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Gene: TPD52 |
Gene summary for TPD52 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TPD52 | Gene ID | 7163 |
Gene name | tumor protein D52 | |
Gene Alias | D52 | |
Cytomap | 8q21.13 | |
Gene Type | protein-coding | GO ID | GO:0001775 | UniProtAcc | P55327 |
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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 |
7163 | TPD52 | HCC1_Meng | Human | Liver | HCC | 9.18e-86 | 3.75e-01 | 0.0246 |
7163 | TPD52 | HCC2_Meng | Human | Liver | HCC | 5.46e-55 | 5.29e-01 | 0.0107 |
7163 | TPD52 | cirrhotic2 | Human | Liver | Cirrhotic | 8.67e-14 | 1.84e-01 | 0.0201 |
7163 | TPD52 | HCC1 | Human | Liver | HCC | 2.21e-07 | 3.58e+00 | 0.5336 |
7163 | TPD52 | HCC2 | Human | Liver | HCC | 3.36e-16 | 4.84e+00 | 0.5341 |
7163 | TPD52 | Pt13.b | Human | Liver | HCC | 4.13e-06 | -2.12e-02 | 0.0251 |
7163 | TPD52 | S014 | Human | Liver | HCC | 1.52e-23 | 1.08e+00 | 0.2254 |
7163 | TPD52 | S015 | Human | Liver | HCC | 5.76e-27 | 1.55e+00 | 0.2375 |
7163 | TPD52 | S016 | Human | Liver | HCC | 2.54e-24 | 1.26e+00 | 0.2243 |
7163 | TPD52 | S027 | Human | Liver | HCC | 1.69e-10 | 1.28e+00 | 0.2446 |
7163 | TPD52 | S028 | Human | Liver | HCC | 2.70e-20 | 1.43e+00 | 0.2503 |
7163 | TPD52 | S029 | Human | Liver | HCC | 2.51e-22 | 1.47e+00 | 0.2581 |
7163 | TPD52 | RNA-P17T-P17T-4 | Human | Lung | IAC | 7.11e-03 | 1.60e-01 | 0.343 |
7163 | TPD52 | RNA-P17T-P17T-6 | Human | Lung | IAC | 2.27e-03 | 5.62e-01 | 0.3385 |
7163 | TPD52 | RNA-P17T-P17T-8 | Human | Lung | IAC | 2.79e-03 | 4.31e-01 | 0.3329 |
7163 | TPD52 | RNA-P25T1-P25T1-1 | Human | Lung | AIS | 2.77e-13 | 5.63e-01 | -0.2116 |
7163 | TPD52 | RNA-P25T1-P25T1-2 | Human | Lung | AIS | 1.49e-04 | 5.42e-01 | -0.1941 |
7163 | TPD52 | RNA-P25T1-P25T1-4 | Human | Lung | AIS | 1.14e-02 | 3.21e-01 | -0.2119 |
7163 | TPD52 | RNA-P3T-P3T-1 | Human | Lung | IAC | 7.35e-03 | 5.08e-01 | 0.1829 |
7163 | TPD52 | RNA-P3T-P3T-2 | Human | Lung | IAC | 1.81e-02 | 4.87e-01 | 0.1835 |
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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:20012339 | Breast | Precancer | regulation of apoptotic signaling pathway | 65/1080 | 356/18723 | 7.70e-17 | 3.17e-14 | 65 |
GO:20012356 | Breast | Precancer | positive regulation of apoptotic signaling pathway | 24/1080 | 126/18723 | 1.98e-07 | 1.01e-05 | 24 |
GO:19031313 | Breast | Precancer | mononuclear cell differentiation | 43/1080 | 426/18723 | 2.61e-04 | 3.84e-03 | 43 |
GO:0030098 | Breast | Precancer | lymphocyte differentiation | 36/1080 | 374/18723 | 1.85e-03 | 1.81e-02 | 36 |
GO:00336749 | Breast | Precancer | positive regulation of kinase activity | 42/1080 | 467/18723 | 2.94e-03 | 2.54e-02 | 42 |
GO:200123314 | Breast | IDC | regulation of apoptotic signaling pathway | 82/1434 | 356/18723 | 6.27e-20 | 5.93e-17 | 82 |
GO:200123514 | Breast | IDC | positive regulation of apoptotic signaling pathway | 31/1434 | 126/18723 | 4.13e-09 | 3.35e-07 | 31 |
GO:190313111 | Breast | IDC | mononuclear cell differentiation | 51/1434 | 426/18723 | 9.81e-04 | 1.11e-02 | 51 |
GO:200123324 | Breast | DCIS | regulation of apoptotic signaling pathway | 81/1390 | 356/18723 | 3.51e-20 | 3.31e-17 | 81 |
GO:200123523 | Breast | DCIS | positive regulation of apoptotic signaling pathway | 31/1390 | 126/18723 | 1.96e-09 | 1.76e-07 | 31 |
GO:19031312 | Breast | DCIS | mononuclear cell differentiation | 51/1390 | 426/18723 | 4.88e-04 | 6.40e-03 | 51 |
