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(Created page with "{{CL |id=CL:0000895 |name=naive thymus-derived CD4-positive, alpha-beta T cell |namespace=cell |def="An antigen inexperienced CD4-positive, alpha-beta T cell with the phen...")
 
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|id=CL:0000895
|id=CL:0000895
|name=naive thymus-derived CD4-positive, alpha-beta T cell
|name=naive thymus-derived CD4-positive, alpha-beta T cell
|namespace=cell
|namespace=efo
|def="An antigen inexperienced CD4-positive, alpha-beta T cell with the phenotype CCR7-positive, CD127-positive and CD62L-positive. This cell type develops in the thymus. This cell type is also described as being CD25-negative, CD62L-high, and CD44-low." [GO_REF:0000031, GOC:add, GOC:tfm, http://www.immgen.org/index_content.html, PMID:19100699]
|def="An antigen inexperienced CD4-positive, alpha-beta T cell with the phenotype CCR7-positive, CD127-positive and CD62L-positive. This cell type develops in the thymus. This cell type is also described as being CD25-negative, CD62L-high, and CD44-low." [GO_REF:0000031, GOC:add, GOC:tfm, http://www.immgen.org/index_content.html, PMID:19100699]
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|property_value=IAO:0000412 http://purl.obolibrary.org/obo/cl.owl;;IAO:0000412 http://purl.obolibrary.org/obo/efo.obo.owl
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Revision as of 17:39, 15 June 2012

Name:naive thymus-derived CD4-positive, alpha-beta T cell
Namespace:efo
Definition:"An antigen inexperienced CD4-positive, alpha-beta T cell with the phenotype CCR7-positive, CD127-positive and CD62L-positive. This cell type develops in the thymus. This cell type is also described as being CD25-negative, CD62L-high, and CD44-low." [GO_REF:0000031, GOC:add, GOC:tfm, http://www.immgen.org/index_content.html, PMID:19100699]
Synonyms: "naive thymus-derived CD4-positive, alpha-beta T lymphocyte" EXACT []
"naive thymus-derived CD4-positive, alpha-beta T-cell" EXACT []
"naive thymus-derived CD4-positive, alpha-beta T-lymphocyte" EXACT []
"T.4Nve.Sp" EXACT []
"Th0" EXACT [GOC:tfm]
Comments:These cells have not been exposed to antigen following thymic T-cell selection; found in blood and secondary lymphoid organs.


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:0000624(CD4-positive, alpha-beta T cell),CL:0000898(naive T cell)
develops_from:CL:0002436(mature CD4 single-positive thymocyte)



Children


is a:FF:0011121 (CD4-positiveCD25-CD45RA- naive conventional T cells expanded)
derives from:FF:0011122 (human CD4-positiveCD25-CD45RA- naive conventional T cells sample),FF:0011446 (CD4-positiveCD25-CD44- naive conventional T cells stimulated with alphaCD3_CD28 - 06hr- (C57BL_6J) sample),FF:0011447 (CD4-positiveCD25-CD44- naive conventional T cells stimulated with alphaCD3_CD28- 06hr- (Balb_cAJcl) sample),FF:0011448 (CD4-positiveCD25-CD44- naive conventional T cells stimulated with PMA an ionomycin- 02hr- (C57BL_6J) sample),FF:0011449 (CD4-positiveCD25-CD44- naive conventional T cells stimulated with PMA an ionomycin- 02hr- (Balb_cAJcl) sample),FF:0011450 (CD4-positiveCD25-CD44- naive conventional T cells- (C57BL_6J) sample),FF:0011451 (CD4-positiveCD25-CD44- naive conventional T cells- (Balb_cAJcl) sample)
develops from:CL:0000896 (activated CD4-positive, alpha-beta T cell)

Ontology Tree: Loaded from BioPortal

Ontorolgy tree(Small window open)


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

Human (Homo sapiens)

  • 11786-124B4 (CD4+CD25-CD45RA- memory conventional T cells, donor1)
  • 11813-124E4 (CD4+CD25-CD44- naive conventional T cells, pool1 (C57BL_6J))
  • 11815-124E6 (CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool1 (C57BL_6J))
  • 11816-124E7 (CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL_6J))
  • 11817-124E8 (CD4+CD25-CD44- naive conventional T cells, pool2 (Balb_cAJcl))
  • 11819-124F1 (CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool2 (Balb_cAJcl))
  • 11820-124F2 (CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool2 (Balb_cAJcl))

Mouse (Mus musculus)

