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{{CL
{{CL
|id=CL:0000808
|alt_id=
|name=DN4 thymocyte
|namespace=cell;;efo
|def="A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, CD25-negative, and pre-TCR-positive." [GO_REF:0000031, GOC:add, GOC:tfm, ISBN:0781735149]
|xref=
|is_a=CL:0002489
|synonym="DN4 alpha-beta immature T lymphocyte" EXACT [];;"DN4 alpha-beta immature T-lymphocyte" EXACT [];;"DN4 cell" EXACT [];;"DN4 immature T cell" EXACT [];;"DN4 immature T-cell" EXACT [];;"double negative 4" EXACT [];;"T.DN4.th" EXACT []
|comment=Note that this type of thymocyte has passed the beta-selection checkpoint and is rapidly proliferating and beginning to rearrange the T cell receptor alpha chain.
|comment=Note that this type of thymocyte has passed the beta-selection checkpoint and is rapidly proliferating and beginning to rearrange the T cell receptor alpha chain.
|alt_id=
|disjoint_from=
|union_of=
|created_by=
|created_by=
|obo_creation_date=
|def="A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, CD25-negative, and pre-TCR-positive." [GO_REF:0000031, GOC:add, GOC:tfm, ISBN:0781735149]
|subset=
|derives_from=
|derives_from=
|develops_from=CL:0000807
|develops_from=CL:0000807
|disjoint_from=
|has_quality=
|has_quality=
|id=CL:0000808
|is_a=CL:0002489
|is_obsolete=
|located_in=
|located_in=
|name=DN4 thymocyte
|namespace=FANTOM
|obo_creation_date=
|part_of=
|part_of=
|preceded_by=
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl.owl;;IAO:0000412 http://purl.obolibrary.org/obo/efo.owl
|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl.owl;;IAO:0000412 http://purl.obolibrary.org/obo/efo.owl
|is_obsolete=
|subset=
|preceded_by=
|synonym="DN4 alpha-beta immature T lymphocyte" EXACT [];;"DN4 alpha-beta immature T-lymphocyte" EXACT [];;"DN4 cell" EXACT [];;"DN4 immature T cell" EXACT [];;"DN4 immature T-cell" EXACT [];;"double negative 4" EXACT [];;"T.DN4.th" EXACT []
|union_of=
|xref=
}}
}}

Latest revision as of 16:37, 12 September 2014

Name:DN4 thymocyte
Namespace:FANTOM
Definition:"A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, CD25-negative, and pre-TCR-positive." [GO_REF:0000031, GOC:add, GOC:tfm, ISBN:0781735149]
Synonyms: "DN4 alpha-beta immature T lymphocyte" EXACT []
"DN4 alpha-beta immature T-lymphocyte" EXACT []
"DN4 cell" EXACT []
"DN4 immature T cell" EXACT []
"DN4 immature T-cell" EXACT []
"double negative 4" EXACT []
"T.DN4.th" EXACT []
Comments:Note that this type of thymocyte has passed the beta-selection checkpoint and is rapidly proliferating and beginning to rearrange the T cell receptor alpha chain.


Ontology association <br>Each term has an is_a parent in the Cell 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 Cell ontologies.<br><br>link to ontology dataset<br>data

Parents

is_a:CL:0002489(double negative thymocyte)
develops_from:CL:0000807(DN3 thymocyte)



Children


develops from:CL:0000805 (immature single positive thymocyte)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)


