Details for: KDM5C

Gene ID: 8242

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: KDM5C

Ensembl ID: ENSG00000126012

Description: lysine demethylase 5C

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • retinal rod cell CL0000604
    CSI 10.28
    rCSI 18.11%
    PRS 68.04
  • pro-B cell CL0000826
    CSI 8.35
    rCSI 6.91%
    PRS 74.42
  • mucus secreting cell CL0000319
    CSI 7.65
    rCSI 12.15%
    PRS 81.95
  • dendritic cell, human CL0001056
    CSI 6.51
    rCSI 10%
    PRS 81.2
  • erythrocyte CL0000232
    CSI 5.31
    rCSI 12.04%
    PRS 73.97
  • common myeloid progenitor CL0000049
    CSI 4.77
    rCSI 3.86%
    PRS 74.03
  • granulocyte monocyte progenitor cell CL0000557
    CSI 4.66
    rCSI 4.03%
    PRS 76.67
  • retinal cone cell CL0000573
    CSI 4.13
    rCSI 6.64%
    PRS 61.41
  • brush cell of tracheobronchial tree CL0002075
    CSI 4.11
    rCSI 12.2%
    PRS 81.34
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 3.6
    rCSI 6.36%
    PRS 52.27
  • pancreatic D cell CL0000173
    CSI 3.54
    rCSI 3.48%
    PRS 74.66
  • kidney loop of Henle thin ascending limb epithelial cell CL1001107
    CSI 3.39
    rCSI 8.76%
    PRS 66.84
  • plasmablast CL0000980
    CSI 3.33
    rCSI 2.62%
    PRS 78.44
  • regular ventricular cardiac myocyte CL0002131
    CSI 3.08
    rCSI 19.23%
    PRS 63.36
  • double negative thymocyte CL0002489
    CSI 3.05
    rCSI 2.12%
    PRS 83.42
  • epithelial cell of proximal tubule CL0002306
    CSI 2.91
    rCSI 7.12%
    PRS 64.99
  • CD4-positive, alpha-beta memory T cell CL0000897
    CSI 2.91
    rCSI 2.09%
    PRS 85.31
  • melanocyte CL0000148
    CSI 2.84
    rCSI 2.11%
    PRS 64.77
  • central memory CD4-positive, alpha-beta T cell CL0000904
    CSI 2.81
    rCSI 1.66%
    PRS 88.09
  • interstitial cell of Cajal CL0002088
    CSI 2.77
    rCSI 3.52%
    PRS 77.65
  • choroid plexus epithelial cell CL0000706
    CSI 2.75
    rCSI 4.5%
    PRS 60.93
  • rod bipolar cell CL0000751
    CSI 2.72
    rCSI 4.89%
    PRS 65.14
  • effector CD8-positive, alpha-beta T cell CL0001050
    CSI 2.71
    rCSI 2.06%
    PRS 84.72
  • naive T cell CL0000898
    CSI 2.69
    rCSI 1.87%
    PRS 86.32
  • mature B cell CL0000785
    CSI 2.69
    rCSI 2.34%
    PRS 82.39
  • retinal bipolar neuron CL0000748
    CSI 2.66
    rCSI 4.98%
    PRS 59.77
  • pulmonary capillary endothelial cell CL4028001
    CSI 2.64
    rCSI 5.03%
    PRS 83.86
  • amacrine cell CL0000561
    CSI 2.62
    rCSI 7.58%
    PRS 61.09
  • Kupffer cell CL0000091
    CSI 2.58
    rCSI 5.9%
    PRS 72.64
  • epithelial cell of lower respiratory tract CL0002632
    CSI 2.52
    rCSI 1.95%
    PRS 75.29
  • intermediate monocyte CL0002393
    CSI 2.51
    rCSI 3.78%
    PRS 77.22
  • T follicular helper cell CL0002038
    CSI 2.5
    rCSI 1.87%
    PRS 85.84
  • ionocyte CL0005006
    CSI 2.46
    rCSI 2.63%
    PRS 72.63
  • early lymphoid progenitor CL0000936
    CSI 2.42
    rCSI 2.13%
    PRS 77.4
  • intestine goblet cell CL0019031
    CSI 2.38
    rCSI 2.11%
    PRS 69.87
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 2.37
    rCSI 6.18%
    PRS 72.48
  • epithelial cell of lung CL0000082
    CSI 2.32
    rCSI 1.93%
    PRS 72.24
  • keratinocyte CL0000312
    CSI 2.32
    rCSI 1.94%
    PRS 75.41
  • sst GABAergic cortical interneuron CL4023017
    CSI 2.32
    rCSI 2.99%
    PRS 54.55
  • fibroblast of lung CL0002553
    CSI 2.31
    rCSI 2.15%
    PRS 72.81
  • effector memory CD8-positive, alpha-beta T cell CL0000913
    CSI 2.31
    rCSI 2.1%
    PRS 85.13
  • alveolar type 1 fibroblast cell CL4028004
    CSI 2.25
    rCSI 2.47%
    PRS 74.93
  • precursor B cell CL0000817
    CSI 2.19
    rCSI 1.92%
    PRS 80.31
  • group 3 innate lymphoid cell CL0001071
    CSI 2.19
    rCSI 1.64%
    PRS 77.93
  • secretory cell CL0000151
    CSI 2.19
    rCSI 2.28%
    PRS 71.81
  • perivascular cell CL4033054
    CSI 2.18
    rCSI 2.97%
    PRS 77.48
  • mesodermal cell CL0000222
    CSI 2.13
    rCSI 2.56%
    PRS 70.02
  • neural crest cell CL0011012
    CSI 2.1
    rCSI 1.66%