  • 11786-124B4 (CD4+CD25-CD45RA- memory conventional T cells, donor1)
  • 11813-124E4 (CD4+CD25-CD44- naive conventional T cells, pool1 (C57BL_6J))
  • 11815-124E6 (CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool1 (C57BL_6J))
  • 11816-124E7 (CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL_6J))
  • 11817-124E8 (CD4+CD25-CD44- naive conventional T cells, pool2 (Balb_cAJcl))
  • 11819-124F1 (CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool2 (Balb_cAJcl))
  • 11820-124F2 (CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool2 (Balb_cAJcl))


Enrichment analysis: top 100 FFCP enriched with this ontology termTOP 100 FANTOM5 Cage Peaks enriched with CL:0000895 (naive thymus-derived CD4-positive, alpha-beta T cell), sorted by p-values <br>Analyst: Hideya Kawaji<br><br>link to source dataset <br>human : data <br>mouse : data

P-valueFFCPShort description
2.55e-98FFCP PHASE1:Hg19::chr2:162762361..162762364,+#_877754c48acaca1e7030c3a2c21c7e1ap@chr2:162762361..162762364, +
2.55e-98FFCP PHASE1:Hg19::chr1:183622379..183622388,-#_877754c48acaca1e7030c3a2c21c7e1ap4@APOBEC4
2.55e-98FFCP PHASE2:Hg19::chr2:162762361..162762364,+#_877754c48acaca1e7030c3a2c21c7e1ap@chr2:162762361..162762364, +
2.55e-98FFCP PHASE2:Hg19::chr1:183622379..183622388,-#_877754c48acaca1e7030c3a2c21c7e1ap4@APOBEC4
1.36e-86FFCP PHASE1:Mm9::chr13:30878406..30878419,+#_9e0e8d34b07ae1f0090f8f00ee7bd19ep@chr13:30878406..30878419, +
1.36e-86FFCP PHASE1:Mm9::chrX:54476786..54476810,+#_9e0e8d34b07ae1f0090f8f00ee7bd19ep@chrX:54476786..54476810, +
1.36e-86FFCP PHASE2:Mm9::chr13:30878406..30878419,+#_9e0e8d34b07ae1f0090f8f00ee7bd19ep@chr13:30878406..30878419, +
1.36e-86FFCP PHASE2:Mm9::chrX:54476786..54476810,+#_9e0e8d34b07ae1f0090f8f00ee7bd19ep@chrX:54476786..54476810, +
1.01e-74FFCP PHASE2:Mm9::chr16:52032670..52032685,+#_3b47b1952960f83420c988c97dc8eee9p@chr16:52032670..52032685, +
1.01e-74FFCP PHASE1:Mm9::chr16:52032670..52032685,+#_3b47b1952960f83420c988c97dc8eee9p@chr16:52032670..52032685, +
2.41e-74FFCP PHASE1:Mm9::chr14:54795946..54795960,+#_d298ad28011d96b8f5a9d9736e792fb1p1@ENSMUST00000103701
2.41e-74FFCP PHASE1:Mm9::chr16:93777453..93777464,+#_d298ad28011d96b8f5a9d9736e792fb1p@chr16:93777453..93777464, +
2.41e-74FFCP PHASE2:Mm9::chr14:54795946..54795960,+#_d298ad28011d96b8f5a9d9736e792fb1p1@ENSMUST00000103701
2.41e-74FFCP PHASE2:Mm9::chr16:93777453..93777464,+#_d298ad28011d96b8f5a9d9736e792fb1p@chr16:93777453..93777464, +
2.48e-72FFCP PHASE1:Mm9::chr14:54827490..54827502,+#_94832edd9377246242c59c524a406cfdp@chr14:54827490..54827502, +
2.48e-72FFCP PHASE1:Mm9::chr13:30853488..30853499,+#_94832edd9377246242c59c524a406cfdp@chr13:30853488..30853499, +
2.48e-72FFCP PHASE2:Mm9::chr11:11587720..11587735,+#_94832edd9377246242c59c524a406cfdp@chr11:11587720..11587735, +
2.48e-72FFCP PHASE1:Mm9::chr15:80403112..80403122,+#_94832edd9377246242c59c524a406cfdp12@Grap2
2.48e-72FFCP PHASE2:Mm9::chr13:30853488..30853499,+#_94832edd9377246242c59c524a406cfdp@chr13:30853488..30853499, +
2.48e-72FFCP PHASE2:Mm9::chr11:11592840..11592849,+#_94832edd9377246242c59c524a406cfdp@chr11:11592840..11592849, +