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



Enrichment analysis: top 100 FFCP enriched with this ontology termTOP 100 FANTOM5 Cage Peaks enriched with CL:0000808 (DN4 thymocyte), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
3.29e-195FFCP PHASE1:Hg19::chr2:162762361..162762364,+#_3005c83685229e8e40986fd4fba8a1e9p@chr2:162762361..162762364, +
3.29e-195FFCP PHASE2:Hg19::chr2:162762361..162762364,+#_3005c83685229e8e40986fd4fba8a1e9p@chr2:162762361..162762364, +
1.55e-98FFCP PHASE1:Hg19::chr4:133657651..133657654,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:133657651..133657654, -
1.55e-98FFCP PHASE1:Hg19::chr15:91989101..91989105,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:91989101..91989105, +
1.55e-98FFCP PHASE1:Hg19::chr3:152204326..152204345,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr3:152204326..152204345, +
1.55e-98FFCP PHASE1:Hg19::chr16:67022368..67022374,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr16:67022368..67022374, -
1.55e-98FFCP PHASE1:Hg19::chr17:14103251..14103258,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr17:14103251..14103258, +
1.55e-98FFCP PHASE2:Hg19::chr2:202521027..202521058,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:202521027..202521058, -
1.55e-98FFCP PHASE1:Hg19::chr4:105805755..105805761,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:105805755..105805761, +
1.55e-98FFCP PHASE1:Hg19::chr13:49078833..49078841,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr13:49078833..49078841, -
1.55e-98FFCP PHASE1:Hg19::chr1:200990231..200990238,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:200990231..200990238, -
1.55e-98FFCP PHASE2:Hg19::chr15:91989101..91989105,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:91989101..91989105, +
1.55e-98FFCP PHASE1:Hg19::chr8:75251775..75251785,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:75251775..75251785, +
1.55e-98FFCP PHASE1:Hg19::chr4:175842537..175842553,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842537..175842553, -
1.55e-98FFCP PHASE2:Hg19::chr16:67022522..67022529,+#_dedd15cbb652e63cab88bdf0ce370a92p12@CES4A
1.55e-98FFCP PHASE2:Hg19::chr13:49078833..49078841,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr13:49078833..49078841, -
1.55e-98FFCP PHASE1:Hg19::chr9:4544914..4544917,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:4544914..4544917, -
1.55e-98FFCP PHASE1:Hg19::chr6:128263833..128263838,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr6:128263833..128263838, -
1.55e-98FFCP PHASE2:Hg19::chr2:146687090..146687095,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:146687090..146687095, +
1.55e-98FFCP PHASE2:Hg19::chr21:47278815..47278834,+#_dedd15cbb652e63cab88bdf0ce370a92p6@PCBP3
1.55e-98FFCP PHASE1:Hg19::chr15:69972162..69972169,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:69972162..69972169, +
1.55e-98FFCP PHASE2:Hg19::chr4:134707449..134707458,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:134707449..134707458, -
1.55e-98FFCP PHASE2:Hg19::chr8:16739475..16739490,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:16739475..16739490, -
1.55e-98FFCP PHASE2:Hg19::chr4:128884938..128884941,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:128884938..128884941, -
1.55e-98FFCP PHASE2:Hg19::chr8:114877856..114877881,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:114877856..114877881, -
1.55e-98FFCP PHASE2:Hg19::chr15:69972162..69972169,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:69972162..69972169, +
1.55e-98FFCP PHASE1:Hg19::chr15:91989133..91989141,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:91989133..91989141, +
1.55e-98FFCP PHASE2:Hg19::chr1:189141918..189141929,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:189141918..189141929, +
1.55e-98FFCP PHASE2:Hg19::chr1:237900222..237900230,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:237900222..237900230, +
1.55e-98FFCP PHASE1:Hg19::chr2:162762231..162762234,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:162762231..162762234, +
1.55e-98FFCP PHASE1:Hg19::chr7:38287827..38287832,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr7:38287827..38287832, -
1.55e-98FFCP PHASE2:Hg19::chr4:175842470..175842486,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842470..175842486, -
