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Gene: USP3 |
Gene summary for USP3 |
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Gene information | Species | Human | Gene symbol | USP3 | Gene ID | 9960 |
Gene name | ubiquitin specific peptidase 3 | |
Gene Alias | SIH003 | |
Cytomap | 15q22.31 | |
Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | Q9Y6I4 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9960 | USP3 | F034 | Human | Colorectum | FAP | 6.85e-34 | -5.91e-01 | -0.0665 |
9960 | USP3 | F072B | Human | Colorectum | FAP | 1.10e-05 | -1.58e-01 | 0.257 |
9960 | USP3 | CRC-1-8810 | Human | Colorectum | CRC | 2.04e-03 | -1.97e-01 | 0.6257 |
9960 | USP3 | CRC-3-11773 | Human | Colorectum | CRC | 3.68e-21 | -5.81e-01 | 0.2564 |
9960 | USP3 | LZE4T | Human | Esophagus | ESCC | 4.36e-13 | 2.48e-01 | 0.0811 |
9960 | USP3 | LZE7T | Human | Esophagus | ESCC | 2.59e-13 | 4.80e-01 | 0.0667 |
9960 | USP3 | LZE8T | Human | Esophagus | ESCC | 1.07e-04 | 1.74e-01 | 0.067 |
9960 | USP3 | LZE20T | Human | Esophagus | ESCC | 9.55e-07 | 2.22e-01 | 0.0662 |
9960 | USP3 | LZE22T | Human | Esophagus | ESCC | 8.72e-06 | 3.96e-01 | 0.068 |
9960 | USP3 | LZE24T | Human | Esophagus | ESCC | 7.97e-25 | 3.92e-01 | 0.0596 |
9960 | USP3 | LZE6T | Human | Esophagus | ESCC | 9.32e-03 | 1.96e-01 | 0.0845 |
9960 | USP3 | P1T-E | Human | Esophagus | ESCC | 2.95e-11 | 5.58e-01 | 0.0875 |
9960 | USP3 | P2T-E | Human | Esophagus | ESCC | 7.27e-44 | 6.88e-01 | 0.1177 |
9960 | USP3 | P4T-E | Human | Esophagus | ESCC | 2.61e-20 | 5.20e-01 | 0.1323 |
9960 | USP3 | P5T-E | Human | Esophagus | ESCC | 1.65e-09 | 2.42e-01 | 0.1327 |
9960 | USP3 | P8T-E | Human | Esophagus | ESCC | 8.17e-34 | 6.60e-01 | 0.0889 |
9960 | USP3 | P9T-E | Human | Esophagus | ESCC | 1.49e-15 | 3.82e-01 | 0.1131 |
9960 | USP3 | P10T-E | Human | Esophagus | ESCC | 2.22e-30 | 5.64e-01 | 0.116 |
9960 | USP3 | P11T-E | Human | Esophagus | ESCC | 6.18e-03 | 2.11e-01 | 0.1426 |
9960 | USP3 | P12T-E | Human | Esophagus | ESCC | 2.08e-33 | 5.48e-01 | 0.1122 |
Page: 1 2 3 4 5 6 7 8 9 10 |
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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:007149610 | Cervix | CC | cellular response to external stimulus | 78/2311 | 320/18723 | 1.82e-09 | 1.98e-07 | 78 |
GO:00160557 | Cervix | CC | Wnt signaling pathway | 98/2311 | 444/18723 | 4.82e-09 | 4.65e-07 | 98 |
GO:01987387 | Cervix | CC | cell-cell signaling by wnt | 98/2311 | 446/18723 | 6.16e-09 | 5.58e-07 | 98 |
GO:00301117 | Cervix | CC | regulation of Wnt signaling pathway | 76/2311 | 328/18723 | 3.05e-08 | 2.08e-06 | 76 |
GO:005109810 | Cervix | CC | regulation of binding | 80/2311 | 363/18723 | 1.32e-07 | 6.42e-06 | 80 |
GO:00447725 | Cervix | CC | mitotic cell cycle phase transition | 89/2311 | 424/18723 | 2.70e-07 | 1.12e-05 | 89 |
GO:00316689 | Cervix | CC | cellular response to extracellular stimulus | 59/2311 | 246/18723 | 3.03e-07 | 1.24e-05 | 59 |
GO:00608287 | Cervix | CC | regulation of canonical Wnt signaling pathway | 58/2311 | 253/18723 | 1.83e-06 | 5.89e-05 | 58 |
GO:00600707 | Cervix | CC | canonical Wnt signaling pathway | 66/2311 | 303/18723 | 2.47e-06 | 7.35e-05 | 66 |
GO:003166710 | Cervix | CC | response to nutrient levels | 92/2311 | 474/18723 | 5.80e-06 | 1.42e-04 | 92 |
GO:00092678 | Cervix | CC | cellular response to starvation | 39/2311 | 156/18723 | 1.04e-05 | 2.32e-04 | 39 |