    PRS 59.38
  • CD4-positive helper T cell CL0000492
    CSI 2.1
    rCSI 1.59%
    PRS 85.1
  • alpha-beta T cell CL0000789
    CSI 2.09
    rCSI 2.45%
    PRS 86.78
  • colonocyte CL1000347
    CSI 2.07
    rCSI 2.96%
    PRS 74.02
  • cerebral cortex neuron CL0010012
    CSI 2.02
    rCSI 8.21%
    PRS 64.65
  • VIP GABAergic cortical interneuron CL4023016
    CSI 2.01
    rCSI 2.4%
    PRS 53.04
  • extravillous trophoblast CL0008036
    CSI 1.99
    rCSI 2.46%
    PRS 69.25
  • colon epithelial cell CL0011108
    CSI 1.98
    rCSI 2.07%
    PRS 69.06
  • ciliated epithelial cell CL0000067
    CSI 1.97
    rCSI 1.73%
    PRS 60.21
  • myeloid leukocyte CL0000766
    CSI 1.97
    rCSI 1.81%
    PRS 73.59
  • vascular leptomeningeal cell CL4023051
    CSI 1.95
    rCSI 3.42%
    PRS 64.57
  • hepatic stellate cell CL0000632
    CSI 1.93
    rCSI 7.21%
    PRS 63.85
  • elicited macrophage CL0000861
    CSI 1.92
    rCSI 1.77%
    PRS 80.93
  • neutrophil CL0000775
    CSI 1.9
    rCSI 10.64%
    PRS 75.77
  • hepatocyte CL0000182
    CSI 1.88
    rCSI 3.36%
    PRS 71.41
  • stem cell CL0000034
    CSI 1.88
    rCSI 1.81%
    PRS 63.97
  • cerebral cortex endothelial cell CL1001602
    CSI 1.85
    rCSI 3.19%
    PRS 62.51
  • fallopian tube secretory epithelial cell CL4030006
    CSI 1.85
    rCSI 1.78%
    PRS 71.6
  • enteric smooth muscle cell CL0002504
    CSI 1.82
    rCSI 2.6%
    PRS 73.54
  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 1.8
    rCSI 2.56%
    PRS 68.12
  • retina horizontal cell CL0000745
    CSI 1.74
    rCSI 2.66%
    PRS 68.49
  • goblet cell CL0000160
    CSI 1.72
    rCSI 1.63%
    PRS 71.25
  • ependymal cell CL0000065
    CSI 1.69
    rCSI 3.43%
    PRS 50.06
  • lung endothelial cell CL1001567
    CSI 1.68
    rCSI 3.92%
    PRS 86.03
  • nasal mucosa goblet cell CL0002480
    CSI 1.68
    rCSI 1.94%
    PRS 77.72
  • CD14-low, CD16-positive monocyte CL0002396
    CSI 1.67
    rCSI 1.29%
    PRS 74.03
  • mononuclear phagocyte CL0000113
    CSI 1.64
    rCSI 3.61%
    PRS 76.21
  • astrocyte of the cerebral cortex CL0002605
    CSI 1.64
    rCSI 3.67%
    PRS 53.79
  • double-positive, alpha-beta thymocyte CL0000809
    CSI 1.63
    rCSI 1.66%
    PRS 83.07
  • squamous epithelial cell CL0000076
    CSI 1.58
    rCSI 3.76%
    PRS 73.93
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 1.58
    rCSI 1.97%
    PRS 51.23
  • intestinal tuft cell CL0019032
    CSI 1.58
    rCSI 2.41%
    PRS 76.24
  • ciliated cell CL0000064
    CSI 1.58
    rCSI 2.55%
    PRS 67.64
  • centrilobular region hepatocyte CL0019029
    CSI 1.57
    rCSI 4.09%
    PRS 72.77
  • chondrocyte CL0000138
    CSI 1.56
    rCSI 2.48%
    PRS 64.54
  • conjunctival epithelial cell CL1000432
    CSI 1.54
    rCSI 2.35%
    PRS 72.48
  • periportal region hepatocyte CL0019026
    CSI 1.49
    rCSI 5.78%
    PRS 73.93
  • placental villous trophoblast CL2000060
    CSI 1.46
    rCSI 2.26%
    PRS 70.95
  • pancreatic acinar cell CL0002064
    CSI 1.41
    rCSI 1.88%
    PRS 78.21
  • CD8-positive, alpha-beta cytotoxic T cell CL0000794
    CSI 1.38
    rCSI 1.65%
    PRS 88.81
  • enteroendocrine cell CL0000164
    CSI 1.37
    rCSI 1.87%
    PRS 72.84
  • megakaryocyte-erythroid progenitor cell CL0000050
    CSI 1.33
    rCSI 1.2%
    PRS 69.38
  • sncg GABAergic cortical interneuron CL4023015
    CSI 1.31
    rCSI 2.1%
    PRS 55.03
  • lung ciliated cell CL1000271
    CSI 1.3
    rCSI 1.51%
    PRS 63.15
  • peripheral nervous system neuron CL2000032
    CSI 1.3
    rCSI 1.78%
    PRS 63.24
  • differentiation-committed oligodendrocyte precursor CL4023059
    CSI 1.26
    rCSI 2.29%
    PRS 63.11
  • lung secretory cell CL1000272
    CSI 1.25
    rCSI 3.1%
    PRS 70.93
  • multi-ciliated epithelial cell CL0005012
    CSI 1.21
    rCSI 1.2%
    PRS 65.59
  • promonocyte CL0000559
    CSI 1.18
    rCSI 2.02%
    PRS 79.69
  • lung pericyte CL0009089
    CSI 1.16
    rCSI 3.06%
    PRS 80.12
  • parietal epithelial cell CL1000452
    CSI 1.09
    rCSI 2.9%
    PRS 62.86
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 0.98
