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Gene: CHD4 |
Gene summary for CHD4 |
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Gene information | Species | Human | Gene symbol | CHD4 | Gene ID | 1108 |
Gene name | chromodomain helicase DNA binding protein 4 | |
Gene Alias | CHD-4 | |
Cytomap | 12p13.31 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | Q14839 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
1108 | CHD4 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.45e-02 | 2.09e-01 | 0.0155 |
1108 | CHD4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.43e-02 | 3.55e-01 | -0.1808 |
1108 | CHD4 | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.79e-10 | 6.41e-01 | -0.0811 |
1108 | CHD4 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.71e-03 | 3.79e-01 | -0.1088 |
1108 | CHD4 | HTA11_347_2000001011 | Human | Colorectum | AD | 9.13e-15 | 5.77e-01 | -0.1954 |
1108 | CHD4 | HTA11_696_2000001011 | Human | Colorectum | AD | 3.94e-12 | 5.47e-01 | -0.1464 |
1108 | CHD4 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.58e-12 | 5.26e-01 | -0.1001 |
1108 | CHD4 | HTA11_1391_2000001011 | Human | Colorectum | AD | 3.92e-19 | 8.85e-01 | -0.059 |
1108 | CHD4 | HTA11_546_2000001011 | Human | Colorectum | AD | 1.00e-08 | 6.54e-01 | -0.0842 |
1108 | CHD4 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.01e-16 | 6.90e-01 | 0.096 |
1108 | CHD4 | HTA11_7663_2000001011 | Human | Colorectum | SER | 2.45e-03 | 8.41e-01 | 0.0131 |
1108 | CHD4 | HTA11_6801_2000001011 | Human | Colorectum | SER | 1.63e-05 | 8.31e-01 | 0.0171 |
1108 | CHD4 | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.54e-06 | 6.46e-01 | 0.0338 |
1108 | CHD4 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.81e-35 | 9.93e-01 | 0.0674 |
1108 | CHD4 | HTA11_6818_2000001011 | Human | Colorectum | AD | 1.43e-02 | 6.23e-01 | 0.0112 |
1108 | CHD4 | HTA11_6818_2000001021 | Human | Colorectum | AD | 1.87e-10 | 6.56e-01 | 0.0588 |
1108 | CHD4 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 9.51e-23 | 7.84e-01 | 0.294 |
1108 | CHD4 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 2.10e-05 | 1.25e+00 | 0.3487 |
1108 | CHD4 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 4.70e-26 | 1.16e+00 | 0.281 |
1108 | CHD4 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.73e-28 | 9.40e-01 | 0.3859 |
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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:0006325 | Colorectum | AD | chromatin organization | 119/3918 | 409/18723 | 4.85e-05 | 8.33e-04 | 119 |
GO:0032392 | Colorectum | AD | DNA geometric change | 31/3918 | 90/18723 | 2.02e-03 | 1.63e-02 | 31 |
GO:0006338 | Colorectum | AD | chromatin remodeling | 70/3918 | 255/18723 | 7.44e-03 | 4.53e-02 | 70 |
GO:00063251 | Colorectum | SER | chromatin organization | 89/2897 | 409/18723 | 4.15e-04 | 6.17e-03 | 89 |
GO:00063252 | Colorectum | MSS | chromatin organization | 107/3467 | 409/18723 | 7.22e-05 | 1.21e-03 | 107 |
GO:00323921 | Colorectum | MSS | DNA geometric change | 29/3467 | 90/18723 | 1.26e-03 | 1.20e-02 | 29 |
GO:0032508 | Colorectum | MSS | DNA duplex unwinding | 25/3467 | 84/18723 | 8.27e-03 | 4.99e-02 | 25 |
GO:00063253 | Colorectum | FAP | chromatin organization | 84/2622 | 409/18723 | 1.62e-04 | 2.47e-03 | 84 |
GO:000632516 | Esophagus | HGIN | chromatin organization | 92/2587 | 409/18723 | 1.05e-06 | 4.16e-05 | 92 |
GO:00323926 | Esophagus | HGIN | DNA geometric change | 25/2587 | 90/18723 | 3.77e-04 | 5.85e-03 | 25 |
GO:00325084 | Esophagus | HGIN | DNA duplex unwinding | 22/2587 | 84/18723 | 1.91e-03 | 2.03e-02 | 22 |
GO:0072594110 | Esophagus | ESCC | establishment of protein localization to organelle | 311/8552 | 422/18723 | 3.02e-32 | 2.13e-29 | 311 |
GO:0006605111 | Esophagus | ESCC | protein targeting | 229/8552 | 314/18723 | 4.93e-23 | 1.01e-20 | 229 |
