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Gene: TP53 |
Gene summary for TP53 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TP53 | Gene ID | 7157 |
Gene name | tumor protein p53 | |
Gene Alias | BCC7 | |
Cytomap | 17p13.1 | |
Gene Type | protein-coding | GO ID | GO:0000002 | UniProtAcc | K7PPA8 |
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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 |
7157 | TP53 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.12e-07 | 5.41e-01 | -0.0811 |
7157 | TP53 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.67e-06 | 4.80e-01 | -0.1954 |
7157 | TP53 | HTA11_696_2000001011 | Human | Colorectum | AD | 5.44e-06 | 4.00e-01 | -0.1464 |
7157 | TP53 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.37e-03 | 3.24e-01 | -0.1001 |
7157 | TP53 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.12e-11 | 7.40e-01 | -0.059 |
7157 | TP53 | HTA11_546_2000001011 | Human | Colorectum | AD | 4.01e-05 | 6.45e-01 | -0.0842 |
7157 | TP53 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.61e-15 | 6.64e-01 | 0.096 |
7157 | TP53 | HTA11_4255_2000001011 | Human | Colorectum | SER | 1.25e-05 | 7.18e-01 | 0.0446 |
7157 | TP53 | HTA11_9408_2000001011 | Human | Colorectum | AD | 4.97e-04 | 7.82e-01 | 0.0451 |
7157 | TP53 | HTA11_7663_2000001011 | Human | Colorectum | SER | 9.87e-05 | 5.68e-01 | 0.0131 |
7157 | TP53 | HTA11_10623_2000001011 | Human | Colorectum | AD | 2.01e-02 | 5.44e-01 | -0.0177 |
7157 | TP53 | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.94e-04 | 3.99e-01 | 0.0338 |
7157 | TP53 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.22e-17 | 6.30e-01 | 0.0674 |
7157 | TP53 | HTA11_6818_2000001021 | Human | Colorectum | AD | 4.56e-05 | 5.34e-01 | 0.0588 |
7157 | TP53 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.16e-09 | 4.47e-01 | 0.294 |
7157 | TP53 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 2.26e-08 | 1.39e+00 | 0.3487 |
7157 | TP53 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.02e-12 | 7.86e-01 | 0.281 |
7157 | TP53 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.00e-08 | 5.52e-01 | 0.3859 |
7157 | TP53 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.31e-08 | 4.10e-01 | 0.3005 |
7157 | TP53 | A015-C-203 | Human | Colorectum | FAP | 5.67e-03 | -1.50e-01 | -0.1294 |
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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:0046034 | Colorectum | AD | ATP metabolic process | 142/3918 | 277/18723 | 2.64e-29 | 8.26e-26 | 142 |
GO:0006091 | Colorectum | AD | generation of precursor metabolites and energy | 209/3918 | 490/18723 | 3.17e-28 | 6.61e-25 | 209 |
GO:0015980 | Colorectum | AD | energy derivation by oxidation of organic compounds | 143/3918 | 318/18723 | 2.78e-22 | 2.49e-19 | 143 |
GO:0016032 | Colorectum | AD | viral process | 168/3918 | 415/18723 | 4.67e-20 | 3.66e-17 | 168 |
GO:0009896 | Colorectum | AD | positive regulation of catabolic process | 180/3918 | 492/18723 | 4.33e-16 | 1.94e-13 | 180 |
GO:0031331 | Colorectum | AD | positive regulation of cellular catabolic process | 156/3918 | 427/18723 | 4.68e-14 | 1.05e-11 | 156 |
GO:0009895 | Colorectum | AD | negative regulation of catabolic process | 124/3918 | 320/18723 | 1.66e-13 | 3.35e-11 | 124 |
GO:0006839 | Colorectum | AD | mitochondrial transport | 102/3918 | 254/18723 | 1.87e-12 | 3.08e-10 | 102 |
GO:0031330 | Colorectum | AD | negative regulation of cellular catabolic process | 104/3918 | 262/18723 | 2.66e-12 | 3.96e-10 | 104 |