    rCSI 3.08%
    PRS 57.46
  • kidney connecting tubule epithelial cell CL1000768
    CSI 0.97
    rCSI 2.46%
    PRS 61.66
  • medium spiny neuron CL1001474
    CSI 0.2
    rCSI 1.5%
    PRS 59.1%
  • indirect pathway medium spiny neuron CL4023029
    CSI 0.2
    rCSI 5.9%
    PRS 52.7%
  • direct pathway medium spiny neuron CL4023026
    CSI 0.3
    rCSI 7.6%
    PRS 52.0%
  • deuterosomal cell CL4033044
    CSI 0.5
    rCSI 1.6%
    PRS 72.5%
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 0.5
    rCSI 2.8%
    PRS 54.3%
  • effector memory CD8-positive, alpha-beta T cell, terminally differentiated CL0001062
    CSI 0.5
    rCSI 2.5%
    PRS 84.3%
  • L6b glutamatergic cortical neuron CL4023038
    CSI 0.5
    rCSI 1.6%
    PRS 55.0%
  • podocyte CL0000653
    CSI 0.6
    rCSI 2.6%
    PRS 72.4%
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 0.6
    rCSI 2.3%
    PRS 53.7%
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 0.6
    rCSI 1.5%
    PRS 51.5%
  • blood vessel smooth muscle cell CL0019018
    CSI 0.7
    rCSI 5.8%
    PRS 65.5%
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 0.7
    rCSI 1.3%
    PRS 53.2%
  • retinal ganglion cell CL0000740
    CSI 1.0
    rCSI 2.1%
    PRS 57.7%
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 1.0
    rCSI 3.5%
    PRS 51.3%
  • kidney connecting tubule epithelial cell CL1000768
    CSI 1.0
    rCSI 2.5%
    PRS 61.7%
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 1.0
    rCSI 3.1%
    PRS 57.5%
  • parietal epithelial cell CL1000452
    CSI 1.1
    rCSI 2.9%
    PRS 62.9%
  • lung pericyte CL0009089
    CSI 1.2
    rCSI 3.1%
    PRS 80.1%
  • promonocyte CL0000559
    CSI 1.2
    rCSI 2.0%
    PRS 79.7%
  • multi-ciliated epithelial cell CL0005012
    CSI 1.2
    rCSI 1.2%
    PRS 65.6%
  • lung secretory cell CL1000272
    CSI 1.3
    rCSI 3.1%
    PRS 70.9%
  • differentiation-committed oligodendrocyte precursor CL4023059
    CSI 1.3
    rCSI 2.3%
    PRS 63.1%
  • peripheral nervous system neuron CL2000032
    CSI 1.3
    rCSI 1.8%
    PRS 63.2%
  • lung ciliated cell CL1000271
    CSI 1.3
    rCSI 1.5%
    PRS 63.2%
  • sncg GABAergic cortical interneuron CL4023015
    CSI 1.3
    rCSI 2.1%
    PRS 55.0%
  • megakaryocyte-erythroid progenitor cell CL0000050
    CSI 1.3
    rCSI 1.2%
    PRS 69.4%
  • enteroendocrine cell CL0000164
    CSI 1.4
    rCSI 1.9%
    PRS 72.8%
  • CD8-positive, alpha-beta cytotoxic T cell CL0000794
    CSI 1.4
    rCSI 1.7%
    PRS 88.8%
  • pancreatic acinar cell CL0002064
    CSI 1.4
    rCSI 1.9%
    PRS 78.2%
  • placental villous trophoblast CL2000060
    CSI 1.5
    rCSI 2.3%
    PRS 71.0%
  • periportal region hepatocyte CL0019026
    CSI 1.5
    rCSI 5.8%
    PRS 73.9%
  • conjunctival epithelial cell CL1000432
    CSI 1.5
    rCSI 2.4%
    PRS 72.5%
  • chondrocyte CL0000138
    CSI 1.6
    rCSI 2.5%
    PRS 64.5%
  • centrilobular region hepatocyte CL0019029
    CSI 1.6
    rCSI 4.1%
    PRS 72.8%
  • ciliated cell CL0000064
    CSI 1.6
    rCSI 2.6%
    PRS 67.6%
  • intestinal tuft cell CL0019032
    CSI 1.6
    rCSI 2.4%
    PRS 76.2%
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 1.6
    rCSI 2.0%
    PRS 51.2%
  • squamous epithelial cell CL0000076
    CSI 1.6
    rCSI 3.8%
    PRS 73.9%
  • double-positive, alpha-beta thymocyte CL0000809
    CSI 1.6
    rCSI 1.7%
    PRS 83.1%
  • astrocyte of the cerebral cortex CL0002605
    CSI 1.6
    rCSI 3.7%
    PRS 53.8%
  • mononuclear phagocyte CL0000113
    CSI 1.6
    rCSI 3.6%
    PRS 76.2%
  • CD14-low, CD16-positive monocyte CL0002396
    CSI 1.7
    rCSI 1.3%
    PRS 74.0%
  • nasal mucosa goblet cell CL0002480
    CSI 1.7
    rCSI 1.9%
    PRS 77.7%
  • lung endothelial cell CL1001567
    CSI 1.7
    rCSI 3.9%
    PRS 86.0%
  • ependymal cell CL0000065
    CSI 1.7
    rCSI 3.4%
    PRS 50.1%
  • goblet cell CL0000160
    CSI 1.7
    rCSI 1.6%
    PRS 71.3%
  • retina horizontal cell CL0000745
    CSI 1.7
    rCSI 2.7%
    PRS 68.5%
  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 1.8
    rCSI 2.6%
