12:133414662..133414671, -
1.55e-98FFCP PHASE1:Hg19::chr12:47205180..47205187,+#_7897f2c0d8afffba533695b9bee075bep@chr12:47205180..47205187, +
1.55e-98FFCP PHASE1:Hg19::chr12:48225126..48225164,+#_7897f2c0d8afffba533695b9bee075bep1@ENST00000548564, p1@ENST00000550720, p1@ENST00000550909
1.55e-98FFCP PHASE1:Hg19::chr12:48227243..48227269,+#_7897f2c0d8afffba533695b9bee075bep@chr12:48227243..48227269, +
1.55e-98FFCP PHASE1:Hg19::chr12:59432175..59432191,+#_7897f2c0d8afffba533695b9bee075bep@chr12:59432175..59432191, +
1.55e-98FFCP PHASE1:Hg19::chr13:99628323..99628332,-#_7897f2c0d8afffba533695b9bee075bep@chr13:99628323..99628332, -
1.55e-98FFCP PHASE1:Hg19::chr13:99628347..99628352,-#_7897f2c0d8afffba533695b9bee075bep@chr13:99628347..99628352, -
1.55e-98FFCP PHASE1:Hg19::chr13:99628369..99628374,-#_7897f2c0d8afffba533695b9bee075bep@chr13:99628369..99628374, -
1.55e-98FFCP PHASE1:Hg19::chr13:99628388..99628399,-#_7897f2c0d8afffba533695b9bee075bep@chr13:99628388..99628399, -
1.55e-98FFCP PHASE1:Hg19::chr14:22942319..22942322,+#_7897f2c0d8afffba533695b9bee075bep4@uc001wec.2
1.55e-98FFCP PHASE1:Hg19::chr14:98229095..98229108,-#_7897f2c0d8afffba533695b9bee075bep1@ENST00000555187
1.55e-98FFCP PHASE1:Hg19::chr15:56940722..56940731,+#_7897f2c0d8afffba533695b9bee075bep@chr15:56940722..56940731, +
1.55e-98FFCP PHASE1:Hg19::chr15:56940732..56940741,+#_7897f2c0d8afffba533695b9bee075bep@chr15:56940732..56940741, +
1.55e-98FFCP PHASE1:Hg19::chr15:57017749..57017755,-#_7897f2c0d8afffba533695b9bee075bep@chr15:57017749..57017755, -
1.55e-98FFCP PHASE1:Hg19::chr15:58069384..58069408,+#_7897f2c0d8afffba533695b9bee075bep@chr15:58069384..58069408, +
1.55e-98FFCP PHASE1:Hg19::chr15:58069582..58069594,+#_7897f2c0d8afffba533695b9bee075bep@chr15:58069582..58069594, +
1.55e-98FFCP PHASE1:Hg19::chr15:58069597..58069604,+#_7897f2c0d8afffba533695b9bee075bep@chr15:58069597..58069604, +
1.55e-98FFCP PHASE1:Hg19::chr15:58069758..58069762,+#_7897f2c0d8afffba533695b9bee075bep@chr15:58069758..58069762, +
1.55e-98FFCP PHASE1:Hg19::chr15:58920068..58920073,-#_7897f2c0d8afffba533695b9bee075bep@chr15:58920068..58920073, -
1.55e-98FFCP PHASE1:Hg19::chr15:60131313..60131324,-#_7897f2c0d8afffba533695b9bee075bep@chr15:60131313..60131324, -
1.55e-98FFCP PHASE1:Hg19::chr15:60131337..60131352,-#_7897f2c0d8afffba533695b9bee075bep@chr15:60131337..60131352, -
1.55e-98FFCP PHASE1:Hg19::chr15:60131355..60131365,-#_7897f2c0d8afffba533695b9bee075bep@chr15:60131355..60131365, -
1.55e-98FFCP PHASE1:Hg19::chr15:99071828..99071840,+#_7897f2c0d8afffba533695b9bee075bep@chr15:99071828..99071840, +
1.55e-98FFCP PHASE1:Hg19::chr16:49633750..49633778,-#_7897f2c0d8afffba533695b9bee075bep@chr16:49633750..49633778, -
1.55e-98FFCP PHASE1:Hg19::chr16:74359040..74359071,+#_7897f2c0d8afffba533695b9bee075bep@chr16:74359040..74359071, +
