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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 | CCI_2 | Human | Cervix | CC | 1.24e-10 | 1.17e+00 | 0.5249 |
9960 | USP3 | CCI_3 | Human | Cervix | CC | 4.49e-03 | 5.46e-01 | 0.516 |
9960 | USP3 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.72e-39 | -8.69e-01 | 0.0155 |
9960 | USP3 | HTA11_2487_2000001011 | Human | Colorectum | SER | 5.27e-20 | -7.58e-01 | -0.1808 |
9960 | USP3 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.44e-04 | -8.02e-01 | 0.0216 |
9960 | USP3 | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.98e-12 | -6.80e-01 | -0.0811 |
9960 | USP3 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.79e-21 | -7.10e-01 | -0.1088 |
9960 | USP3 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.81e-09 | -3.98e-01 | -0.1954 |
9960 | USP3 | HTA11_2112_2000001011 | Human | Colorectum | SER | 2.54e-06 | -9.38e-01 | -0.2196 |
9960 | USP3 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.80e-14 | -8.15e-01 | -0.1207 |
9960 | USP3 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.16e-09 | -7.48e-01 | -0.1526 |
9960 | USP3 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.15e-43 | -8.09e-01 | -0.1464 |
9960 | USP3 | HTA11_866_2000001011 | Human | Colorectum | AD | 4.05e-34 | -7.74e-01 | -0.1001 |
9960 | USP3 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.51e-07 | -5.14e-01 | -0.059 |
9960 | USP3 | HTA11_2992_2000001011 | Human | Colorectum | SER | 5.95e-04 | -7.26e-01 | -0.1706 |
9960 | USP3 | HTA11_5212_2000001011 | Human | Colorectum | AD | 2.21e-06 | -8.02e-01 | -0.2061 |
9960 | USP3 | HTA11_5216_2000001011 | Human | Colorectum | SER | 5.44e-03 | -5.92e-01 | -0.1462 |
9960 | USP3 | HTA11_546_2000001011 | Human | Colorectum | AD | 9.20e-13 | -8.52e-01 | -0.0842 |
9960 | USP3 | HTA11_9341_2000001011 | Human | Colorectum | SER | 1.38e-04 | -9.49e-01 | -0.00410000000000005 |
9960 | USP3 | HTA11_7862_2000001011 | Human | Colorectum | AD | 3.85e-08 | -8.12e-01 | -0.0179 |
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 | SNV | Missense_Mutation | novel | c.1465N>G | p.Thr489Ala | p.T489A | Q9Y6I4 | protein_coding | deleterious(0) | possibly_damaging(0.779) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
USP3 | SNV | Missense_Mutation | c.1170N>T | p.Lys390Asn | p.K390N | Q9Y6I4 | protein_coding | tolerated(0.35) | possibly_damaging(0.873) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
USP3 | SNV | Missense_Mutation | c.988G>A | p.Glu330Lys | p.E330K | Q9Y6I4 | protein_coding | deleterious(0.05) | possibly_damaging(0.831) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
USP3 | SNV | Missense_Mutation | c.1312A>G | p.Lys438Glu | p.K438E | Q9Y6I4 | protein_coding | tolerated(0.36) | benign(0.257) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
USP3 | SNV | Missense_Mutation | c.824N>G | p.Glu275Gly | p.E275G | Q9Y6I4 | protein_coding | deleterious(0) | probably_damaging(0.917) | TCGA-AD-6889-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | xeloda | PD | |
USP3 | SNV | Missense_Mutation | rs754082267 | c.1106N>A | p.Arg369His | p.R369H | Q9Y6I4 | protein_coding | tolerated(0.11) | benign(0.025) | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
USP3 | SNV | Missense_Mutation | rs766732707 | c.1094N>A | p.Arg365Gln | p.R365Q | Q9Y6I4 | protein_coding | tolerated(0.57) | benign(0.021) | TCGA-G4-6304-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | PD |
USP3 | SNV | Missense_Mutation | novel | c.357N>T | p.Gln119His | p.Q119H | Q9Y6I4 | protein_coding | deleterious(0.01) | possibly_damaging(0.694) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
USP3 | insertion | Frame_Shift_Ins | novel | c.170_171insA | p.His60ThrfsTer3 | p.H60Tfs*3 | Q9Y6I4 | protein_coding | TCGA-AA-3947-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
USP3 | SNV | Missense_Mutation | novel | c.20N>A | p.Ser7Asn | p.S7N | Q9Y6I4 | protein_coding | tolerated(0.52) | benign(0) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid 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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