    PRS 68.1%
  • enteric smooth muscle cell CL0002504
    CSI 1.8
    rCSI 2.6%
    PRS 73.5%
  • fallopian tube secretory epithelial cell CL4030006
    CSI 1.9
    rCSI 1.8%
    PRS 71.6%
  • cerebral cortex endothelial cell CL1001602
    CSI 1.9
    rCSI 3.2%
    PRS 62.5%
  • stem cell CL0000034
    CSI 1.9
    rCSI 1.8%
    PRS 64.0%
  • hepatocyte CL0000182
    CSI 1.9
    rCSI 3.4%
    PRS 71.4%
  • neutrophil CL0000775
    CSI 1.9
    rCSI 10.6%
    PRS 75.8%
  • elicited macrophage CL0000861
    CSI 1.9
    rCSI 1.8%
    PRS 80.9%
  • hepatic stellate cell CL0000632
    CSI 1.9
    rCSI 7.2%
    PRS 63.9%
  • vascular leptomeningeal cell CL4023051
    CSI 2.0
    rCSI 3.4%
    PRS 64.6%
  • myeloid leukocyte CL0000766
    CSI 2.0
    rCSI 1.8%
    PRS 73.6%
  • ciliated epithelial cell CL0000067
    CSI 2.0
    rCSI 1.7%
    PRS 60.2%
  • colon epithelial cell CL0011108
    CSI 2.0
    rCSI 2.1%
    PRS 69.1%
  • extravillous trophoblast CL0008036
    CSI 2.0
    rCSI 2.5%
    PRS 69.3%
  • VIP GABAergic cortical interneuron CL4023016
    CSI 2.0
    rCSI 2.4%
    PRS 53.0%
  • cerebral cortex neuron CL0010012
    CSI 2.0
    rCSI 8.2%
    PRS 64.7%
  • colonocyte CL1000347
    CSI 2.1
    rCSI 3.0%
    PRS 74.0%
  • alpha-beta T cell CL0000789
    CSI 2.1
    rCSI 2.5%
    PRS 86.8%
  • CD4-positive helper T cell CL0000492
    CSI 2.1
    rCSI 1.6%
    PRS 85.1%
  • neural crest cell CL0011012
    CSI 2.1
    rCSI 1.7%
    PRS 59.4%
  • mesodermal cell CL0000222
    CSI 2.1
    rCSI 2.6%
    PRS 70.0%
  • perivascular cell CL4033054
    CSI 2.2
    rCSI 3.0%
    PRS 77.5%
  • secretory cell CL0000151
    CSI 2.2
    rCSI 2.3%
    PRS 71.8%
  • group 3 innate lymphoid cell CL0001071
    CSI 2.2
    rCSI 1.6%
    PRS 77.9%
  • precursor B cell CL0000817
    CSI 2.2
    rCSI 1.9%
    PRS 80.3%
  • alveolar type 1 fibroblast cell CL4028004
    CSI 2.3
    rCSI 2.5%
    PRS 74.9%
  • effector memory CD8-positive, alpha-beta T cell CL0000913
    CSI 2.3
    rCSI 2.1%
    PRS 85.1%
  • fibroblast of lung CL0002553
    CSI 2.3
    rCSI 2.2%
    PRS 72.8%
  • sst GABAergic cortical interneuron CL4023017
    CSI 2.3
    rCSI 3.0%
    PRS 54.6%
  • keratinocyte CL0000312
    CSI 2.3
    rCSI 1.9%
    PRS 75.4%
  • epithelial cell of lung CL0000082
    CSI 2.3
    rCSI 1.9%
    PRS 72.2%
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 2.4
    rCSI 6.2%
    PRS 72.5%
  • intestine goblet cell CL0019031
    CSI 2.4
    rCSI 2.1%
    PRS 69.9%
  • early lymphoid progenitor CL0000936
    CSI 2.4
    rCSI 2.1%
    PRS 77.4%
  • ionocyte CL0005006
    CSI 2.5
    rCSI 2.6%
    PRS 72.6%
  • T follicular helper cell CL0002038
    CSI 2.5
    rCSI 1.9%
    PRS 85.8%
  • intermediate monocyte CL0002393
    CSI 2.5
    rCSI 3.8%
    PRS 77.2%
  • epithelial cell of lower respiratory tract CL0002632
    CSI 2.5
    rCSI 2.0%
    PRS 75.3%
  • Kupffer cell CL0000091
    CSI 2.6
    rCSI 5.9%
    PRS 72.6%
  • amacrine cell CL0000561
    CSI 2.6
    rCSI 7.6%
    PRS 61.1%
  • pulmonary capillary endothelial cell CL4028001
    CSI 2.6
    rCSI 5.0%
    PRS 83.9%
  • retinal bipolar neuron CL0000748
    CSI 2.7
    rCSI 5.0%
    PRS 59.8%
  • mature B cell CL0000785
    CSI 2.7
    rCSI 2.3%
    PRS 82.4%
  • naive T cell CL0000898
    CSI 2.7
    rCSI 1.9%
    PRS 86.3%
  • effector CD8-positive, alpha-beta T cell CL0001050
    CSI 2.7
    rCSI 2.1%
    PRS 84.7%
  • rod bipolar cell CL0000751
    CSI 2.7
    rCSI 4.9%
    PRS 65.1%
  • choroid plexus epithelial cell CL0000706
    CSI 2.8
    rCSI 4.5%
    PRS 60.9%
  • interstitial cell of Cajal CL0002088
    CSI 2.8
    rCSI 3.5%
    PRS 77.7%
  • central memory CD4-positive, alpha-beta T cell CL0000904
    CSI 2.8
    rCSI 1.7%
    PRS 88.1%
  • melanocyte CL0000148
    CSI 2.8
    rCSI 2.1%
    PRS 64.8%
  • CD4-positive, alpha-beta memory T cell CL0000897
    CSI 2.9
    rCSI 2.1%
    PRS 85.3%
  • epithelial cell of proximal tubule CL0002306
    CSI 2.9
    rCSI 7.1%
    PRS 65.0%
  • double negative thymocyte CL0002489
    CSI 3.1
    rCSI 2.1%
    PRS 83.4%

