Details for: CL0000807

Cell ID: CL0000807

Cell Name: DN3 thymocyte

Marker Score Threshold: 499
(Derived using integrated single-cell and genomic data)

Description: A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, and CD25-positive and expressing the T cell receptor beta-chain in complex with the pre-T cell receptor alpha chain.

Synonyms: early cortical thymocyte, DN3 alpha-beta immature T lymphocyte, DN3 alpha-beta immature T-cell, DN3 alpha-beta immature T-lymphocyte, DN3 cell, DN3 immature T cell, TN3 cell, TN3 thymocyte, double negative 3, preT.DN3.Th

Genes (max top 100)

(Marker Score score is uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Gene Symbol: CD3D (ENSG00000167286)
    Fold Change: 3.4
    Ensembl ID: ENSG00000167286
  • Gene Symbol: ACTB (ENSG00000075624)
    Fold Change: 3.3
    Ensembl ID: ENSG00000075624
  • Gene Symbol: ARHGDIB (ENSG00000111348)
    Fold Change: 3.29
    Ensembl ID: ENSG00000111348
  • Gene Symbol: BTF3 (ENSG00000145741)
    Fold Change: 3.27
    Ensembl ID: ENSG00000145741
  • Gene Symbol: B2M (ENSG00000166710)
    Fold Change: 3.26
    Ensembl ID: ENSG00000166710
  • Gene Symbol: CALM1 (ENSG00000198668)
    Fold Change: 3.26
    Ensembl ID: ENSG00000198668
  • Gene Symbol: BTG1 (ENSG00000133639)
    Fold Change: 3.25
    Ensembl ID: ENSG00000133639
  • Gene Symbol: ATP5F1E (ENSG00000124172)
    Fold Change: 3.24
    Ensembl ID: ENSG00000124172
  • Gene Symbol: ZFP36L2 (ENSG00000152518)
    Fold Change: 3.23
    Ensembl ID: ENSG00000152518
  • Gene Symbol: ACTG1 (ENSG00000184009)
    Fold Change: 3.22
    Ensembl ID: ENSG00000184009
  • Gene Symbol: ATP5MC2 (ENSG00000135390)
    Fold Change: 3.06
    Ensembl ID: ENSG00000135390
  • Gene Symbol: TLE5 (ENSG00000104964)
    Fold Change: 2.98
    Ensembl ID: ENSG00000104964
  • Gene Symbol: CD2 (ENSG00000116824)
    Fold Change: 2.9
    Ensembl ID: ENSG00000116824
  • Gene Symbol: CALM2 (ENSG00000143933)
    Fold Change: 2.84
    Ensembl ID: ENSG00000143933
  • Gene Symbol: CCND3 (ENSG00000112576)
    Fold Change: 2.79
    Ensembl ID: ENSG00000112576
  • Gene Symbol: APRT (ENSG00000198931)
    Fold Change: 2.75
    Ensembl ID: ENSG00000198931
  • Gene Symbol: ATP5F1D (ENSG00000099624)
    Fold Change: 2.7
    Ensembl ID: ENSG00000099624
  • Gene Symbol: ATP5ME (ENSG00000169020)
    Fold Change: 2.65
    Ensembl ID: ENSG00000169020
  • Gene Symbol: AREG (ENSG00000109321)
    Fold Change: 2.6
    Ensembl ID: ENSG00000109321
  • Gene Symbol: ATP5PO (ENSG00000241837)
    Fold Change: 2.56
    Ensembl ID: ENSG00000241837
  • Gene Symbol: TMEM258 (ENSG00000134825)
    Fold Change: 2.5
    Ensembl ID: ENSG00000134825
  • Gene Symbol: ATM (ENSG00000149311)
    Fold Change: 2.47
    Ensembl ID: ENSG00000149311
  • Gene Symbol: RHOA (ENSG00000067560)
    Fold Change: 2.47
    Ensembl ID: ENSG00000067560
  • Gene Symbol: SLC25A5 (ENSG00000005022)
    Fold Change: 2.45
    Ensembl ID: ENSG00000005022
  • Gene Symbol: ATP5MC3 (ENSG00000154518)
    Fold Change: 2.28
    Ensembl ID: ENSG00000154518
  • Gene Symbol: RHOH (ENSG00000168421)
    Fold Change: 2.22
    Ensembl ID: ENSG00000168421
  • Gene Symbol: ATP5F1A (ENSG00000152234)
    Fold Change: 2.22
    Ensembl ID: ENSG00000152234
  • Gene Symbol: TSPO (ENSG00000100300)
    Fold Change: 2.16
    Ensembl ID: ENSG00000100300
  • Gene Symbol: ATRX (ENSG00000085224)
    Fold Change: 2.16
