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Gene: TSKU |
Gene summary for TSKU |
Gene summary. |
Gene information | Species | Human | Gene symbol | TSKU | Gene ID | 25987 |
Gene name | tsukushi, small leucine rich proteoglycan | |
Gene Alias | E2IG4 | |
Cytomap | 11q13.5 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | A0A024R5J8 |
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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 |
25987 | TSKU | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.68e-06 | 3.32e-01 | -0.1808 |
25987 | TSKU | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.93e-04 | 2.47e-01 | -0.0811 |
25987 | TSKU | HTA11_347_2000001011 | Human | Colorectum | AD | 8.41e-05 | 1.47e-01 | -0.1954 |
25987 | TSKU | HTA11_696_2000001011 | Human | Colorectum | AD | 3.19e-02 | 1.54e-01 | -0.1464 |
25987 | TSKU | HTA11_1391_2000001011 | Human | Colorectum | AD | 3.04e-09 | 3.26e-01 | -0.059 |
25987 | TSKU | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.11e-03 | 3.49e-01 | -0.1462 |
25987 | TSKU | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.09e-02 | 1.31e-01 | 0.294 |
25987 | TSKU | HTA11_99999971662_82457 | Human | Colorectum | MSS | 6.88e-07 | 2.72e-01 | 0.3859 |
25987 | TSKU | LZE2T | Human | Esophagus | ESCC | 7.61e-05 | 8.68e-01 | 0.082 |
25987 | TSKU | LZE4T | Human | Esophagus | ESCC | 1.55e-03 | 1.10e-01 | 0.0811 |
25987 | TSKU | LZE8T | Human | Esophagus | ESCC | 1.60e-02 | 4.60e-02 | 0.067 |
25987 | TSKU | LZE20T | Human | Esophagus | ESCC | 7.39e-04 | 6.50e-02 | 0.0662 |
25987 | TSKU | LZE24T | Human | Esophagus | ESCC | 1.49e-05 | 4.55e-02 | 0.0596 |
25987 | TSKU | P2T-E | Human | Esophagus | ESCC | 1.32e-80 | 1.29e+00 | 0.1177 |
25987 | TSKU | P4T-E | Human | Esophagus | ESCC | 8.04e-27 | 8.41e-01 | 0.1323 |
25987 | TSKU | P5T-E | Human | Esophagus | ESCC | 3.97e-15 | 3.50e-01 | 0.1327 |
25987 | TSKU | P8T-E | Human | Esophagus | ESCC | 3.78e-13 | 2.39e-01 | 0.0889 |
25987 | TSKU | P9T-E | Human | Esophagus | ESCC | 2.01e-23 | 7.31e-01 | 0.1131 |
25987 | TSKU | P10T-E | Human | Esophagus | ESCC | 1.19e-35 | 5.65e-01 | 0.116 |
25987 | TSKU | P11T-E | Human | Esophagus | ESCC | 3.68e-10 | 9.67e-01 | 0.1426 |
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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:0042060 | Colorectum | AD | wound healing | 128/3918 | 422/18723 | 2.73e-06 | 7.89e-05 | 128 |
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:0010975 | Colorectum | AD | regulation of neuron projection development | 129/3918 | 445/18723 | 2.88e-05 | 5.37e-04 | 129 |
GO:0006066 | Colorectum | AD | alcohol metabolic process | 106/3918 | 353/18723 | 3.02e-05 | 5.57e-04 | 106 |
GO:0007409 | Colorectum | AD | axonogenesis | 122/3918 | 418/18723 | 3.36e-05 | 6.15e-04 | 122 |
GO:0061564 | Colorectum | AD | axon development | 132/3918 | 467/18723 | 8.40e-05 | 1.31e-03 | 132 |
GO:0031345 | Colorectum | AD | negative regulation of cell projection organization | 58/3918 | 186/18723 | 6.37e-04 | 6.58e-03 | 58 |
GO:0071635 | Colorectum | AD | negative regulation of transforming growth factor beta production | 8/3918 | 12/18723 | 7.99e-04 | 7.91e-03 | 8 |
GO:0010876 | Colorectum | AD | lipid localization | 120/3918 | 448/18723 | 1.59e-03 | 1.33e-02 | 120 |
GO:0006869 | Colorectum | AD | lipid transport | 108/3918 | 398/18723 | 1.67e-03 | 1.39e-02 | 108 |
GO:0010977 | Colorectum | AD | negative regulation of neuron projection development | 43/3918 | 137/18723 | 2.60e-03 | 1.97e-02 | 43 |
GO:0042490 | Colorectum | AD | mechanoreceptor differentiation | 24/3918 | 67/18723 | 3.48e-03 | 2.52e-02 | 24 |
GO:0071634 | Colorectum | AD | regulation of transforming growth factor beta production | 16/3918 | 41/18723 | 6.20e-03 | 3.88e-02 | 16 |
GO:0060119 | Colorectum | AD | inner ear receptor cell development | 17/3918 | 45/18723 | 7.10e-03 | 4.33e-02 | 17 |
GO:0008202 | Colorectum | AD | steroid metabolic process | 85/3918 | 319/18723 | 8.07e-03 | 4.75e-02 | 85 |
GO:00420601 | Colorectum | SER | wound healing | 97/2897 | 422/18723 | 2.69e-05 | 7.30e-04 | 97 |
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 |
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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 |
TSKU | SNV | Missense_Mutation | novel | c.170N>T | p.Pro57Leu | p.P57L | Q8WUA8 | protein_coding | deleterious(0) | probably_damaging(0.984) | TCGA-21-1079-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD |
TSKU | SNV | Missense_Mutation | c.819G>T | p.Glu273Asp | p.E273D | Q8WUA8 | protein_coding | tolerated(0.24) | benign(0.078) | TCGA-43-5668-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Other, specify in notesMAGE3-AS15-NSC-003 | clinical | PD | |
TSKU | SNV | Missense_Mutation | rs776667905 | c.871N>G | p.Leu291Val | p.L291V | Q8WUA8 | protein_coding | tolerated(0.92) | benign(0.041) | TCGA-85-8048-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TSKU | SNV | Missense_Mutation | novel | c.446C>T | p.Ser149Phe | p.S149F | Q8WUA8 | protein_coding | deleterious(0.01) | possibly_damaging(0.753) | TCGA-85-8355-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TSKU | SNV | Missense_Mutation | novel | c.359T>C | p.Leu120Pro | p.L120P | Q8WUA8 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-J1-A4AH-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR |
TSKU | SNV | Missense_Mutation | novel | c.886N>A | p.Glu296Lys | p.E296K | Q8WUA8 | protein_coding | tolerated(0.86) | benign(0.009) | TCGA-BA-6868-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | carboplatin | PD |
TSKU | SNV | Missense_Mutation | novel | c.886N>A | p.Glu296Lys | p.E296K | Q8WUA8 | protein_coding | tolerated(0.86) | benign(0.009) | TCGA-CQ-5326-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
TSKU | SNV | Missense_Mutation | novel | c.944N>T | p.Arg315Leu | p.R315L | Q8WUA8 | protein_coding | deleterious(0.03) | benign(0.089) | TCGA-J4-8198-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD |
TSKU | SNV | Missense_Mutation | c.595N>T | p.Val199Leu | p.V199L | Q8WUA8 | protein_coding | deleterious(0.03) | benign(0.14) | TCGA-3M-AB47-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD | |
TSKU | SNV | Missense_Mutation | c.776N>A | p.Leu259Gln | p.L259Q | Q8WUA8 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-BR-6452-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | 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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