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Gene: USP11 |
Gene summary for USP11 |
Gene summary. |
Gene information | Species | Human | Gene symbol | USP11 | Gene ID | 8237 |
Gene name | ubiquitin specific peptidase 11 | |
Gene Alias | UHX1 | |
Cytomap | Xp11.3 | |
Gene Type | protein-coding | GO ID | GO:0006464 | UniProtAcc | NA |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
8237 | USP11 | LZE4T | Human | Esophagus | ESCC | 8.64e-13 | 5.91e-01 | 0.0811 |
8237 | USP11 | LZE7T | Human | Esophagus | ESCC | 2.15e-07 | 7.23e-01 | 0.0667 |
8237 | USP11 | LZE20T | Human | Esophagus | ESCC | 3.07e-02 | 1.81e-01 | 0.0662 |
8237 | USP11 | LZE21D1 | Human | Esophagus | HGIN | 2.22e-02 | 3.74e-01 | 0.0632 |
8237 | USP11 | LZE24T | Human | Esophagus | ESCC | 7.52e-16 | 5.78e-01 | 0.0596 |
8237 | USP11 | LZE21T | Human | Esophagus | ESCC | 9.03e-05 | 4.74e-01 | 0.0655 |
8237 | USP11 | LZE6T | Human | Esophagus | ESCC | 2.71e-03 | 2.29e-01 | 0.0845 |
8237 | USP11 | P2T-E | Human | Esophagus | ESCC | 5.19e-56 | 9.59e-01 | 0.1177 |
8237 | USP11 | P4T-E | Human | Esophagus | ESCC | 3.35e-28 | 7.22e-01 | 0.1323 |
8237 | USP11 | P5T-E | Human | Esophagus | ESCC | 5.82e-15 | 2.00e-01 | 0.1327 |
8237 | USP11 | P8T-E | Human | Esophagus | ESCC | 2.06e-55 | 8.99e-01 | 0.0889 |
8237 | USP11 | P9T-E | Human | Esophagus | ESCC | 3.19e-20 | 5.63e-01 | 0.1131 |
8237 | USP11 | P10T-E | Human | Esophagus | ESCC | 1.23e-40 | 7.91e-01 | 0.116 |
8237 | USP11 | P11T-E | Human | Esophagus | ESCC | 1.38e-19 | 9.88e-01 | 0.1426 |
8237 | USP11 | P12T-E | Human | Esophagus | ESCC | 2.24e-53 | 1.00e+00 | 0.1122 |
8237 | USP11 | P15T-E | Human | Esophagus | ESCC | 5.33e-25 | 5.71e-01 | 0.1149 |
8237 | USP11 | P16T-E | Human | Esophagus | ESCC | 1.67e-80 | 1.37e+00 | 0.1153 |
8237 | USP11 | P17T-E | Human | Esophagus | ESCC | 3.67e-06 | 6.03e-01 | 0.1278 |
8237 | USP11 | P19T-E | Human | Esophagus | ESCC | 3.55e-06 | 7.67e-01 | 0.1662 |
8237 | USP11 | P20T-E | Human | Esophagus | ESCC | 6.17e-14 | 3.37e-01 | 0.1124 |
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Transcriptomic changes along malignancy continuum. |
∗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 |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
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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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:000647017 | Esophagus | HGIN | protein dephosphorylation | 61/2587 | 281/18723 | 1.86e-04 | 3.51e-03 | 61 |
GO:00706463 | Esophagus | HGIN | protein modification by small protein removal | 34/2587 | 157/18723 | 4.68e-03 | 4.02e-02 | 34 |
GO:001631110 | Esophagus | ESCC | dephosphorylation | 251/8552 | 417/18723 | 1.26e-09 | 2.99e-08 | 251 |
GO:000647018 | Esophagus | ESCC | protein dephosphorylation | 177/8552 | 281/18723 | 3.13e-09 | 6.72e-08 | 177 |
GO:007064612 | Esophagus | ESCC | protein modification by small protein removal | 95/8552 | 157/18723 | 1.25e-04 | 8.56e-04 | 95 |
GO:00165793 | Esophagus | ESCC | protein deubiquitination | 79/8552 | 139/18723 | 5.23e-03 | 1.97e-02 | 79 |
GO:000647011 | Liver | Cirrhotic | protein dephosphorylation | 96/4634 | 281/18723 | 2.32e-04 | 2.11e-03 | 96 |
GO:001631111 | Liver | Cirrhotic | dephosphorylation | 130/4634 | 417/18723 | 1.58e-03 | 1.03e-02 | 130 |