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

Comma-separated if multiple.
Comma-separated if multiple.

Legend:
  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [KDM5C](/details-gene/8242), or Lysine Demethylase 5C, is a protein-coding gene located on the X chromosome that plays a critical role in epigenetic regulation. As a member of the JmjC domain-containing protein family, it functions primarily as a histone demethylase, specifically targeting di- and tri-methylated lysine 4 on histone H3 (H3K4me2/3) ([Link](https://doi.org/10.1016/j.cell.2007.02.017), [Link](https://doi.org/10.1016/j.cell.2007.02.003)). This activity is integral to processes such as [chromatin remodeling](/details-cell/GO:0006338) and the [negative regulation of dna-templated transcription](/details-cell/GO:0045892). Expression data indicates its significance across a diverse range of cell types, with particularly high importance in [retinal rod cell](/details-cell/CL0000604), developing B-lymphocytes such as [pro-B cell](/details-cell/CL0000826), and various secretory and progenitor cells. Clinically, mutations in [KDM5C](/details-gene/8242) are associated with X-linked mental retardation ([OMIM:300534](https://omim.org/entry/300534)), highlighting its indispensable role in neurodevelopment ([Link](https://doi.org/10.1038/nature05823)). ## Cellular Roles and Expression Landscape The expression profile of [KDM5C](/details-gene/8242) suggests it is a fundamentally important epigenetic regulator active in numerous, seemingly disparate cellular lineages, rather than a marker for a single cell type. **Overall**, the gene shows the highest significance in specialized sensory neurons, specifically the [retinal rod cell](/details-cell/CL0000604) (CSI: 10.28), indicating a crucial role in maintaining the unique transcriptional state of photoreceptors. Its importance extends to the hematopoietic system, where it is highly significant in early lymphocyte development, as seen in the [pro-B cell](/details-cell/CL0000826) (CSI: 8.35), and in myeloid progenitors like the [common myeloid progenitor](/details-cell/CL0000049) (CSI: 4.77) and [granulocyte monocyte progenitor cell](/details-cell/CL0000557) (CSI: 4.66). This suggests a role in guiding cell fate decisions during blood cell formation. Furthermore, [KDM5C](/details-gene/8242) demonstrates notable significance in various secretory and specialized epithelial cells, including [mucus secreting cell](/details-cell/CL0000319) (CSI: 7.65) and [brush cell of tracheobronchial tree](/details-cell/CL0002075) (CSI: 4.11). Its activity in immune surveillance cells like the [dendritic cell, human](/details-cell/CL0001056) (CSI: 6.51) points to a function in regulating immune responses. The broad but distinct pattern of high significance across neuronal, hematopoietic, and epithelial lineages underscores its role as a master regulator of cell-specific gene expression programs through chromatin modification. ## Pathways and Molecular Function [KDM5C](/details-gene/8242) is a nuclear enzyme central to chromatin biology. Its molecular function is primarily defined by its [histone demethylase activity](/details-cell/GO:0032452), with high specificity for H3K4 methylation marks ([histone h3k4me/h3k4me2/h3k4me3 demethylase activity](/details-cell/GO:0034647)). The removal of these marks, which are generally associated with active transcription, positions [KDM5C](/details-gene/8242) as a transcriptional repressor. This core function contributes to several key biological processes: * **Chromatin Organization:** As an integral component of the [chromatin](/details-cell/GO:0000785) located in the [nucleus](/details-cell/GO:0005634), [KDM5C](/details-gene/8242) directly participates in [chromatin modifying enzymes](/details-cell/R-HSA-3247509) and [chromatin organization](/details-cell/R-HSA-4839726) pathways. Its ability to [demethylate histones](/details-cell/R-HSA-3214842) alters the local chromatin structure, impacting gene accessibility. * **Transcriptional Regulation:** By removing activating histone marks, it is a key player in the [negative regulation of dna-templated transcription](/details-cell/GO:0045892). This function is critical for silencing inappropriate gene expression and maintaining cellular identity. * **Binding Activities:** The protein's function is supported by its ability to bind to [dna binding](/details-cell/GO:0003677), [protein binding](/details-cell/GO:0005515), and [zinc ion binding](/details-cell/GO:0008270), which are likely necessary for its recruitment to specific