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Gene: RNF4 |
Gene summary for RNF4 |
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Gene information | Species | Human | Gene symbol | RNF4 | Gene ID | 6047 |
Gene name | ring finger protein 4 | |
Gene Alias | RES4-26 | |
Cytomap | 4p16.3 | |
Gene Type | protein-coding | GO ID | GO:0000209 | UniProtAcc | P78317 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
6047 | RNF4 | HCC1 | Human | Liver | HCC | 3.28e-04 | 2.81e+00 | 0.5336 |
6047 | RNF4 | HCC2 | Human | Liver | HCC | 1.95e-09 | 3.91e+00 | 0.5341 |
6047 | RNF4 | S014 | Human | Liver | HCC | 5.82e-07 | 3.20e-01 | 0.2254 |
6047 | RNF4 | S015 | Human | Liver | HCC | 5.27e-08 | 4.42e-01 | 0.2375 |
6047 | RNF4 | S016 | Human | Liver | HCC | 2.08e-07 | 3.69e-01 | 0.2243 |
6047 | RNF4 | S027 | Human | Liver | HCC | 4.74e-12 | 8.51e-01 | 0.2446 |
6047 | RNF4 | S028 | Human | Liver | HCC | 1.57e-24 | 8.90e-01 | 0.2503 |
6047 | RNF4 | S029 | Human | Liver | HCC | 2.96e-22 | 9.12e-01 | 0.2581 |
6047 | RNF4 | C04 | Human | Oral cavity | OSCC | 1.23e-07 | 5.73e-01 | 0.2633 |
6047 | RNF4 | C21 | Human | Oral cavity | OSCC | 8.99e-17 | 6.15e-01 | 0.2678 |
6047 | RNF4 | C30 | Human | Oral cavity | OSCC | 1.34e-25 | 1.11e+00 | 0.3055 |
6047 | RNF4 | C43 | Human | Oral cavity | OSCC | 1.65e-09 | 2.44e-01 | 0.1704 |
6047 | RNF4 | C46 | Human | Oral cavity | OSCC | 9.48e-03 | 2.31e-01 | 0.1673 |
6047 | RNF4 | C51 | Human | Oral cavity | OSCC | 5.31e-04 | 4.76e-01 | 0.2674 |
6047 | RNF4 | C57 | Human | Oral cavity | OSCC | 9.21e-12 | 5.40e-01 | 0.1679 |
6047 | RNF4 | C08 | Human | Oral cavity | OSCC | 2.63e-06 | 2.05e-01 | 0.1919 |
6047 | RNF4 | C09 | Human | Oral cavity | OSCC | 1.66e-03 | 2.73e-01 | 0.1431 |
6047 | RNF4 | EOLP-1 | Human | Oral cavity | EOLP | 2.85e-03 | 1.46e-01 | -0.0202 |
6047 | RNF4 | SYSMH1 | Human | Oral cavity | OSCC | 9.23e-16 | 3.19e-01 | 0.1127 |
6047 | RNF4 | SYSMH2 | Human | Oral cavity | OSCC | 3.06e-13 | 3.74e-01 | 0.2326 |
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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:0043112 | Colorectum | AD | receptor metabolic process | 62/3918 | 166/18723 | 8.18e-07 | 2.85e-05 | 62 |
GO:0030111 | Colorectum | AD | regulation of Wnt signaling pathway | 102/3918 | 328/18723 | 8.51e-06 | 2.03e-04 | 102 |
GO:0016055 | Colorectum | AD | Wnt signaling pathway | 130/3918 | 444/18723 | 1.60e-05 | 3.37e-04 | 130 |
GO:0198738 | Colorectum | AD | cell-cell signaling by wnt | 130/3918 | 446/18723 | 2.02e-05 | 4.10e-04 | 130 |
GO:0032801 | Colorectum | AD | receptor catabolic process | 12/3918 | 28/18723 | 7.21e-03 | 4.39e-02 | 12 |
GO:00160551 | Colorectum | SER | Wnt signaling pathway | 97/2897 | 444/18723 | 2.02e-04 | 3.68e-03 | 97 |
GO:01987381 | Colorectum | SER | cell-cell signaling by wnt | 97/2897 | 446/18723 | 2.39e-04 | 4.11e-03 | 97 |
GO:00301111 | Colorectum | SER | regulation of Wnt signaling pathway | 75/2897 | 328/18723 | 2.47e-04 | 4.20e-03 | 75 |
GO:00301112 | Colorectum | MSS | regulation of Wnt signaling pathway | 98/3467 | 328/18723 | 3.37e-07 | 1.36e-05 | 98 |
