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Gene: KDM3A |
Gene summary for KDM3A |
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Gene information | Species | Human | Gene symbol | KDM3A | Gene ID | 55818 |
Gene name | lysine demethylase 3A | |
Gene Alias | JHDM2A | |
Cytomap | 2p11.2 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | Q9Y4C1 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
55818 | KDM3A | CCI_1 | Human | Cervix | CC | 1.87e-05 | 7.07e-01 | 0.528 |
55818 | KDM3A | CCI_2 | Human | Cervix | CC | 1.90e-02 | 4.66e-01 | 0.5249 |
55818 | KDM3A | CCI_3 | Human | Cervix | CC | 1.13e-06 | 5.99e-01 | 0.516 |
55818 | KDM3A | LZE4T | Human | Esophagus | ESCC | 9.12e-13 | 5.10e-01 | 0.0811 |
55818 | KDM3A | LZE7T | Human | Esophagus | ESCC | 1.89e-03 | 3.65e-01 | 0.0667 |
55818 | KDM3A | LZE8T | Human | Esophagus | ESCC | 4.23e-09 | 1.66e-01 | 0.067 |
55818 | KDM3A | LZE22T | Human | Esophagus | ESCC | 1.43e-03 | 1.92e-01 | 0.068 |
55818 | KDM3A | LZE24T | Human | Esophagus | ESCC | 1.77e-15 | 3.08e-01 | 0.0596 |
55818 | KDM3A | LZE6T | Human | Esophagus | ESCC | 1.52e-02 | 1.73e-02 | 0.0845 |
55818 | KDM3A | P1T-E | Human | Esophagus | ESCC | 1.92e-06 | 2.93e-01 | 0.0875 |
55818 | KDM3A | P2T-E | Human | Esophagus | ESCC | 8.51e-19 | 3.77e-01 | 0.1177 |
55818 | KDM3A | P4T-E | Human | Esophagus | ESCC | 2.34e-10 | 3.05e-01 | 0.1323 |
55818 | KDM3A | P5T-E | Human | Esophagus | ESCC | 1.51e-13 | 1.97e-01 | 0.1327 |
55818 | KDM3A | P8T-E | Human | Esophagus | ESCC | 8.67e-16 | 1.02e-01 | 0.0889 |
55818 | KDM3A | P9T-E | Human | Esophagus | ESCC | 6.97e-11 | 9.47e-02 | 0.1131 |
55818 | KDM3A | P10T-E | Human | Esophagus | ESCC | 4.30e-21 | 5.07e-01 | 0.116 |
55818 | KDM3A | P11T-E | Human | Esophagus | ESCC | 2.69e-07 | 4.03e-01 | 0.1426 |
55818 | KDM3A | P12T-E | Human | Esophagus | ESCC | 2.70e-22 | 4.47e-01 | 0.1122 |
55818 | KDM3A | P15T-E | Human | Esophagus | ESCC | 3.49e-23 | 6.34e-01 | 0.1149 |
55818 | KDM3A | P16T-E | Human | Esophagus | ESCC | 2.29e-14 | 3.02e-01 | 0.1153 |
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∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
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Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | ![]() |
Colorectum | SER | ![]() |
Colorectum | MSS | ![]() |
Colorectum | MSI-H | ![]() |
Colorectum | FAP | ![]() |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:004854510 | Cervix | CC | response to steroid hormone | 74/2311 | 339/18723 | 5.71e-07 | 2.09e-05 | 74 |
GO:00305229 | Cervix | CC | intracellular receptor signaling pathway | 60/2311 | 265/18723 | 1.89e-06 | 5.97e-05 | 60 |
GO:20007362 | Cervix | CC | regulation of stem cell differentiation | 19/2311 | 58/18723 | 4.01e-05 | 6.21e-04 | 19 |
GO:00488634 | Cervix | CC | stem cell differentiation | 46/2311 | 206/18723 | 4.11e-05 | 6.36e-04 | 46 |
GO:00165705 | Cervix | CC | histone modification | 84/2311 | 463/18723 | 1.70e-04 | 2.01e-03 | 84 |
GO:00349685 | Cervix | CC | histone lysine methylation | 27/2311 | 115/18723 | 6.61e-04 | 6.09e-03 | 27 |
GO:00310565 | Cervix | CC | regulation of histone modification | 33/2311 | 152/18723 | 7.97e-04 | 7.00e-03 | 33 |
GO:00987275 | Cervix | CC | maintenance of cell number | 30/2311 | 134/18723 | 7.98e-04 | 7.00e-03 | 30 |
GO:00198274 | Cervix | CC | stem cell population maintenance | 29/2311 | 131/18723 | 1.17e-03 | 9.47e-03 | 29 |
GO:00165715 | Cervix | CC | histone methylation | 30/2311 | 141/18723 | 1.88e-03 | 1.39e-02 | 30 |
GO:00713839 | Cervix | CC | cellular response to steroid hormone stimulus | 40/2311 | 204/18723 | 1.93e-03 | 1.42e-02 | 40 |
GO:19908234 | Cervix | CC | response to leukemia inhibitory factor | 22/2311 | 95/18723 | 2.40e-03 | 1.70e-02 | 22 |
GO:00180224 | Cervix | CC | peptidyl-lysine methylation | 28/2311 | 131/18723 | 2.43e-03 | 1.71e-02 | 28 |