1.55e-98FFCP PHASE1:Hg19::chr17:4090402..4090406,-#_7897f2c0d8afffba533695b9bee075bep@chr17:4090402..4090406, -
1.55e-98FFCP PHASE1:Hg19::chr17:76274572..76274581,-#_7897f2c0d8afffba533695b9bee075bep4@ENST00000374945
1.55e-98FFCP PHASE1:Hg19::chr17:76274646..76274658,-#_7897f2c0d8afffba533695b9bee075bep2@ENST00000374945
1.55e-98FFCP PHASE1:Hg19::chr17:80866179..80866188,+#_7897f2c0d8afffba533695b9bee075bep@chr17:80866179..80866188, +
1.55e-98FFCP PHASE1:Hg19::chr18:13437980..13437986,+#_7897f2c0d8afffba533695b9bee075bep@chr18:13437980..13437986, +
1.55e-98FFCP PHASE1:Hg19::chr19:28877072..28877084,-#_7897f2c0d8afffba533695b9bee075bep@chr19:28877072..28877084, -
1.55e-98FFCP PHASE1:Hg19::chr1:158170478..158170491,-#_7897f2c0d8afffba533695b9bee075bep@chr1:158170478..158170491, -
1.55e-98FFCP PHASE1:Hg19::chr1:158226030..158226041,+#_7897f2c0d8afffba533695b9bee075bep@chr1:158226030..158226041, +
1.55e-98FFCP PHASE1:Hg19::chr1:158259849..158259854,+#_7897f2c0d8afffba533695b9bee075bep11@CD1C
1.55e-98FFCP PHASE1:Hg19::chr1:158260453..158260459,-#_7897f2c0d8afffba533695b9bee075bep@chr1:158260453..158260459, -
1.55e-98FFCP PHASE1:Hg19::chr1:158260649..158260652,+#_7897f2c0d8afffba533695b9bee075bep13@CD1C
1.55e-98FFCP PHASE1:Hg19::chr1:158301280..158301298,+#_7897f2c0d8afffba533695b9bee075bep@chr1:158301280..158301298, +
1.55e-98FFCP PHASE1:Hg19::chr1:158303678..158303720,-#_7897f2c0d8afffba533695b9bee075bep@chr1:158303678..158303720, -
1.55e-98FFCP PHASE1:Hg19::chr1:158332631..158332640,+#_7897f2c0d8afffba533695b9bee075bep@chr1:158332631..158332640, +
1.55e-98FFCP PHASE1:Hg19::chr1:158334207..158334219,-#_7897f2c0d8afffba533695b9bee075bep1@AK128347
1.55e-98FFCP PHASE1:Hg19::chr1:160643269..160643276,+#_7897f2c0d8afffba533695b9bee075bep5@ENST00000443928
1.55e-98FFCP PHASE1:Hg19::chr1:160643289..160643296,+#_7897f2c0d8afffba533695b9bee075bep4@ENST00000443928
1.55e-98FFCP PHASE1:Hg19::chr1:194245598..194245600,-#_7897f2c0d8afffba533695b9bee075bep@chr1:194245598..194245600, -
1.55e-98FFCP PHASE1:Hg19::chr1:199026759..199026762,+#_7897f2c0d8afffba533695b9bee075bep@chr1:199026759..199026762, +
1.55e-98FFCP PHASE1:Hg19::chr1:200500161..200500173,-#_7897f2c0d8afffba533695b9bee075bep@chr1:200500161..200500173, -
1.55e-98FFCP PHASE1:Hg19::chr1:204494413..204494420,+#_7897f2c0d8afffba533695b9bee075bep17@MDM4
1.55e-98FFCP PHASE1:Hg19::chr1:204494427..204494436,+#_7897f2c0d8afffba533695b9bee075bep15@MDM4
1.55e-98FFCP PHASE1:Hg19::chr1:204507243..204507252,+#_7897f2c0d8afffba533695b9bee075bep19@MDM4
1.55e-98FFCP PHASE1:Hg19::chr1:2084380..2084413,-#_7897f2c0d8afffba533695b9bee075bep@chr1:2084380..2084413, -
1.55e-98FFCP PHASE1:Hg19::chr1:26320241..26320248,-#_7897f2c0d8afffba533695b9bee075bep@chr1:26320241..26320248, -
1.55e-98FFCP PHASE1:Hg19::chr1:32314477..32314482,+#_7897f2c0d8afffba533695b9bee075bep@chr1:32314477..32314482, +