genomic loci and for its catalytic activity. ## Research Directions The widespread importance of [KDM5C](/details-gene/8242) in cellular differentiation and its established link to neurodevelopmental disorders present several avenues for future investigation. **Testable Hypotheses:** 1. Given its high significance in both [pro-B cell](/details-cell/CL0000826) and the more differentiated [plasmablast](/details-cell/CL0000980), [KDM5C](/details-gene/8242) may be essential for orchestrating the epigenetic changes required for B-cell maturation. It likely represses progenitor-specific genes, thereby permitting terminal differentiation into antibody-secreting cells. Dysregulation of this process could contribute to hematological malignancies. 2. The exceptionally high significance of [KDM5C](/details-gene/8242) in [retinal rod cell](/details-cell/CL0000604) suggests it plays a vital, ongoing role in silencing non-photoreceptor genes to maintain the highly specialized state of these neurons. Its loss-of-function could lead to a gradual destabilization of the rod cell transcriptome, potentially contributing to retinal degenerative diseases. **Proposed Experimental Approach:** To test the hypothesis regarding its role in B-cell maturation, a conditional knockout mouse model could be generated using a CD19-Cre driver to specifically delete [KDM5C](/details-gene/8242) in the B-cell lineage. B-cell development in the bone marrow and spleen of these mice could be analyzed by flow cytometry to identify any blocks in maturation. Subsequently, purified B-cells from knockout and wild-type mice could be stimulated *in vitro* to differentiate into plasma cells, with differentiation efficiency measured by antibody secretion assays (ELISpot). To elucidate the molecular mechanism, chromatin immunoprecipitation sequencing (ChIP-seq) for H3K4me3 combined with RNA-sequencing (RNA-seq) on sorted B-cell populations would reveal the direct genomic targets of [KDM5C](/details-gene/8242) and the resulting transcriptional consequences of its absence. **Therapeutic Potential:** As an epigenetic "eraser," [KDM5C](/details-gene/8242) represents a potential therapeutic target. Because histone demethylases are often dysregulated in cancer, selective inhibitors of [KDM5C](/details-gene/8242) could be explored as a treatment for certain malignancies. For cancers dependent on the aberrant silencing of tumor suppressor genes, inhibiting [KDM5C](/details-gene/8242) could reactivate their expression and halt tumor progression. Thus, **inhibition** is the most likely therapeutic strategy. However, given its critical role in normal development, particularly in the nervous system, the therapeutic window for such an inhibitor would need to be carefully defined to avoid significant toxicity.

Genular Protein ID: 2768432041

Symbol: KDM5C_HUMAN

Name: Lysine-specific demethylase 5C

UniProtKB Accession Codes:

Database IDs:

Citations:

PubMed ID: 8162017

Title: Isolation and characterization of XE169, a novel human gene that escapes X-inactivation.

PubMed ID: 8162017

DOI: 10.1093/hmg/3.1.153

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15772651

Title: The DNA sequence of the human X chromosome.

PubMed ID: 15772651

DOI: 10.1038/nature03440

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 7951230

Title: A novel X gene with a widely transcribed Y-linked homologue escapes X-inactivation in mouse and human.

PubMed ID: 7951230

DOI: 10.1093/hmg/3.6.879

PubMed ID: 16964243

Title: A probability-based approach for high-throughput protein phosphorylation analysis and site localization.

PubMed ID: 16964243

DOI: 10.1038/nbt1240

PubMed ID: 17320161

Title: RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3.

PubMed ID: 17320161

DOI: 10.1016/j.cell.2007.02.003

PubMed ID: 17320160

Title: The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases.

PubMed ID: 17320160

DOI: 10.1016/j.cell.2007.02.017

PubMed ID: 17468742

Title: The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation.

PubMed ID: 17468742

DOI: 10.1038/nature05823

PubMed ID: 18669648

Title: A quantitative atlas of mitotic phosphorylation.

PubMed ID: 18669648

DOI: 10.1073/pnas.0805139105

PubMed ID: 19690332

Title: Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions.

PubMed ID: 19690332

DOI: 10.1126/scisignal.2000007

PubMed ID: 20068231

Title: Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis.

PubMed ID: 20068231

DOI: 10.1126/scisignal.2000475

PubMed ID: 21269460

Title: Initial characterization of the human central proteome.