GO:0072594 | Colorectum | AD | establishment of protein localization to organelle | 148/3918 | 422/18723 | 7.95e-12 | 1.04e-09 | 148 |
GO:0043254 | Colorectum | AD | regulation of protein-containing complex assembly | 148/3918 | 428/18723 | 2.64e-11 | 3.18e-09 | 148 |
GO:0097193 | Colorectum | AD | intrinsic apoptotic signaling pathway | 108/3918 | 288/18723 | 6.25e-11 | 6.41e-09 | 108 |
GO:0031334 | Colorectum | AD | positive regulation of protein-containing complex assembly | 91/3918 | 237/18723 | 4.78e-10 | 3.99e-08 | 91 |
GO:0031647 | Colorectum | AD | regulation of protein stability | 108/3918 | 298/18723 | 6.33e-10 | 5.08e-08 | 108 |
GO:0022411 | Colorectum | AD | cellular component disassembly | 147/3918 | 443/18723 | 8.53e-10 | 6.76e-08 | 147 |
GO:0010506 | Colorectum | AD | regulation of autophagy | 111/3918 | 317/18723 | 3.57e-09 | 2.35e-07 | 111 |
GO:2001242 | Colorectum | AD | regulation of intrinsic apoptotic signaling pathway | 67/3918 | 164/18723 | 4.94e-09 | 3.16e-07 | 67 |
GO:0006979 | Colorectum | AD | response to oxidative stress | 145/3918 | 446/18723 | 5.16e-09 | 3.23e-07 | 145 |
GO:0016236 | Colorectum | AD | macroautophagy | 103/3918 | 291/18723 | 6.76e-09 | 4.15e-07 | 103 |
GO:2001233 | Colorectum | AD | regulation of apoptotic signaling pathway | 119/3918 | 356/18723 | 2.14e-08 | 1.21e-06 | 119 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05012 | Colorectum | AD | Parkinson disease | 147/2092 | 266/8465 | 2.53e-27 | 8.48e-25 | 5.41e-25 | 147 |
hsa05016 | Colorectum | AD | Huntington disease | 147/2092 | 306/8465 | 1.93e-19 | 9.26e-18 | 5.91e-18 | 147 |
hsa05014 | Colorectum | AD | Amyotrophic lateral sclerosis | 164/2092 | 364/8465 | 4.28e-18 | 1.27e-16 | 8.09e-17 | 164 |
hsa05131 | Colorectum | AD | Shigellosis | 109/2092 | 247/8465 | 1.09e-11 | 2.44e-10 | 1.55e-10 | 109 |
hsa04919 | Colorectum | AD | Thyroid hormone signaling pathway | 51/2092 | 121/8465 | 1.71e-05 | 1.73e-04 | 1.10e-04 | 51 |
hsa04722 | Colorectum | AD | Neurotrophin signaling pathway | 50/2092 | 119/8465 | 2.28e-05 | 2.24e-04 | 1.43e-04 | 50 |
hsa05213 | Colorectum | AD | Endometrial cancer | 29/2092 | 58/8465 | 2.69e-05 | 2.57e-04 | 1.64e-04 | 29 |
hsa05216 | Colorectum | AD | Thyroid cancer | 21/2092 | 37/8465 | 3.05e-05 | 2.76e-04 | 1.76e-04 | 21 |
hsa05230 | Colorectum | AD | Central carbon metabolism in cancer | 33/2092 | 70/8465 | 3.61e-05 | 3.19e-04 | 2.03e-04 | 33 |
hsa05418 | Colorectum | AD | Fluid shear stress and atherosclerosis | 54/2092 | 139/8465 | 1.41e-04 | 1.16e-03 | 7.37e-04 | 54 |
hsa04216 | Colorectum | AD | Ferroptosis | 21/2092 | 41/8465 | 2.23e-04 | 1.78e-03 | 1.13e-03 | 21 |
hsa05210 | Colorectum | AD | Colorectal cancer | 35/2092 | 86/8465 | 7.54e-04 | 5.49e-03 | 3.50e-03 | 35 |
hsa05417 | Colorectum | AD | Lipid and atherosclerosis | 73/2092 | 215/8465 | 1.31e-03 | 8.27e-03 | 5.27e-03 | 73 |
hsa05205 | Colorectum | AD | Proteoglycans in cancer | 70/2092 | 205/8465 | 1.37e-03 | 8.46e-03 | 5.39e-03 | 70 |
hsa05220 | Colorectum | AD | Chronic myeloid leukemia | 31/2092 | 76/8465 | 1.41e-03 | 8.46e-03 | 5.39e-03 | 31 |
hsa05225 | Colorectum | AD | Hepatocellular carcinoma | 59/2092 | 168/8465 | 1.50e-03 | 8.69e-03 | 5.54e-03 | 59 |
hsa05163 | Colorectum | AD | Human cytomegalovirus infection | 75/2092 | 225/8465 | 2.00e-03 | 1.10e-02 | 7.01e-03 | 75 |
hsa04137 | Colorectum | AD | Mitophagy - animal | 29/2092 | 72/8465 | 2.49e-03 | 1.35e-02 | 8.59e-03 | 29 |
hsa05160 | Colorectum | AD | Hepatitis C | 54/2092 | 157/8465 | 3.87e-03 | 1.96e-02 | 1.25e-02 | 54 |