1.55e-98FFCP PHASE1:Hg19::chr1:44035057..44035068,+#_7897f2c0d8afffba533695b9bee075bep@chr1:44035057..44035068, +
1.55e-98FFCP PHASE1:Hg19::chr1:44035233..44035242,+#_7897f2c0d8afffba533695b9bee075bep@chr1:44035233..44035242, +
1.55e-98FFCP PHASE1:Hg19::chr1:55776022..55776029,-#_7897f2c0d8afffba533695b9bee075bep@chr1:55776022..55776029, -
1.55e-98FFCP PHASE1:Hg19::chr1:55776031..55776038,-#_7897f2c0d8afffba533695b9bee075bep@chr1:55776031..55776038, -
1.55e-98FFCP PHASE1:Hg19::chr20:30272266..30272271,-#_7897f2c0d8afffba533695b9bee075bep@chr20:30272266..30272271, -
1.55e-98FFCP PHASE1:Hg19::chr20:58830665..58830675,+#_7897f2c0d8afffba533695b9bee075bep@chr20:58830665..58830675, +
1.55e-98FFCP PHASE1:Hg19::chr20:58830799..58830808,+#_7897f2c0d8afffba533695b9bee075bep@chr20:58830799..58830808, +
1.55e-98FFCP PHASE1:Hg19::chr20:58830811..58830825,+#_7897f2c0d8afffba533695b9bee075bep@chr20:58830811..58830825, +
1.55e-98FFCP PHASE1:Hg19::chr20:58830826..58830835,+#_7897f2c0d8afffba533695b9bee075bep@chr20:58830826..58830835, +
1.55e-98FFCP PHASE1:Hg19::chr20:58833004..58833011,+#_7897f2c0d8afffba533695b9bee075bep@chr20:58833004..58833011, +
1.55e-98FFCP PHASE1:Hg19::chr22:48475770..48475779,-#_7897f2c0d8afffba533695b9bee075bep@chr22:48475770..48475779, -
1.55e-98FFCP PHASE1:Hg19::chr2:162762361..162762364,+#_7897f2c0d8afffba533695b9bee075bep@chr2:162762361..162762364, +
1.55e-98FFCP PHASE1:Hg19::chr2:227771044..227771054,+#_7897f2c0d8afffba533695b9bee075bep9@RHBDD1
1.55e-98FFCP PHASE1:Hg19::chr2:227771357..227771363,+#_7897f2c0d8afffba533695b9bee075bep10@RHBDD1
1.55e-98FFCP PHASE1:Hg19::chr2:233102726..233102734,+#_7897f2c0d8afffba533695b9bee075bep@chr2:233102726..233102734, +
1.55e-98FFCP PHASE1:Hg19::chr2:233184654..233184661,-#_7897f2c0d8afffba533695b9bee075bep@chr2:233184654..233184661, -
1.55e-98FFCP PHASE1:Hg19::chr2:242080265..242080277,-#_7897f2c0d8afffba533695b9bee075bep20@PASK
1.55e-98FFCP PHASE1:Hg19::chr2:57846504..57846542,+#_7897f2c0d8afffba533695b9bee075bep@chr2:57846504..57846542, +
1.55e-98FFCP PHASE1:Hg19::chr2:57926329..57926337,-#_7897f2c0d8afffba533695b9bee075bep@chr2:57926329..57926337, -
1.55e-98FFCP PHASE1:Hg19::chr2:86992669..86992684,+#_7897f2c0d8afffba533695b9bee075bep8@RMND5A
1.55e-98FFCP PHASE1:Hg19::chr2:86998329..86998374,+#_7897f2c0d8afffba533695b9bee075bep16@RMND5A
1.55e-98FFCP PHASE1:Hg19::chr2:87017428..87017437,+#_7897f2c0d8afffba533695b9bee075bep@chr2:87017428..87017437, +
1.55e-98FFCP PHASE1:Hg19::chr2:87018380..87018390,-#_7897f2c0d8afffba533695b9bee075bep6@CD8A
1.55e-98FFCP PHASE1:Hg19::chr2:87018900..87018905,+#_7897f2c0d8afffba533695b9bee075bep@chr2:87018900..87018905, +










Property "Property value" (as page type) with input value "UBPROP:0000001 "A small outgrowth of the pharyngeal epithelium that is the site of lymphocyte cell production. Willett et al, 1999.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.