1.55e-98FFCP PHASE2:Hg19::chr2:141989111..141989114,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:141989111..141989114, -
1.55e-98FFCP PHASE2:Hg19::chr5:24272119..24272147,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr5:24272119..24272147, -
1.55e-98FFCP PHASE1:Hg19::chr7:19479837..19479844,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr7:19479837..19479844, +
1.55e-98FFCP PHASE2:Hg19::chr15:91989133..91989141,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr15:91989133..91989141, +
1.55e-98FFCP PHASE2:Hg19::chr22:46041912..46041915,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr22:46041912..46041915, +
1.55e-98FFCP PHASE1:Hg19::chr4:175858389..175858405,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175858389..175858405, -
1.55e-98FFCP PHASE2:Hg19::chr10:11846830..11846860,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr10:11846830..11846860, -
1.55e-98FFCP PHASE2:Hg19::chr8:50081052..50081075,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:50081052..50081075, -
1.55e-98FFCP PHASE1:Hg19::chr9:87797549..87797564,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:87797549..87797564, +
1.55e-98FFCP PHASE1:Hg19::chr4:134707420..134707442,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:134707420..134707442, -
1.55e-98FFCP PHASE2:Hg19::chr4:2428062..2428080,+#_dedd15cbb652e63cab88bdf0ce370a92p1@uc003gfa.1
1.55e-98FFCP PHASE2:Hg19::chr3:192598433..192598481,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr3:192598433..192598481, -
1.55e-98FFCP PHASE2:Hg19::chrX:133321044..133321049,+#_dedd15cbb652e63cab88bdf0ce370a92p@chrX:133321044..133321049, +
1.55e-98FFCP PHASE1:Hg19::chr8:51970952..51970959,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:51970952..51970959, +
1.55e-98FFCP PHASE2:Hg19::chr4:176123823..176123829,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:176123823..176123829, +
1.55e-98FFCP PHASE1:Hg19::chr9:116857558..116857566,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:116857558..116857566, -
1.55e-98FFCP PHASE2:Hg19::chr2:146998057..146998070,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:146998057..146998070, -
1.55e-98FFCP PHASE2:Hg19::chr4:134707474..134707504,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:134707474..134707504, -
1.55e-98FFCP PHASE2:Hg19::chr7:117926347..117926353,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr7:117926347..117926353, -
1.55e-98FFCP PHASE2:Hg19::chr9:72117884..72117889,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:72117884..72117889, -
1.55e-98FFCP PHASE2:Hg19::chr4:133657589..133657598,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:133657589..133657598, -
1.55e-98FFCP PHASE1:Hg19::chr2:202521027..202521058,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:202521027..202521058, -
1.55e-98FFCP PHASE2:Hg19::chr17:14101134..14101143,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr17:14101134..14101143, +
1.55e-98FFCP PHASE1:Hg19::chr15:92006659..92006679,+#_dedd15cbb652e63cab88bdf0ce370a92p2@uc002bqw.2
1.55e-98FFCP PHASE1:Hg19::chr16:67022522..67022529,+#_dedd15cbb652e63cab88bdf0ce370a92p12@CES4A
1.55e-98FFCP PHASE2:Hg19::chr4:175842511..175842520,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842511..175842520, -
1.55e-98FFCP PHASE2:Hg19::chr3:152204326..152204345,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr3:152204326..152204345, +
1.55e-98FFCP PHASE1:Hg19::chr2:146687090..146687095,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:146687090..146687095, +
1.55e-98FFCP PHASE2:Hg19::chr21:43982135..43982142,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr21:43982135..43982142, +
1.55e-98FFCP PHASE2:Hg19::chr15:92006659..92006679,+#_dedd15cbb652e63cab88bdf0ce370a92p2@uc002bqw.2
1.55e-98FFCP PHASE2:Hg19::chr1:200990231..200990238,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:200990231..200990238, -
1.55e-98FFCP PHASE2:Hg19::chr21:39490932..39490937,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr21:39490932..39490937, +
1.55e-98FFCP PHASE1:Hg19::chr8:16739475..16739490,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:16739475..16739490, -
1.55e-98FFCP PHASE2:Hg19::chr4:111448516..111448521,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:111448516..111448521, +