2.48e-72FFCP PHASE2:Mm9::chr15:80403112..80403122,+#_94832edd9377246242c59c524a406cfdp12@Grap2
2.48e-72FFCP PHASE1:Mm9::chr14:122362270..122362291,-#_94832edd9377246242c59c524a406cfdp@chr14:122362270..122362291, -
2.48e-72FFCP PHASE2:Mm9::chr14:122362270..122362291,-#_94832edd9377246242c59c524a406cfdp@chr14:122362270..122362291, -
2.48e-72FFCP PHASE1:Mm9::chr11:11587720..11587735,+#_94832edd9377246242c59c524a406cfdp@chr11:11587720..11587735, +
2.48e-72FFCP PHASE2:Mm9::chr14:54827490..54827502,+#_94832edd9377246242c59c524a406cfdp@chr14:54827490..54827502, +
2.48e-72FFCP PHASE1:Mm9::chr11:11592840..11592849,+#_94832edd9377246242c59c524a406cfdp@chr11:11592840..11592849, +
2.39e-66FFCP PHASE1:Hg19::chr9:75772924..75772957,+#_04189a82afa14ff6adf1929c0056182bp17@ANXA1
2.39e-66FFCP PHASE2:Hg19::chr9:75772924..75772957,+#_04189a82afa14ff6adf1929c0056182bp17@ANXA1
4.66e-66FFCP PHASE2:Hg19::chr11:118209514..118209525,+#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr11:118209514..118209525, +
4.66e-66FFCP PHASE1:Hg19::chr20:37493438..37493456,-#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr20:37493438..37493456, -
4.66e-66FFCP PHASE1:Hg19::chr11:118209514..118209525,+#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr11:118209514..118209525, +
4.66e-66FFCP PHASE2:Hg19::chr20:37493438..37493456,-#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr20:37493438..37493456, -
4.66e-66FFCP PHASE1:Hg19::chr2:204816181..204816219,-#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr2:204816181..204816219, -
4.66e-66FFCP PHASE2:Hg19::chr2:204816181..204816219,-#_6ac0e645f7a64d9e69dba8f3b8760cabp@chr2:204816181..204816219, -
1.05e-65FFCP PHASE2:Mm9::chr14:53242248..53242261,+#_8004f2ea89e796c2fb960a433bf52178p@chr14:53242248..53242261, +
1.05e-65FFCP PHASE1:Mm9::chr14:53242248..53242261,+#_8004f2ea89e796c2fb960a433bf52178p@chr14:53242248..53242261, +
1.74e-65FFCP PHASE1:Mm9::chr5:123439274..123439290,+#_4b64687bfcdefea0bfcad8e1805df6e6p4@ENSMUST00000148466, p4@uc008zmw.1
1.74e-65FFCP PHASE2:Mm9::chr5:123439274..123439290,+#_4b64687bfcdefea0bfcad8e1805df6e6p4@ENSMUST00000148466, p4@uc008zmw.1
2.25e-65FFCP PHASE2:Mm9::chr5:123465978..123465989,-#_f42a347de0b51dce535cc25bcb3dc074p@chr5:123465978..123465989, -
2.25e-65FFCP PHASE1:Mm9::chr15:80403104..80403111,+#_f42a347de0b51dce535cc25bcb3dc074p10@Grap2
2.25e-65FFCP PHASE2:Mm9::chr15:80403104..80403111,+#_f42a347de0b51dce535cc25bcb3dc074p10@Grap2
2.25e-65FFCP PHASE2:Mm9::chr1:140069290..140069308,+#_f42a347de0b51dce535cc25bcb3dc074p@chr1:140069290..140069308, +
2.25e-65FFCP PHASE1:Mm9::chr5:123465978..123465989,-#_f42a347de0b51dce535cc25bcb3dc074p@chr5:123465978..123465989, -
2.25e-65FFCP PHASE1:Mm9::chr1:140069290..140069308,+#_f42a347de0b51dce535cc25bcb3dc074p@chr1:140069290..140069308, +
2.9e-65FFCP PHASE1:Mm9::chr11:46200242..46200255,+#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr11:46200242..46200255, +
2.9e-65FFCP PHASE2:Mm9::chr14:54817583..54817593,-#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr14:54817583..54817593, -