hsa04071 | Colorectum | AD | Sphingolipid signaling pathway | 43/2092 | 121/8465 | 4.83e-03 | 2.28e-02 | 1.45e-02 | 43 |
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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 |
∗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 |
TP53 | SNV | Missense_Mutation | rs28934576 | c.818N>A | p.Arg273His | p.R273H | P04637 | protein_coding | tolerated(0.13) | possibly_damaging(0.643) | TCGA-AG-4022-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR |
TP53 | SNV | Missense_Mutation | rs28934578 | c.524N>A | p.Arg175His | p.R175H | P04637 | protein_coding | tolerated(0.11) | benign(0.319) | TCGA-AG-A00C-01 | Colorectum | rectum adenocarcinoma | Female | <65 | III/IV | Chemotherapy | 5-fluorouracil | CR |
TP53 | SNV | Missense_Mutation | rs786201059 | c.856N>A | p.Glu286Lys | p.E286K | P04637 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-AG-A00Y-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
TP53 | SNV | Missense_Mutation | c.820N>C | p.Val274Leu | p.V274L | P04637 | protein_coding | deleterious(0.04) | benign(0.273) | TCGA-AG-A014-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
TP53 | SNV | Missense_Mutation | rs28934578 | c.524N>A | p.Arg175His | p.R175H | P04637 | protein_coding | tolerated(0.11) | benign(0.319) | TCGA-AG-A016-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | SD |
TP53 | SNV | Missense_Mutation | rs863224451 | c.824N>A | p.Cys275Tyr | p.C275Y | P04637 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AG-A01J-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TP53 | SNV | Missense_Mutation | rs28934578 | c.524N>A | p.Arg175His | p.R175H | P04637 | protein_coding | tolerated(0.11) | benign(0.319) | TCGA-AG-A01N-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | capecitabine | SD |
TP53 | SNV | Missense_Mutation | rs28934578 | c.524N>A | p.Arg175His | p.R175H | P04637 | protein_coding | tolerated(0.11) | benign(0.319) | TCGA-AG-A020-01 | Colorectum | rectum adenocarcinoma | Female | <65 | III/IV | Chemotherapy | folinic | CR |
TP53 | SNV | Missense_Mutation | rs28934578 | c.524N>A | p.Arg175His | p.R175H | P04637 | protein_coding | tolerated(0.11) | benign(0.319) | TCGA-AG-A02G-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | folinic | PD |
TP53 | SNV | Missense_Mutation | rs786201057 | c.374N>T | p.Thr125Met | p.T125M | P04637 | protein_coding | deleterious(0.03) | probably_damaging(0.98) | TCGA-AG-A02N-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Chemotherapy | folinic | 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 |
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | CAULIBUGULONE D | CAULIBUGULONE D | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | fluorouracil | FLUOROURACIL | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | CID 867101 | CHEMBL406557 | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | SJ000276790 | CHEMBL602922 | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | OLEOYL DOPAMINE | OLEOYL DOPAMINE | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | DNDI1417085 | CHEMBL1522984 | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | DNDI1340257 | CHEMBL1702181 | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | TEBUFENPYRAD | TEBUFENPYRAD | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | CTX-1 | 26883273 | ||
7157 | TP53 | CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR COMPLEX, TUMOR SUPPRESSOR, DRUGGABLE GENOME, KINASE, DRUG RESISTANCE, TRANSPORTER | ZM-336372 | CHEMBL186526 |
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