    Ensembl ID: ENSG00000085224
  • Gene Symbol: ATP5PF (ENSG00000154723)
    Fold Change: 2.15
    Ensembl ID: ENSG00000154723
  • Gene Symbol: CAPZB (ENSG00000077549)
    Fold Change: 2.15
    Ensembl ID: ENSG00000077549
  • Gene Symbol: CRYBG1 (ENSG00000112297)
    Fold Change: 2.13
    Ensembl ID: ENSG00000112297
  • Gene Symbol: C1QBP (ENSG00000108561)
    Fold Change: 2.08
    Ensembl ID: ENSG00000108561
  • Gene Symbol: ARF1 (ENSG00000143761)
    Fold Change: 2.08
    Ensembl ID: ENSG00000143761
  • Gene Symbol: AMD1 (ENSG00000123505)
    Fold Change: 1.99
    Ensembl ID: ENSG00000123505
  • Gene Symbol: CCNH (ENSG00000134480)
    Fold Change: 1.98
    Ensembl ID: ENSG00000134480
  • Gene Symbol: ARF6 (ENSG00000165527)
    Fold Change: 1.97
    Ensembl ID: ENSG00000165527
  • Gene Symbol: BIRC3 (ENSG00000023445)
    Fold Change: 1.91
    Ensembl ID: ENSG00000023445
  • Gene Symbol: ATP5F1B (ENSG00000110955)
    Fold Change: 1.89
    Ensembl ID: ENSG00000110955
  • Gene Symbol: CALR (ENSG00000179218)
    Fold Change: 1.89
    Ensembl ID: ENSG00000179218
  • Gene Symbol: CAMK4 (ENSG00000152495)
    Fold Change: 1.85
    Ensembl ID: ENSG00000152495
  • Gene Symbol: APEX1 (ENSG00000100823)
    Fold Change: 1.83
    Ensembl ID: ENSG00000100823
  • Gene Symbol: BST2 (ENSG00000130303)
    Fold Change: 1.79
    Ensembl ID: ENSG00000130303
  • Gene Symbol: ZFP36L1 (ENSG00000185650)
    Fold Change: 1.77
    Ensembl ID: ENSG00000185650
  • Gene Symbol: ATP5PB (ENSG00000116459)
    Fold Change: 1.76
    Ensembl ID: ENSG00000116459
  • Gene Symbol: ATP1A1 (ENSG00000163399)
    Fold Change: 1.76
    Ensembl ID: ENSG00000163399
  • Gene Symbol: ADD3 (ENSG00000148700)
    Fold Change: 1.75
    Ensembl ID: ENSG00000148700
  • Gene Symbol: CALM3 (ENSG00000160014)
    Fold Change: 1.74
    Ensembl ID: ENSG00000160014
  • Gene Symbol: ANXA1 (ENSG00000135046)
    Fold Change: 1.74
    Ensembl ID: ENSG00000135046
  • Gene Symbol: BAX (ENSG00000087088)
    Fold Change: 1.72
    Ensembl ID: ENSG00000087088
  • Gene Symbol: VPS51 (ENSG00000149823)
    Fold Change: 1.72
    Ensembl ID: ENSG00000149823
  • Gene Symbol: CAMLG (ENSG00000164615)
    Fold Change: 1.7
    Ensembl ID: ENSG00000164615
  • Gene Symbol: ANXA11 (ENSG00000122359)
    Fold Change: 1.67
    Ensembl ID: ENSG00000122359
  • Gene Symbol: ATF4 (ENSG00000128272)
    Fold Change: 1.66
    Ensembl ID: ENSG00000128272
  • Gene Symbol: ARHGDIA (ENSG00000141522)
    Fold Change: 1.63
    Ensembl ID: ENSG00000141522
  • Gene Symbol: PRDM1 (ENSG00000057657)
    Fold Change: 1.63
    Ensembl ID: ENSG00000057657
  • Gene Symbol: PARP1 (ENSG00000143799)
    Fold Change: 1.63
    Ensembl ID: ENSG00000143799
  • Gene Symbol: RHOG (ENSG00000177105)
    Fold Change: 1.62
    Ensembl ID: ENSG00000177105
  • Gene Symbol: BCL2 (ENSG00000171791)
    Fold Change: 1.61
    Ensembl ID: ENSG00000171791
  • Gene Symbol: ATP5F1C (ENSG00000165629)
    Fold Change: 1.56
    Ensembl ID: ENSG00000165629
  • Gene Symbol: CAST (ENSG00000153113)
    Fold Change: 1.55
    Ensembl ID: ENSG00000153113
  • Gene Symbol: BIN1 (ENSG00000136717)
    Fold Change: 1.54
    Ensembl ID: ENSG00000136717
  • Gene Symbol: ADAR (ENSG00000160710)
    Fold Change: 1.53
    Ensembl ID: ENSG00000160710
  • Gene Symbol: CAPZA1 (ENSG00000116489)
    Fold Change: 1.47
    Ensembl ID: ENSG00000116489
  • Gene Symbol: CASP4 (ENSG00000196954)