2.9e-65FFCP PHASE2:Mm9::chr6:41504409..41504422,-#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr6:41504409..41504422, -
2.9e-65FFCP PHASE1:Mm9::chr14:54817583..54817593,-#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr14:54817583..54817593, -
2.9e-65FFCP PHASE2:Mm9::chr11:46200242..46200255,+#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr11:46200242..46200255, +
2.9e-65FFCP PHASE1:Mm9::chr6:41504409..41504422,-#_7e92ac78f4ba05d003e9a4c8d0ad0c5cp@chr6:41504409..41504422, -
3.74e-65FFCP PHASE2:Mm9::chr4:32328217..32328228,-#_21838e18a3445167eae1b5f9f9d9100ep@chr4:32328217..32328228, -
3.74e-65FFCP PHASE1:Mm9::chr4:32328217..32328228,-#_21838e18a3445167eae1b5f9f9d9100ep@chr4:32328217..32328228, -
6.21e-65FFCP PHASE1:Mm9::chr13:105412781..105412798,+#_a4967cb80b91d5b1645524c822a4009fp@chr13:105412781..105412798, +
6.21e-65FFCP PHASE2:Mm9::chr11:46200110..46200124,-#_a4967cb80b91d5b1645524c822a4009fp@chr11:46200110..46200124, -
6.21e-65FFCP PHASE1:Mm9::chr5:123465955..123465966,-#_a4967cb80b91d5b1645524c822a4009fp@chr5:123465955..123465966, -
6.21e-65FFCP PHASE2:Mm9::chr13:105412781..105412798,+#_a4967cb80b91d5b1645524c822a4009fp@chr13:105412781..105412798, +
6.21e-65FFCP PHASE1:Mm9::chr11:46200110..46200124,-#_a4967cb80b91d5b1645524c822a4009fp@chr11:46200110..46200124, -
6.21e-65FFCP PHASE2:Mm9::chr5:123465955..123465966,-#_a4967cb80b91d5b1645524c822a4009fp@chr5:123465955..123465966, -
1.0e-60FFCP PHASE1:Mm9::chr2:11097490..11097500,+#_be9860812276d09800454363d898d692p@chr2:11097490..11097500, +
1.0e-60FFCP PHASE2:Mm9::chr2:11097490..11097500,+#_be9860812276d09800454363d898d692p@chr2:11097490..11097500, +
1.33e-60FFCP PHASE2:Mm9::chr7:150943007..150943022,+#_4fdb861e76e71aeb0ba3dc386fa81960p@chr7:150943007..150943022, +
1.33e-60FFCP PHASE1:Mm9::chr5:108160486..108160515,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr5:108160486..108160515, -
1.33e-60FFCP PHASE2:Mm9::chr10:128157769..128157772,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr10:128157769..128157772, -
1.33e-60FFCP PHASE1:Mm9::chr12:70398221..70398232,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr12:70398221..70398232, -
1.33e-60FFCP PHASE2:Mm9::chr5:108160486..108160515,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr5:108160486..108160515, -
1.33e-60FFCP PHASE1:Mm9::chr7:150943007..150943022,+#_4fdb861e76e71aeb0ba3dc386fa81960p@chr7:150943007..150943022, +
1.33e-60FFCP PHASE1:Mm9::chr10:128157769..128157772,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr10:128157769..128157772, -
1.33e-60FFCP PHASE2:Mm9::chr12:70398221..70398232,-#_4fdb861e76e71aeb0ba3dc386fa81960p@chr12:70398221..70398232, -
1.77e-60FFCP PHASE1:Mm9::chr14:53414758..53414769,+#_67bf24132681babbe7e4729cb19b0443p1@ENSMUST00000103582
1.77e-60FFCP PHASE2:Mm9::chr14:53414758..53414769,+#_67bf24132681babbe7e4729cb19b0443p1@ENSMUST00000103582
2.34e-60FFCP PHASE2:Mm9::chr2:73290853..73290866,+#_afea924e28698ad2287a1c8d23f565e0p@chr2:73290853..73290866, +
2.34e-60FFCP PHASE1:Mm9::chr2:73290853..73290866,+#_afea924e28698ad2287a1c8d23f565e0p@chr2:73290853..73290866, +
