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Gene: USP54 |
Gene summary for USP54 |
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Gene information | Species | Human | Gene symbol | USP54 | Gene ID | 159195 |
Gene name | ubiquitin specific peptidase 54 | |
Gene Alias | C10orf29 | |
Cytomap | 10q22.2 | |
Gene Type | protein-coding | GO ID | GO:0006464 | UniProtAcc | B7Z7X1 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
159195 | USP54 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.42e-03 | -3.15e-01 | 0.0155 |
159195 | USP54 | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.37e-03 | -4.16e-01 | -0.0179 |
159195 | USP54 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 8.74e-10 | -3.43e-01 | 0.294 |
159195 | USP54 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.70e-09 | -4.34e-01 | 0.3005 |
159195 | USP54 | A002-C-010 | Human | Colorectum | FAP | 4.04e-02 | 1.69e-01 | 0.242 |
159195 | USP54 | A015-C-203 | Human | Colorectum | FAP | 1.34e-25 | -1.68e-01 | -0.1294 |
159195 | USP54 | A015-C-204 | Human | Colorectum | FAP | 1.15e-02 | -1.14e-01 | -0.0228 |
159195 | USP54 | A014-C-040 | Human | Colorectum | FAP | 1.14e-02 | -1.38e-01 | -0.1184 |
159195 | USP54 | A002-C-201 | Human | Colorectum | FAP | 2.22e-11 | -5.18e-02 | 0.0324 |
159195 | USP54 | A001-C-119 | Human | Colorectum | FAP | 1.74e-04 | 5.18e-02 | -0.1557 |
159195 | USP54 | A001-C-108 | Human | Colorectum | FAP | 9.11e-15 | -1.19e-01 | -0.0272 |
159195 | USP54 | A002-C-021 | Human | Colorectum | FAP | 4.23e-02 | 3.10e-01 | 0.1171 |
159195 | USP54 | A002-C-205 | Human | Colorectum | FAP | 8.28e-19 | -9.34e-02 | -0.1236 |
159195 | USP54 | A015-C-006 | Human | Colorectum | FAP | 4.18e-16 | -3.45e-01 | -0.0994 |
159195 | USP54 | A015-C-106 | Human | Colorectum | FAP | 3.86e-08 | -1.30e-01 | -0.0511 |
159195 | USP54 | A002-C-114 | Human | Colorectum | FAP | 2.69e-16 | -5.99e-02 | -0.1561 |
159195 | USP54 | A015-C-104 | Human | Colorectum | FAP | 5.98e-27 | -1.58e-01 | -0.1899 |
159195 | USP54 | A001-C-014 | Human | Colorectum | FAP | 4.07e-10 | -1.40e-01 | 0.0135 |
159195 | USP54 | A002-C-016 | Human | Colorectum | FAP | 1.92e-20 | -1.05e-01 | 0.0521 |
159195 | USP54 | A015-C-002 | Human | Colorectum | FAP | 9.95e-11 | -2.22e-01 | -0.0763 |
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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). |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00706461 | Liver | HCC | protein modification by small protein removal | 91/7958 | 157/18723 | 6.50e-05 | 5.92e-04 | 91 |
GO:00165791 | Liver | HCC | protein deubiquitination | 78/7958 | 139/18723 | 8.13e-04 | 4.87e-03 | 78 |
GO:00706465 | Thyroid | PTC | protein modification by small protein removal | 71/5968 | 157/18723 | 3.03e-04 | 2.12e-03 | 71 |
GO:00165794 | Thyroid | PTC | protein deubiquitination | 59/5968 | 139/18723 | 5.50e-03 | 2.50e-02 | 59 |
GO:007064613 | Thyroid | ATC | protein modification by small protein removal | 71/6293 | 157/18723 | 1.59e-03 | 7.99e-03 | 71 |
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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 |
USP54 | SNV | Missense_Mutation | novel | c.2308N>C | p.Gly770Arg | p.G770R | Q70EL1 | protein_coding | deleterious(0.02) | probably_damaging(0.999) | TCGA-22-1012-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
USP54 | SNV | Missense_Mutation | novel | c.4447N>A | p.Pro1483Thr | p.P1483T | Q70EL1 | protein_coding | tolerated(0.14) | benign(0.107) | TCGA-37-3789-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
USP54 | SNV | Missense_Mutation | novel | c.628G>T | p.Gly210Cys | p.G210C | Q70EL1 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-37-4130-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
USP54 | SNV | Missense_Mutation | novel | c.4997C>T | p.Ser1666Leu | p.S1666L | Q70EL1 | protein_coding | deleterious_low_confidence(0) | benign(0.051) | TCGA-56-A5DR-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
USP54 | SNV | Missense_Mutation | c.1421C>T | p.Pro474Leu | p.P474L | Q70EL1 | protein_coding | deleterious(0.03) | benign(0.005) | TCGA-66-2787-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
USP54 | SNV | Missense_Mutation | c.3341N>T | p.Ser1114Ile | p.S1114I | Q70EL1 | protein_coding | tolerated_low_confidence(0.09) | benign(0.001) | TCGA-66-2795-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
USP54 | SNV | Missense_Mutation | novel | c.1782G>T | p.Arg594Ser | p.R594S | Q70EL1 | protein_coding | deleterious(0.01) | probably_damaging(0.996) | TCGA-77-8136-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
USP54 | SNV | Missense_Mutation | c.3623N>C | p.Leu1208Pro | p.L1208P | Q70EL1 | protein_coding | deleterious_low_confidence(0.01) | benign(0.259) | TCGA-85-6175-01 | Lung | lung squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
USP54 | SNV | Missense_Mutation | novel | c.5051N>T | p.Trp1684Leu | p.W1684L | Q70EL1 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.991) | TCGA-85-6561-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | SD |
USP54 | SNV | Missense_Mutation | c.566C>T | p.Ser189Phe | p.S189F | Q70EL1 | protein_coding | deleterious(0) | probably_damaging(0.985) | TCGA-90-A4ED-01 | Lung | lung squamous cell carcinoma | Male | >=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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