GO:00064795 | Cervix | CC | protein methylation | 36/2311 | 181/18723 | 2.46e-03 | 1.71e-02 | 36 |
GO:00082135 | Cervix | CC | protein alkylation | 36/2311 | 181/18723 | 2.46e-03 | 1.71e-02 | 36 |
GO:00305188 | Cervix | CC | intracellular steroid hormone receptor signaling pathway | 25/2311 | 116/18723 | 3.59e-03 | 2.30e-02 | 25 |
GO:19908304 | Cervix | CC | cellular response to leukemia inhibitory factor | 21/2311 | 94/18723 | 4.68e-03 | 2.82e-02 | 21 |
GO:00305218 | Cervix | CC | androgen receptor signaling pathway | 12/2311 | 44/18723 | 5.76e-03 | 3.30e-02 | 12 |
GO:00182054 | Cervix | CC | peptidyl-lysine modification | 62/2311 | 376/18723 | 1.04e-02 | 4.97e-02 | 62 |
GO:001657015 | Esophagus | ESCC | histone modification | 323/8552 | 463/18723 | 2.61e-26 | 7.88e-24 | 323 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0471420 | Cervix | CC | Thermogenesis | 76/1267 | 232/8465 | 4.29e-12 | 1.16e-10 | 6.85e-11 | 76 |
hsa04714110 | Cervix | CC | Thermogenesis | 76/1267 | 232/8465 | 4.29e-12 | 1.16e-10 | 6.85e-11 | 76 |
hsa04714211 | Esophagus | ESCC | Thermogenesis | 163/4205 | 232/8465 | 9.22e-11 | 1.14e-09 | 5.86e-10 | 163 |
hsa04714310 | Esophagus | ESCC | Thermogenesis | 163/4205 | 232/8465 | 9.22e-11 | 1.14e-09 | 5.86e-10 | 163 |
hsa0471422 | Liver | HCC | Thermogenesis | 170/4020 | 232/8465 | 5.36e-16 | 2.25e-14 | 1.25e-14 | 170 |
hsa0471432 | Liver | HCC | Thermogenesis | 170/4020 | 232/8465 | 5.36e-16 | 2.25e-14 | 1.25e-14 | 170 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
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Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
KDM3A | SNV | Missense_Mutation | novel | c.2045N>T | p.Gly682Val | p.G682V | Q9Y4C1 | protein_coding | tolerated(0.36) | possibly_damaging(0.638) | TCGA-CV-6942-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
KDM3A | SNV | Missense_Mutation | novel | c.1192N>A | p.Asp398Asn | p.D398N | Q9Y4C1 | protein_coding | tolerated_low_confidence(0.35) | benign(0) | TCGA-CX-7085-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
KDM3A | SNV | Missense_Mutation | novel | c.800N>G | p.Asn267Ser | p.N267S | Q9Y4C1 | protein_coding | tolerated(0.43) | benign(0) | TCGA-WA-A7GZ-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
KDM3A | insertion | Frame_Shift_Ins | novel | c.1939_1939+1insCCATGTTT | p.Arg647ThrfsTer47 | p.R647Tfs*47 | Q9Y4C1 | protein_coding | TCGA-H7-8502-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | unknown | SD | ||
KDM3A | SNV | Missense_Mutation | c.2143N>T | p.His715Tyr | p.H715Y | Q9Y4C1 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-EJ-5516-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD | |
KDM3A | SNV | Missense_Mutation | novel | c.1787N>G | p.Asp596Gly | p.D596G | Q9Y4C1 | protein_coding | tolerated(0.05) | probably_damaging(0.93) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD |
KDM3A | SNV | Missense_Mutation | novel | c.2452N>G | p.Thr818Ala | p.T818A | Q9Y4C1 | protein_coding | tolerated(0.47) | benign(0) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD |
KDM3A | SNV | Missense_Mutation | c.3508N>G | p.Pro1170Ala | p.P1170A | Q9Y4C1 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-BR-6454-01 | Stomach | stomach adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
KDM3A | SNV | Missense_Mutation | c.2011N>G | p.Asn671Asp | p.N671D | Q9Y4C1 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-BR-8368-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
KDM3A | SNV | Missense_Mutation | c.3376G>A | p.Ala1126Thr | p.A1126T | Q9Y4C1 | protein_coding | deleterious(0.01) | probably_damaging(1) | TCGA-BR-8487-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
55818 | KDM3A | ENZYME | inhibitor | 249565910 |
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