4.1e-60FFCP PHASE1:Mm9::chr9:14708434..14708444,-#_0240567d7c98d907e6a828635dea701ap8@Folr4
4.1e-60FFCP PHASE1:Mm9::chr2:11181142..11181148,-#_0240567d7c98d907e6a828635dea701ap@chr2:11181142..11181148, -
4.1e-60FFCP PHASE2:Mm9::chr2:11181142..11181148,-#_0240567d7c98d907e6a828635dea701ap@chr2:11181142..11181148, -
4.1e-60FFCP PHASE1:Mm9::chr1:138476217..138476228,+#_0240567d7c98d907e6a828635dea701ap@chr1:138476217..138476228, +
4.1e-60FFCP PHASE2:Mm9::chr1:138476217..138476228,+#_0240567d7c98d907e6a828635dea701ap@chr1:138476217..138476228, +
4.1e-60FFCP PHASE2:Mm9::chr9:14708434..14708444,-#_0240567d7c98d907e6a828635dea701ap8@Folr4
6.9e-59FFCP PHASE2:Mm9::chrX:54465221..54465232,+#_f7f3b923569be3724be3bf570e336e5fp4@Cd40lg
6.9e-59FFCP PHASE2:Mm9::chrX:54477240..54477286,+#_f7f3b923569be3724be3bf570e336e5fp@chrX:54477240..54477286, +
6.9e-59FFCP PHASE1:Mm9::chrX:54465221..54465232,+#_f7f3b923569be3724be3bf570e336e5fp4@Cd40lg
6.9e-59FFCP PHASE1:Mm9::chrX:54477240..54477286,+#_f7f3b923569be3724be3bf570e336e5fp@chrX:54477240..54477286, +
6.9e-59FFCP PHASE1:Mm9::chr11:87558695..87558707,+#_f7f3b923569be3724be3bf570e336e5fp@chr11:87558695..87558707, +
6.9e-59FFCP PHASE2:Mm9::chr11:87558695..87558707,+#_f7f3b923569be3724be3bf570e336e5fp@chr11:87558695..87558707, +
1.09e-58FFCP PHASE2:Mm9::chr4:32339235..32339263,+#_6fdd623e858564378f180d21e17241d5p@chr4:32339235..32339263, +
1.09e-58FFCP PHASE1:Mm9::chr4:32339235..32339263,+#_6fdd623e858564378f180d21e17241d5p@chr4:32339235..32339263, +
1.71e-58FFCP PHASE1:Mm9::chr16:23175296..23175310,+#_9d748b65baaf4d5a9b25e5f8531d7deep3@uc007ytl.1
1.71e-58FFCP PHASE2:Mm9::chr19:10904395..10904400,-#_9d748b65baaf4d5a9b25e5f8531d7deep5@Cd6
1.71e-58FFCP PHASE2:Mm9::chr16:23175296..23175310,+#_9d748b65baaf4d5a9b25e5f8531d7deep3@uc007ytl.1
1.71e-58FFCP PHASE1:Mm9::chr19:10904395..10904400,-#_9d748b65baaf4d5a9b25e5f8531d7deep5@Cd6
2.15e-58FFCP PHASE2:Mm9::chr14:54831123..54831141,+#_699bc42111bc677c6019206000b43320p1@ENSMUST00000103733
2.15e-58FFCP PHASE1:Mm9::chr14:54831123..54831141,+#_699bc42111bc677c6019206000b43320p1@ENSMUST00000103733
2.69e-58FFCP PHASE1:Mm9::chr4:151490126..151490137,+#_c3b11b2d74812c5f18eb21da7eac0029p3@Tnfrsf25
2.69e-58FFCP PHASE2:Mm9::chr4:32339511..32339518,+#_c3b11b2d74812c5f18eb21da7eac0029p@chr4:32339511..32339518, +
2.69e-58FFCP PHASE1:Mm9::chr4:32339511..32339518,+#_c3b11b2d74812c5f18eb21da7eac0029p@chr4:32339511..32339518, +
2.69e-58FFCP PHASE2:Mm9::chr4:151490126..151490137,+#_c3b11b2d74812c5f18eb21da7eac0029p3@Tnfrsf25
3.38e-58FFCP PHASE2:Mm9::chr6:48656532..48656548,+#_d5000e82374c3c518ff90268487e7bc7p@chr6:48656532..48656548, +
3.38e-58FFCP PHASE1:Mm9::chr6:48656532..48656548,+#_d5000e82374c3c518ff90268487e7bc7p@chr6:48656532..48656548, +
3.91e-58FFCP PHASE2:Mm9::chr15:97674105..97674129,+#_f485e583b22d18224a7950ea95c0ac67p@chr15:97674105..97674129, +
3.91e-58FFCP PHASE1:Mm9::chr19:5638223..5638226,+#_f485e583b22d18224a7950ea95c0ac67p@chr19:5638223..5638226, +

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