GO:00447724 | Breast | DCIS | mitotic cell cycle phase transition | 46/1390 | 424/18723 | 6.16e-03 | 4.39e-02 | 46 |
GO:19031314 | Cervix | CC | mononuclear cell differentiation | 76/2311 | 426/18723 | 5.66e-04 | 5.42e-03 | 76 |
GO:00300981 | Cervix | CC | lymphocyte differentiation | 63/2311 | 374/18723 | 6.21e-03 | 3.52e-02 | 63 |
GO:1903131 | Colorectum | FAP | mononuclear cell differentiation | 79/2622 | 426/18723 | 5.00e-03 | 3.33e-02 | 79 |
GO:2001233111 | Esophagus | ESCC | regulation of apoptotic signaling pathway | 256/8552 | 356/18723 | 4.11e-24 | 1.04e-21 | 256 |
GO:004477216 | Esophagus | ESCC | mitotic cell cycle phase transition | 281/8552 | 424/18723 | 4.63e-18 | 4.45e-16 | 281 |
GO:007190016 | Esophagus | ESCC | regulation of protein serine/threonine kinase activity | 227/8552 | 359/18723 | 1.12e-11 | 4.10e-10 | 227 |
GO:2001235110 | Esophagus | ESCC | positive regulation of apoptotic signaling pathway | 92/8552 | 126/18723 | 3.91e-10 | 1.05e-08 | 92 |
GO:00448394 | Esophagus | ESCC | cell cycle G2/M phase transition | 103/8552 | 148/18723 | 3.09e-09 | 6.67e-08 | 103 |
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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 |
TPD52 | SNV | Missense_Mutation | novel | c.335N>T | p.Gly112Val | p.G112V | P55327 | protein_coding | deleterious(0.01) | probably_damaging(0.992) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
TPD52 | SNV | Missense_Mutation | c.283N>G | p.Gln95Glu | p.Q95E | P55327 | protein_coding | deleterious(0) | possibly_damaging(0.858) | TCGA-C8-A1HM-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | doxorubicin | CR | |
TPD52 | SNV | Missense_Mutation | novel | c.151N>C | p.Thr51Pro | p.T51P | P55327 | protein_coding | tolerated(0.26) | benign(0.029) | TCGA-PE-A5DC-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
TPD52 | SNV | Missense_Mutation | c.682G>A | p.Ala228Thr | p.A228T | P55327 | protein_coding | tolerated(1) | benign(0.022) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
TPD52 | SNV | Missense_Mutation | rs377167805 | c.737N>A | p.Ser246Asn | p.S246N | P55327 | protein_coding | tolerated_low_confidence(0.28) | benign(0.001) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TPD52 | SNV | Missense_Mutation | rs375764073 | c.539G>A | p.Arg180His | p.R180H | P55327 | protein_coding | tolerated(0.36) | probably_damaging(0.973) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
TPD52 | SNV | Missense_Mutation | c.611N>C | p.Val204Ala | p.V204A | P55327 | protein_coding | deleterious(0.01) | probably_damaging(0.955) | TCGA-G4-6302-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
TPD52 | SNV | Missense_Mutation | novel | c.253A>C | p.Lys85Gln | p.K85Q | P55327 | protein_coding | tolerated(0.13) | possibly_damaging(0.547) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TPD52 | SNV | Missense_Mutation | rs150326619 | c.215C>T | p.Ser72Leu | p.S72L | P55327 | protein_coding | deleterious(0.02) | benign(0.199) | TCGA-AX-A05S-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unspecific | Carboplatin & Paclitaxel | PD |
TPD52 | SNV | Missense_Mutation | rs778829541 | c.538N>T | p.Arg180Cys | p.R180C | P55327 | protein_coding | tolerated(0.1) | probably_damaging(0.991) | TCGA-AX-A06F-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatin | 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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