GO:00160552 | Colorectum | MSS | Wnt signaling pathway | 124/3467 | 444/18723 | 6.06e-07 | 2.26e-05 | 124 |
GO:01987382 | Colorectum | MSS | cell-cell signaling by wnt | 124/3467 | 446/18723 | 7.83e-07 | 2.77e-05 | 124 |
GO:00431121 | Colorectum | MSS | receptor metabolic process | 57/3467 | 166/18723 | 8.47e-07 | 2.97e-05 | 57 |
GO:0030178 | Colorectum | MSS | negative regulation of Wnt signaling pathway | 48/3467 | 170/18723 | 1.23e-03 | 1.18e-02 | 48 |
GO:00328011 | Colorectum | MSS | receptor catabolic process | 12/3467 | 28/18723 | 2.53e-03 | 2.02e-02 | 12 |
GO:00160553 | Colorectum | FAP | Wnt signaling pathway | 104/2622 | 444/18723 | 4.92e-08 | 3.92e-06 | 104 |
GO:01987383 | Colorectum | FAP | cell-cell signaling by wnt | 104/2622 | 446/18723 | 6.26e-08 | 4.54e-06 | 104 |
GO:00301113 | Colorectum | FAP | regulation of Wnt signaling pathway | 81/2622 | 328/18723 | 1.44e-07 | 9.03e-06 | 81 |
GO:00431122 | Colorectum | FAP | receptor metabolic process | 46/2622 | 166/18723 | 2.70e-06 | 1.02e-04 | 46 |
GO:00301781 | Colorectum | FAP | negative regulation of Wnt signaling pathway | 38/2622 | 170/18723 | 2.06e-03 | 1.70e-02 | 38 |
GO:00160554 | Colorectum | CRC | Wnt signaling pathway | 88/2078 | 444/18723 | 3.91e-08 | 5.28e-06 | 88 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
RNF4 | SNV | Missense_Mutation | rs201229382 | c.361N>A | p.Ala121Thr | p.A121T | P78317 | protein_coding | tolerated(0.62) | benign(0) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | rs377313523 | c.491N>A | p.Arg164His | p.R164H | P78317 | protein_coding | tolerated(0.08) | benign(0.08) | TCGA-A5-A2K5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | c.423G>T | p.Glu141Asp | p.E141D | P78317 | protein_coding | deleterious(0.03) | probably_damaging(0.999) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
RNF4 | SNV | Missense_Mutation | novel | c.346N>A | p.Ala116Thr | p.A116T | P78317 | protein_coding | tolerated(0.79) | benign(0) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | rs767261720 | c.448G>A | p.Val150Ile | p.V150I | P78317 | protein_coding | tolerated(0.08) | benign(0.026) | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | rs750844745 | c.490N>T | p.Arg164Cys | p.R164C | P78317 | protein_coding | tolerated(0.16) | benign(0.035) | TCGA-D1-A167-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | novel | c.311N>A | p.Arg104Lys | p.R104K | P78317 | protein_coding | tolerated(0.6) | benign(0) | TCGA-FI-A2D0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | novel | c.467N>G | p.His156Arg | p.H156R | P78317 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-F7-A624-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
RNF4 | SNV | Missense_Mutation | c.421N>A | p.Glu141Lys | p.E141K | P78317 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-MT-A67F-01 | Oral cavity | head & neck squamous cell carcinoma | 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 |
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