1.55e-98FFCP PHASE1:Hg19::chr21:47278815..47278834,+#_dedd15cbb652e63cab88bdf0ce370a92p6@PCBP3
1.55e-98FFCP PHASE1:Hg19::chr4:134707449..134707458,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:134707449..134707458, -
1.55e-98FFCP PHASE1:Hg19::chr4:128884938..128884941,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:128884938..128884941, -
1.55e-98FFCP PHASE2:Hg19::chr8:67519931..67519935,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:67519931..67519935, -
1.55e-98FFCP PHASE2:Hg19::chr6:128263833..128263838,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr6:128263833..128263838, -
1.55e-98FFCP PHASE1:Hg19::chr2:141989111..141989114,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:141989111..141989114, -
1.55e-98FFCP PHASE1:Hg19::chr1:237900222..237900230,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:237900222..237900230, +
1.55e-98FFCP PHASE1:Hg19::chr14:22962827..22962830,+#_dedd15cbb652e63cab88bdf0ce370a92p3@uc001weo.2
1.55e-98FFCP PHASE2:Hg19::chr4:133657651..133657654,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:133657651..133657654, -
1.55e-98FFCP PHASE1:Hg19::chr4:175842470..175842486,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842470..175842486, -
1.55e-98FFCP PHASE2:Hg19::chr16:67022368..67022374,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr16:67022368..67022374, -
1.55e-98FFCP PHASE2:Hg19::chr17:14103251..14103258,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr17:14103251..14103258, +
1.55e-98FFCP PHASE2:Hg19::chr4:105805755..105805761,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:105805755..105805761, +
1.55e-98FFCP PHASE1:Hg19::chr5:24272119..24272147,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr5:24272119..24272147, -
1.55e-98FFCP PHASE1:Hg19::chr15:92006720..92006726,+#_dedd15cbb652e63cab88bdf0ce370a92p1@uc002bqw.2
1.55e-98FFCP PHASE2:Hg19::chr14:22962827..22962830,+#_dedd15cbb652e63cab88bdf0ce370a92p3@uc001weo.2
1.55e-98FFCP PHASE1:Hg19::chr8:50081052..50081075,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:50081052..50081075, -
1.55e-98FFCP PHASE2:Hg19::chr8:75251775..75251785,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:75251775..75251785, +
1.55e-98FFCP PHASE2:Hg19::chr4:175842537..175842553,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842537..175842553, -
1.55e-98FFCP PHASE1:Hg19::chr4:2428062..2428080,+#_dedd15cbb652e63cab88bdf0ce370a92p1@uc003gfa.1
1.55e-98FFCP PHASE1:Hg19::chr2:146998057..146998070,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr2:146998057..146998070, -
1.55e-98FFCP PHASE2:Hg19::chr15:92006720..92006726,+#_dedd15cbb652e63cab88bdf0ce370a92p1@uc002bqw.2
1.55e-98FFCP PHASE1:Hg19::chr4:176123823..176123829,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:176123823..176123829, +
1.55e-98FFCP PHASE1:Hg19::chr8:114877856..114877881,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr8:114877856..114877881, -
1.55e-98FFCP PHASE1:Hg19::chr10:11846830..11846860,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr10:11846830..11846860, -
1.55e-98FFCP PHASE2:Hg19::chr9:4544914..4544917,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:4544914..4544917, -
1.55e-98FFCP PHASE1:Hg19::chr4:134707474..134707504,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:134707474..134707504, -
1.55e-98FFCP PHASE1:Hg19::chr7:117926347..117926353,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr7:117926347..117926353, -
1.55e-98FFCP PHASE1:Hg19::chr1:189141918..189141929,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr1:189141918..189141929, +
1.55e-98FFCP PHASE1:Hg19::chr9:72117884..72117889,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr9:72117884..72117889, -
1.55e-98FFCP PHASE1:Hg19::chr4:133657589..133657598,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:133657589..133657598, -
1.55e-98FFCP PHASE1:Hg19::chr17:14101134..14101143,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr17:14101134..14101143, +
1.55e-98FFCP PHASE1:Hg19::chr22:46041912..46041915,+#_dedd15cbb652e63cab88bdf0ce370a92p@chr22:46041912..46041915, +
1.55e-98FFCP PHASE1:Hg19::chr4:175842511..175842520,-#_dedd15cbb652e63cab88bdf0ce370a92p@chr4:175842511..175842520, -

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