    Fold Change: 1.46
    Ensembl ID: ENSG00000196954
  • Gene Symbol: CCT6A (ENSG00000146731)
    Fold Change: 1.42
    Ensembl ID: ENSG00000146731
  • Gene Symbol: KLF9 (ENSG00000119138)
    Fold Change: 1.42
    Ensembl ID: ENSG00000119138
  • Gene Symbol: RUNX3 (ENSG00000020633)
    Fold Change: 1.37
    Ensembl ID: ENSG00000020633
  • Gene Symbol: FMNL1 (ENSG00000184922)
    Fold Change: 1.36
    Ensembl ID: ENSG00000184922
  • Gene Symbol: ATP1B3 (ENSG00000069849)
    Fold Change: 1.31
    Ensembl ID: ENSG00000069849
  • Gene Symbol: ATP5MC1 (ENSG00000159199)
    Fold Change: 1.3
    Ensembl ID: ENSG00000159199
  • Gene Symbol: CANX (ENSG00000127022)
    Fold Change: 1.3
    Ensembl ID: ENSG00000127022
  • Gene Symbol: GRK2 (ENSG00000173020)
    Fold Change: 1.28
    Ensembl ID: ENSG00000173020
  • Gene Symbol: CCND2 (ENSG00000118971)
    Fold Change: 1.25
    Ensembl ID: ENSG00000118971
  • Gene Symbol: ANXA6 (ENSG00000197043)
    Fold Change: 1.25
    Ensembl ID: ENSG00000197043
  • Gene Symbol: ARF4 (ENSG00000168374)
    Fold Change: 1.23
    Ensembl ID: ENSG00000168374
  • Gene Symbol: ATP6V0B (ENSG00000117410)
    Fold Change: 1.22
    Ensembl ID: ENSG00000117410
  • Gene Symbol: ACP1 (ENSG00000143727)
    Fold Change: 1.22
    Ensembl ID: ENSG00000143727
  • Gene Symbol: CCNG1 (ENSG00000113328)
    Fold Change: 1.22
    Ensembl ID: ENSG00000113328
  • Gene Symbol: ABCF1 (ENSG00000204574)
    Fold Change: 1.21
    Ensembl ID: ENSG00000204574
  • Gene Symbol: BNIP2 (ENSG00000140299)
    Fold Change: 1.21
    Ensembl ID: ENSG00000140299
  • Gene Symbol: ACTN1 (ENSG00000072110)
    Fold Change: 1.2
    Ensembl ID: ENSG00000072110
  • Gene Symbol: ADAM10 (ENSG00000137845)
    Fold Change: 1.2
    Ensembl ID: ENSG00000137845
  • Gene Symbol: ANXA7 (ENSG00000138279)
    Fold Change: 1.19
    Ensembl ID: ENSG00000138279
  • Gene Symbol: ARHGAP5 (ENSG00000100852)
    Fold Change: 1.17
    Ensembl ID: ENSG00000100852
  • Gene Symbol: ARF5 (ENSG00000004059)
    Fold Change: 1.16
    Ensembl ID: ENSG00000004059
  • Gene Symbol: ANXA5 (ENSG00000164111)
    Fold Change: 1.15
    Ensembl ID: ENSG00000164111
  • Gene Symbol: AQP3 (ENSG00000165272)
    Fold Change: 1.14
    Ensembl ID: ENSG00000165272
  • Gene Symbol: ARL2 (ENSG00000213465)
    Fold Change: 1.13
    Ensembl ID: ENSG00000213465
  • Gene Symbol: ALOX5AP (ENSG00000132965)
    Fold Change: 1.11
    Ensembl ID: ENSG00000132965
  • Gene Symbol: CAPNS1 (ENSG00000126247)
    Fold Change: 1.08
    Ensembl ID: ENSG00000126247
  • Gene Symbol: PLIN2 (ENSG00000147872)
    Fold Change: 1.08
    Ensembl ID: ENSG00000147872
  • Gene Symbol: AP2B1 (ENSG00000006125)
    Fold Change: 1.08
    Ensembl ID: ENSG00000006125
  • Gene Symbol: AUP1 (ENSG00000115307)
    Fold Change: 1.06
    Ensembl ID: ENSG00000115307
  • Gene Symbol: BSG (ENSG00000172270)
    Fold Change: 1.06
    Ensembl ID: ENSG00000172270
  • Gene Symbol: CAPZA2 (ENSG00000198898)
    Fold Change: 1.04
    Ensembl ID: ENSG00000198898
  • Gene Symbol: BAG1 (ENSG00000107262)
    Fold Change: 1.03
    Ensembl ID: ENSG00000107262
  • Gene Symbol: BNIP3L (ENSG00000104765)
    Fold Change: 1.03
    Ensembl ID: ENSG00000104765
  • Gene Symbol: ADH5 (ENSG00000197894)
    Fold Change: 1.02
    Ensembl ID: ENSG00000197894
  • Gene Symbol: CASP8 (ENSG00000064012)
    Fold Change: 1.01
    Ensembl ID: ENSG00000064012
Hovered Details