PubMed ID: 21269460

DOI: 10.1186/1752-0509-5-17

PubMed ID: 21406692

Title: System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation.

PubMed ID: 21406692

DOI: 10.1126/scisignal.2001570

PubMed ID: 23186163

Title: Toward a comprehensive characterization of a human cancer cell phosphoproteome.

PubMed ID: 23186163

DOI: 10.1021/pr300630k

PubMed ID: 26645689

Title: Characterization of a Linked Jumonji Domain of the KDM5/JARID1 Family of Histone H3 Lysine 4 Demethylases.

PubMed ID: 26645689

DOI: 10.1074/jbc.m115.698449

PubMed ID: 28262558

Title: Potent and Selective KDM5 Inhibitor Stops Cellular Demethylation of H3K4me3 at Transcription Start Sites and Proliferation of MM1S Myeloma Cells.

PubMed ID: 28262558

DOI: 10.1016/j.chembiol.2017.02.006

PubMed ID: 28112733

Title: Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation.

PubMed ID: 28112733

DOI: 10.1038/nsmb.3366

PubMed ID: 33323928

Title: Suppression of poised oncogenes by ZMYND8 promotes chemo-sensitization.

PubMed ID: 33323928

DOI: 10.1038/s41419-020-03129-x

PubMed ID: 19636912

Title: Backbone and sidechain 1H, 13C and 15N resonance assignments of the Bright/ARID domain from the human JARID1C (SMCX) protein.

PubMed ID: 19636912

DOI: 10.1007/s12104-007-9071-7

PubMed ID: 27214403

Title: Structural analysis of human KDM5B guides histone demethylase inhibitor development.

PubMed ID: 27214403

DOI: 10.1038/nchembio.2087

PubMed ID: 15586325

Title: Mutations in the JARID1C gene, which is involved in transcriptional regulation and chromatin remodeling, cause X-linked mental retardation.

PubMed ID: 15586325

DOI: 10.1086/427563

PubMed ID: 16538222

Title: A novel mutation in JARID1C gene associated with mental retardation.

PubMed ID: 16538222

DOI: 10.1038/sj.ejhg.5201608

PubMed ID: 16541399

Title: Novel JARID1C/SMCX mutations in patients with X-linked mental retardation.

PubMed ID: 16541399

DOI: 10.1002/humu.9420

PubMed ID: 21076407

Title: A de novo paradigm for mental retardation.

PubMed ID: 21076407

DOI: 10.1038/ng.712

PubMed ID: 23356856

Title: Multilocus loss of DNA methylation in individuals with mutations in the histone H3 lysine 4 demethylase KDM5C.

PubMed ID: 23356856

DOI: 10.1186/1755-8794-6-1

PubMed ID: 25666439

Title: Mutations in the intellectual disability gene KDM5C reduce protein stability and demethylase activity.

PubMed ID: 25666439

DOI: 10.1093/hmg/ddv046

Sequence Information:

  • Length: 1560
  • Mass: 175720
  • Checksum: 5DC673D0091E7C87
  • Sequence:
  • MEPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA DWQPPFAVEV 
    DNFRFTPRIQ RLNELEAQTR VKLNYLDQIA KFWEIQGSSL KIPNVERRIL DLYSLSKIVV 
    EEGGYEAICK DRRWARVAQR LNYPPGKNIG SLLRSHYERI VYPYEMYQSG ANLVQCNTRP 
    FDNEEKDKEY KPHSIPLRQS VQPSKFNSYG RRAKRLQPDP EPTEEDIEKN PELKKLQIYG 
    AGPKMMGLGL MAKDKTLRKK DKEGPECPPT VVVKEELGGD VKVESTSPKT FLESKEELSH 
    SPEPCTKMTM RLRRNHSNAQ FIESYVCRMC SRGDEDDKLL LCDGCDDNYH IFCLLPPLPE 
    IPKGVWRCPK CVMAECKRPP EAFGFEQATR EYTLQSFGEM ADSFKADYFN MPVHMVPTEL 
    VEKEFWRLVN SIEEDVTVEY GADIHSKEFG SGFPVSDSKR HLTPEEEEYA TSGWNLNVMP 
    VLEQSVLCHI NADISGMKVP WLYVGMVFSA FCWHIEDHWS YSINYLHWGE PKTWYGVPSL 
    AAEHLEEVMK KLTPELFDSQ PDLLHQLVTL MNPNTLMSHG VPVVRTNQCA GEFVITFPRA 
    YHSGFNQGYN FAEAVNFCTA DWLPAGRQCI EHYRRLRRYC VFSHEELICK MAACPEKLDL 
    NLAAAVHKEM FIMVQEERRL RKALLEKGIT EAEREAFELL PDDERQCIKC KTTCFLSALA 
    CYDCPDGLVC LSHINDLCKC SSSRQYLRYR YTLDELPAML HKLKVRAESF DTWANKVRVA 
    LEVEDGRKRS LEELRALESE ARERRFPNSE LLQQLKNCLS EAEACVSRAL GLVSGQEAGP 
    HRVAGLQMTL TELRAFLDQM NNLPCAMHQI GDVKGVLEQV EAYQAEAREA LASLPSSPGL 
    LQSLLERGRQ LGVEVPEAQQ LQRQVEQARW LDEVKRTLAP SARRGTLAVM RGLLVAGASV 
    APSPAVDKAQ AELQELLTIA ERWEEKAHLC LEARQKHPPA TLEAIIREAE NIPVHLPNIQ 
    ALKEALAKAR AWIADVDEIQ NGDHYPCLDD LEGLVAVGRD LPVGLEELRQ LELQVLTAHS 
    WREKASKTFL KKNSCYTLLE VLCPCADAGS DSTKRSRWME KELGLYKSDT ELLGLSAQDL 
    RDPGSVIVAF KEGEQKEKEG ILQLRRTNSA KPSPLASSST ASSTTSICVC GQVLAGAGAL 
    QCDLCQDWFH GRCVSVPRLL SSPRPNPTSS PLLAWWEWDT KFLCPLCMRS RRPRLETILA 
    LLVALQRLPV RLPEGEALQC LTERAISWQG RARQALASED VTALLGRLAE LRQRLQAEPR 
    PEEPPNYPAA PASDPLREGS GKDMPKVQGL LENGDSVTSP EKVAPEEGSG KRDLELLSSL 
    LPQLTGPVLE LPEATRAPLE ELMMEGDLLE VTLDENHSIW QLLQAGQPPD LERIRTLLEL 
    EKAERHGSRA RGRALERRRR RKVDRGGEGD DPAREELEPK RVRSSGPEAE EVQEEEELEE 
    ETGGEGPPAP IPTTGSPSTQ ENQNGLEPAE GTTSGPSAPF STLTPRLHLP CPQQPPQQQL