GO:005109910 | Cervix | CC | positive regulation of binding | 42/2311 | 173/18723 | 1.07e-05 | 2.33e-04 | 42 |
GO:003164710 | Cervix | CC | regulation of protein stability | 63/2311 | 298/18723 | 1.14e-05 | 2.45e-04 | 63 |
GO:00000824 | Cervix | CC | G1/S transition of mitotic cell cycle | 49/2311 | 214/18723 | 1.16e-05 | 2.48e-04 | 49 |
GO:00425948 | Cervix | CC | response to starvation | 46/2311 | 197/18723 | 1.24e-05 | 2.59e-04 | 46 |
GO:00316698 | Cervix | CC | cellular response to nutrient levels | 49/2311 | 215/18723 | 1.32e-05 | 2.68e-04 | 49 |
GO:00615647 | Cervix | CC | axon development | 89/2311 | 467/18723 | 1.71e-05 | 3.27e-04 | 89 |
GO:00448434 | Cervix | CC | cell cycle G1/S phase transition | 53/2311 | 241/18723 | 1.76e-05 | 3.32e-04 | 53 |
GO:005082110 | Cervix | CC | protein stabilization | 43/2311 | 191/18723 | 5.90e-05 | 8.54e-04 | 43 |
GO:00074097 | Cervix | CC | axonogenesis | 78/2311 | 418/18723 | 1.14e-04 | 1.43e-03 | 78 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 |
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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 |
USP3 | insertion | In_Frame_Ins | novel | c.1363_1364insGCTTGACTGCTAAGACCATGTCTATAACTTTAC | p.Asp455delinsGlyLeuThrAlaLysThrMetSerIleThrLeuHis | p.D455delinsGLTAKTMSITLH | Q9Y6I4 | protein_coding | TCGA-A2-A0CP-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | ||
USP3 | SNV | Missense_Mutation | rs771942475 | c.1426N>A | p.Ala476Thr | p.A476T | Q9Y6I4 | protein_coding | deleterious(0) | probably_damaging(0.956) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
USP3 | SNV | Missense_Mutation | novel | c.944N>C | p.Gly315Ala | p.G315A | Q9Y6I4 | protein_coding | deleterious(0.02) | probably_damaging(0.984) | TCGA-DS-A1OB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | carboplatin | PD |
USP3 | SNV | Missense_Mutation | novel | c.814N>A | p.Leu272Ile | p.L272I | Q9Y6I4 | protein_coding | deleterious(0.01) | benign(0.442) | TCGA-A6-2672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
USP3 | SNV | Missense_Mutation | novel | c.893N>A | p.Ser298Asn | p.S298N | Q9Y6I4 | protein_coding | tolerated(0.48) | benign(0.079) | TCGA-A6-5661-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
USP3 | SNV | Missense_Mutation | c.1146N>C | p.Leu382Phe | p.L382F | Q9Y6I4 | protein_coding | deleterious(0.03) | possibly_damaging(0.723) | TCGA-AA-3681-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
USP3 | SNV | Missense_Mutation | c.1148N>T | p.Tyr383Phe | p.Y383F | Q9Y6I4 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AA-3681-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
USP3 | SNV | Missense_Mutation | c.781N>A | p.Ala261Thr | p.A261T | Q9Y6I4 | protein_coding | deleterious(0) | probably_damaging(0.922) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
USP3 | SNV | Missense_Mutation | c.931A>G | p.Thr311Ala | p.T311A | Q9Y6I4 | protein_coding | deleterious(0.05) | probably_damaging(0.914) | TCGA-AA-3815-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
USP3 | SNV | Missense_Mutation | c.781N>A | p.Ala261Thr | p.A261T | Q9Y6I4 | protein_coding | deleterious(0) | probably_damaging(0.922) | TCGA-AA-3949-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | 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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