GO:0006457110 | Esophagus | ESCC | protein folding | 163/8552 | 212/18723 | 1.13e-20 | 1.74e-18 | 163 |
GO:0006839110 | Esophagus | ESCC | mitochondrial transport | 187/8552 | 254/18723 | 8.35e-20 | 9.81e-18 | 187 |
GO:0033108110 | Esophagus | ESCC | mitochondrial respiratory chain complex assembly | 83/8552 | 93/18723 | 9.56e-19 | 1.05e-16 | 83 |
GO:0072655110 | Esophagus | ESCC | establishment of protein localization to mitochondrion | 97/8552 | 120/18723 | 2.17e-15 | 1.33e-13 | 97 |
GO:0070585110 | Esophagus | ESCC | protein localization to mitochondrion | 100/8552 | 125/18723 | 2.96e-15 | 1.77e-13 | 100 |
GO:001703818 | Esophagus | ESCC | protein import | 149/8552 | 206/18723 | 5.90e-15 | 3.31e-13 | 149 |
GO:0006626110 | Esophagus | ESCC | protein targeting to mitochondrion | 81/8552 | 100/18723 | 3.60e-13 | 1.67e-11 | 81 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0516513 | Prostate | BPH | Human papillomavirus infection | 111/1718 | 331/8465 | 6.15e-09 | 7.81e-08 | 4.83e-08 | 111 |
hsa0520313 | Prostate | BPH | Viral carcinogenesis | 69/1718 | 204/8465 | 3.40e-06 | 2.87e-05 | 1.78e-05 | 69 |
hsa0516522 | Prostate | Tumor | Human papillomavirus infection | 110/1791 | 331/8465 | 1.31e-07 | 1.51e-06 | 9.36e-07 | 110 |
hsa0520323 | Prostate | Tumor | Viral carcinogenesis | 70/1791 | 204/8465 | 7.53e-06 | 6.56e-05 | 4.07e-05 | 70 |
hsa0516532 | Prostate | Tumor | Human papillomavirus infection | 110/1791 | 331/8465 | 1.31e-07 | 1.51e-06 | 9.36e-07 | 110 |
hsa0520333 | Prostate | Tumor | Viral carcinogenesis | 70/1791 | 204/8465 | 7.53e-06 | 6.56e-05 | 4.07e-05 | 70 |
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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 |
CHD4 | SNV | Missense_Mutation | novel | c.1156G>A | p.Asp386Asn | p.D386N | Q14839 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
CHD4 | SNV | Missense_Mutation | c.266N>T | p.Gly89Val | p.G89V | Q14839 | protein_coding | tolerated_low_confidence(0.05) | benign(0.115) | TCGA-A1-A0SK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
CHD4 | SNV | Missense_Mutation | c.3184C>G | p.Leu1062Val | p.L1062V | Q14839 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-A2-A0CL-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | SD | |
CHD4 | SNV | Missense_Mutation | novel | c.3048N>C | p.Lys1016Asn | p.K1016N | Q14839 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A2-A0CR-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR |
CHD4 | SNV | Missense_Mutation | c.2458N>A | p.Glu820Lys | p.E820K | Q14839 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A2-A0YK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |
CHD4 | SNV | Missense_Mutation | novel | c.800N>T | p.Gly267Val | p.G267V | Q14839 | protein_coding | deleterious(0.02) | probably_damaging(1) | TCGA-A2-A4S2-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | CR |
CHD4 | SNV | Missense_Mutation | c.2629N>T | p.Arg877Trp | p.R877W | Q14839 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A7-A5ZX-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | CR | |
CHD4 | SNV | Missense_Mutation | c.4007N>A | p.Gly1336Glu | p.G1336E | Q14839 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A8-A0A1-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD | |
CHD4 | SNV | Missense_Mutation | c.3967N>C | p.Glu1323Gln | p.E1323Q | Q14839 | protein_coding | deleterious(0.03) | probably_damaging(0.999) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
CHD4 | SNV | Missense_Mutation | c.2630N>A | p.Arg877Gln | p.R877Q | Q14839 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AQ-A1H3-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | 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 |
1108 | CHD4 | ENZYME, CLINICALLY ACTIONABLE | vorinostat | VORINOSTAT | 26296641 |
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