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Gene: TSPAN13 |
Gene summary for TSPAN13 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TSPAN13 | Gene ID | 27075 |
Gene name | tetraspanin 13 | |
Gene Alias | NET-6 | |
Cytomap | 7p21.1 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | O95857 |
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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 |
27075 | TSPAN13 | GSM4909281 | Human | Breast | IDC | 3.52e-03 | 2.80e-01 | 0.21 |
27075 | TSPAN13 | GSM4909286 | Human | Breast | IDC | 2.30e-04 | -2.23e-01 | 0.1081 |
27075 | TSPAN13 | GSM4909290 | Human | Breast | IDC | 3.00e-07 | 4.02e-01 | 0.2096 |
27075 | TSPAN13 | GSM4909296 | Human | Breast | IDC | 5.73e-05 | -1.01e-01 | 0.1524 |
27075 | TSPAN13 | GSM4909297 | Human | Breast | IDC | 2.78e-09 | 2.54e-01 | 0.1517 |
27075 | TSPAN13 | GSM4909298 | Human | Breast | IDC | 5.91e-25 | 6.60e-01 | 0.1551 |
27075 | TSPAN13 | GSM4909302 | Human | Breast | IDC | 1.05e-03 | 2.59e-01 | 0.1545 |
27075 | TSPAN13 | GSM4909304 | Human | Breast | IDC | 2.94e-14 | 5.40e-01 | 0.1636 |
27075 | TSPAN13 | GSM4909306 | Human | Breast | IDC | 1.45e-07 | 4.34e-01 | 0.1564 |
27075 | TSPAN13 | GSM4909307 | Human | Breast | IDC | 3.63e-05 | 3.96e-01 | 0.1569 |
27075 | TSPAN13 | GSM4909308 | Human | Breast | IDC | 2.94e-84 | 1.12e+00 | 0.158 |
27075 | TSPAN13 | GSM4909311 | Human | Breast | IDC | 1.40e-22 | -1.51e-01 | 0.1534 |
27075 | TSPAN13 | GSM4909312 | Human | Breast | IDC | 7.10e-13 | 4.26e-01 | 0.1552 |
27075 | TSPAN13 | GSM4909313 | Human | Breast | IDC | 2.17e-07 | 3.35e-01 | 0.0391 |
27075 | TSPAN13 | GSM4909315 | Human | Breast | IDC | 4.55e-27 | 6.93e-01 | 0.21 |
27075 | TSPAN13 | GSM4909316 | Human | Breast | IDC | 1.04e-20 | 7.08e-01 | 0.21 |
27075 | TSPAN13 | GSM4909317 | Human | Breast | IDC | 1.73e-05 | 3.43e-01 | 0.1355 |
27075 | TSPAN13 | GSM4909318 | Human | Breast | IDC | 1.17e-03 | 4.01e-01 | 0.2031 |
27075 | TSPAN13 | GSM4909319 | Human | Breast | IDC | 1.56e-28 | -1.51e-01 | 0.1563 |
27075 | TSPAN13 | GSM4909321 | Human | Breast | IDC | 1.29e-27 | 6.34e-01 | 0.1559 |
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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:00109596 | Breast | Precancer | regulation of metal ion transport | 37/1080 | 406/18723 | 4.07e-03 | 3.22e-02 | 37 |
GO:001095913 | Breast | IDC | regulation of metal ion transport | 52/1434 | 406/18723 | 1.76e-04 | 2.97e-03 | 52 |
GO:0051924 | Breast | IDC | regulation of calcium ion transport | 32/1434 | 255/18723 | 3.94e-03 | 3.22e-02 | 32 |
GO:001095921 | Breast | DCIS | regulation of metal ion transport | 50/1390 | 406/18723 | 2.86e-04 | 4.22e-03 | 50 |
GO:0010959 | Colorectum | FAP | regulation of metal ion transport | 83/2622 | 406/18723 | 2.06e-04 | 2.96e-03 | 83 |
GO:1904062 | Colorectum | FAP | regulation of cation transmembrane transport | 69/2622 | 357/18723 | 3.06e-03 | 2.30e-02 | 69 |
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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 |
TSPAN13 | SNV | Missense_Mutation | c.270T>G | p.Phe90Leu | p.F90L | O95857 | protein_coding | tolerated(0.07) | benign(0.028) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
TSPAN13 | SNV | Missense_Mutation | c.457N>T | p.Pro153Ser | p.P153S | O95857 | protein_coding | tolerated(0.26) | benign(0.175) | TCGA-AA-3833-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TSPAN13 | SNV | Missense_Mutation | c.356G>A | p.Arg119Gln | p.R119Q | O95857 | protein_coding | tolerated(0.24) | benign(0.003) | TCGA-QL-A97D-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
TSPAN13 | SNV | Missense_Mutation | rs763710458 | c.283N>A | p.Ala95Thr | p.A95T | O95857 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-EI-6507-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TSPAN13 | SNV | Missense_Mutation | novel | c.119T>G | p.Ile40Ser | p.I40S | O95857 | protein_coding | deleterious(0) | benign(0.398) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TSPAN13 | SNV | Missense_Mutation | rs568219547 | c.244C>A | p.Leu82Met | p.L82M | O95857 | protein_coding | tolerated(0.05) | probably_damaging(0.999) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TSPAN13 | SNV | Missense_Mutation | c.43N>A | p.Ala15Thr | p.A15T | O95857 | protein_coding | deleterious(0.05) | benign(0.066) | TCGA-AP-A0LE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TSPAN13 | SNV | Missense_Mutation | novel | c.112G>T | p.Gly38Trp | p.G38W | O95857 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-55-6979-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | PD |
TSPAN13 | SNV | Missense_Mutation | novel | c.200N>T | p.Ala67Val | p.A67V | O95857 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-KU-A66T-01 | Oral cavity | head & neck squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
TSPAN13 | SNV | Missense_Mutation | novel | c.188N>A | p.Gly63Asp | p.G63D | O95857 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-UF-A7JF-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR |
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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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