Genular Protein ID: 1426128277

Symbol: A0A6M4C8G8_HUMAN

Name: N/A

UniProtKB Accession Codes:

Database IDs:

Sequence Information:

  • Length: 1379
  • Mass: 155119
  • Checksum: 20A82456B8CF788E
  • Sequence:
  • MEPGSDDFLP PPECPVFEPS WAEFRDPLGY IAKIRPIAEK SGICKIRPPA IVVEEGGYEA 
    ICKDRRWARV AQRLNYPPGK NIGSLLRSHY ERIVYPYEMY QSGANLVQCN TRPFDNEEKD 
    KEYKPHSIPL RQSVQPSKFN SYGRRAKRLQ PDPEPTEEDI EKNPELKKLQ IYGAGPKMMG 
    LGLMAKDKTL RKKDKEGPEC PPTVVVKEEL GGDVKVESTS PKTFLESKEE LSHSPEPCTK 
    MTMRLRRNHS NAQFIESYVC RMCSRGDEDD KLLLCDGCDD NYHIFCLLPP LPEIPKGVWR 
    CPKCVMAECK RPPEAFGFEQ ATREYTLQSF GEMADSFKAD YFNMPVHMVP TELVEKEFWR 
    LVNSIEEDVT VEYGADIHSK EFGSGFPVSD SKRHLTPEEE EYATSGWNLN VMPVLEQSVL 
    CHINADISGM KVPWLYVGMV FSAFCWHIED HWSYSINYLH WGEPKTWYGV PSLAAEHLEE 
    VMKKLTPELF DSQPDLLHQL VTLMNPNTLM SHGVPVVRTN QCAGEFVITF PRAYHSGFNQ 
    GYNFAEAVNF CTADWLPAGR QCIEHYRRLR RYCVFSHEEL ICKMAACPEK LDLNLAAAVH 
    KEMFIMVQEE RRLRKALLEK GITEAEREAF ELLPDDERQC IKCKTTCFLS ALACYDCPDG 
    LVCLSHINDL CKCSSSRQYL RYRYTLDELP AMLHKLKVRA ESFDTWANKV RVALEVEDGR 
    KRSLEELRAL ESEARERRFP NSELLQQLKN CLSEAEACVS RALGLVSGQE AGPHRVAGLQ 
    MTLTELRAFL DQMNNLPCAM HQIGDVKGVL EQVEAYQAEA REALASLPSS PGLLQSLLER 
    GRQLGVEVPE AQQLQRQVEQ ARWLDEVKRT LAPSARRGTL AVMRGLLVAG ASVAPSPAVD 
    KAQAELQELL TIAERWEEKA HLCLEARQKH PPATLEAIIR EAENIPVHLP NIQALKEALA 
    KARAWIADVD EIQNGDHYPC LDDLEGLVAV GRDLPVGLEE LRQLELQVLT AHSWREKASK 
    TFLKKNSCYT LLEVLCPCAD AGSDSTKRSR WMEKELGLYK SDTELLGLSA QDLRDPGSVI 
    VAFKEGEQKE KEGILQLRRT NSAKPSPLAS SSTASSTTSI CVCGQVLAGA GALQCDLCQD 
    WFHGRCVSVP RLLSSPRPNP TSSPLLAWWE WDTKFLCPLC MRSRRPRLET ILALLVALQR 
    LPVRLPEGEA LQCLTERAIS WQGRARQALA SEDVTALLGR LAELRQRLQA EPRPEEPPNY 
    PAAPASDPLR EGSGKDMPKV QGLLENGDSV TSPEKVAPEE GSDLELLSSL LPQLTGPVLE 
    LPEATRAPLE ELMMEGDLLE VTLDENHSIP ESLDFCILTP RYCSDLSSWG PAPGVFPPW