GO:001631121 | Liver | HCC | dephosphorylation | 230/7958 | 417/18723 | 1.00e-07 | 1.96e-06 | 230 |
GO:000647021 | Liver | HCC | protein dephosphorylation | 162/7958 | 281/18723 | 1.91e-07 | 3.46e-06 | 162 |
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:000647015 | Oral cavity | OSCC | protein dephosphorylation | 162/7305 | 281/18723 | 1.56e-10 | 4.56e-09 | 162 |
GO:00163119 | Oral cavity | OSCC | dephosphorylation | 220/7305 | 417/18723 | 6.33e-09 | 1.34e-07 | 220 |
GO:00706462 | Oral cavity | OSCC | protein modification by small protein removal | 77/7305 | 157/18723 | 6.55e-03 | 2.43e-02 | 77 |
GO:000647016 | Oral cavity | LP | protein dephosphorylation | 89/4623 | 281/18723 | 4.60e-03 | 2.93e-02 | 89 |
GO:007064611 | Oral cavity | EOLP | protein modification by small protein removal | 33/2218 | 157/18723 | 7.04e-04 | 5.78e-03 | 33 |
GO:00165792 | Oral cavity | EOLP | protein deubiquitination | 28/2218 | 139/18723 | 3.29e-03 | 1.90e-02 | 28 |
GO:000647024 | Skin | cSCC | protein dephosphorylation | 111/4864 | 281/18723 | 4.10e-07 | 7.96e-06 | 111 |
GO:001631115 | Skin | cSCC | dephosphorylation | 134/4864 | 417/18723 | 2.65e-03 | 1.50e-02 | 134 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
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 |
Annotation of somatic variants for genes involved in malignant transformation |
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 |
USP11 | SNV | Missense_Mutation | novel | c.478N>A | p.Ala160Thr | p.A160T | P51784 | protein_coding | tolerated(0.98) | benign(0.043) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
USP11 | SNV | Missense_Mutation | rs141092127 | c.1568N>T | p.Ser523Leu | p.S523L | P51784 | protein_coding | tolerated(0.34) | benign(0.009) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
USP11 | SNV | Missense_Mutation | c.2761N>A | p.Ala921Thr | p.A921T | P51784 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-A02R-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
USP11 | SNV | Missense_Mutation | c.2725G>A | p.Val909Ile | p.V909I | P51784 | protein_coding | deleterious(0) | probably_damaging(0.972) | TCGA-WS-AB45-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
USP11 | SNV | Missense_Mutation | c.2778C>A | p.Phe926Leu | p.F926L | P51784 | protein_coding | deleterious(0.04) | probably_damaging(0.99) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
USP11 | SNV | Missense_Mutation | c.1514N>T | p.Pro505Leu | p.P505L | P51784 | protein_coding | deleterious(0.01) | probably_damaging(0.999) | TCGA-AG-A01N-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | capecitabine | SD | |
USP11 | insertion | Frame_Shift_Ins | novel | c.1959_1960insG | p.Asp655GlyfsTer2 | p.D655Gfs*2 | P51784 | protein_coding | TCGA-AA-3821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
USP11 | SNV | Missense_Mutation | novel | c.1511A>T | p.Asp504Val | p.D504V | P51784 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
USP11 | SNV | Missense_Mutation | novel | c.1579G>A | p.Val527Met | p.V527M | P51784 | protein_coding | tolerated(0.11) | benign(0.025) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
USP11 | SNV | Missense_Mutation | c.1516N>T | p.Arg506Cys | p.R506C | P51784 | protein_coding | tolerated(0.09) | possibly_damaging(0.892) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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