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Hovered Details

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**Key Characteristics** * CD4-negative, CD8-negative, and CD44-negative * CD25-positive * Expresses TCRβ in complex with pre-TCRα * DN3 thymocyte is a stage of T-cell development in the thymus * Plays a crucial role in the development of alpha-beta T cells * Interacts with antigen-presenting cells and undergoes positive selection **Clinical Significance** The DN3 thymocyte is an important stage in the development of alpha-beta T cells, which are a subset of T cells that play a central role in the adaptive immune response. Abnormalities in the development of alpha-beta T cells can lead to immunodeficiency or autoimmune diseases. For example, mutations in the TCRβ gene can lead to severe combined immunodeficiency (SCID), a condition characterized by impaired T-cell function. Additionally, the expression of TCRβ and pre-TCRα in DN3 thymocytes is critical for the proper functioning of the immune system, and abnormalities in this process can lead to autoimmune diseases such as type 1 diabetes and multiple sclerosis. **Pathways/Ontology** The DN3 thymocyte is involved in several key pathways, including: * Adaptive immune response * Adaptive immune system * Alpha-beta T cell activation * Alpha-beta T cell receptor complex * Cargo recognition for clathrin-mediated endocytosis * Cell surface receptor signaling pathway * Clathrin-coated endocytic vesicle membrane * Clathrin-mediated endocytosis * Costimulation by the CD28 family * Cytoplasm * Downstream TCR signaling * External side of plasma membrane * Generation of second messenger molecules * Identical protein binding * Immune system * Immunoregulatory interactions between a lymphoid and a non-lymphoid cell * Membrane trafficking * Pd-1 signaling * Phosphorylation of CD3 and TCR zeta chains * Plasma membrane * Positive thymic T cell selection * Protein binding * T cell receptor complex * T cell receptor signaling pathway * TCR signaling * Translocation of Zap-70 to immunological synapse * Transmembrane signaling receptor activity * Vesicle-mediated transport Overall, the DN3 thymocyte is a critical stage in the development of alpha-beta T cells, and abnormalities in this process can lead to immunodeficiency or autoimmune diseases.