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Gene: TOP3A |
Gene summary for TOP3A |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TOP3A | Gene ID | 7156 |
| Gene name | DNA topoisomerase III alpha | |
| Gene Alias | MGRISCE2 | |
| Cytomap | 17p11.2 | |
| Gene Type | protein-coding | GO ID | GO:0000002 | UniProtAcc | Q13472 |
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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 |
| 7156 | TOP3A | HCC1_Meng | Human | Liver | HCC | 6.26e-29 | 2.26e-02 | 0.0246 |
| 7156 | TOP3A | HCC1 | Human | Liver | HCC | 5.70e-08 | 2.30e+00 | 0.5336 |
| 7156 | TOP3A | HCC2 | Human | Liver | HCC | 1.13e-15 | 3.59e+00 | 0.5341 |
| 7156 | TOP3A | HCC5 | Human | Liver | HCC | 1.45e-11 | 1.39e+00 | 0.4932 |
| 7156 | TOP3A | S027 | Human | Liver | HCC | 3.16e-02 | 3.53e-01 | 0.2446 |
| 7156 | TOP3A | S028 | Human | Liver | HCC | 1.04e-07 | 3.42e-01 | 0.2503 |
| Page: 1 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease |
| ∗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 |
| Stomach | WIM |  |
| Stomach | SIM |  |
| Liver | NAFLD |  |
| Liver | Cirrhotic |  |
| Liver | HCC |  |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:0007059 | Liver | HCC | chromosome segregation | 197/7958 | 346/18723 | 3.57e-08 | 7.87e-07 | 197 |
| GO:0051304 | Liver | HCC | chromosome separation | 53/7958 | 96/18723 | 8.05e-03 | 3.17e-02 | 53 |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| TOP3A | SNV | Missense_Mutation | novel | c.681N>C | p.Gln227His | p.Q227H | Q13472 | protein_coding | deleterious(0) | probably_damaging(0.988) | TCGA-AC-A5XS-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD |
| TOP3A | SNV | Missense_Mutation | novel | c.625N>C | p.Glu209Gln | p.E209Q | Q13472 | protein_coding | deleterious(0.04) | probably_damaging(0.986) | TCGA-AC-A5XS-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD |
| TOP3A | SNV | Missense_Mutation | c.762N>T | p.Glu254Asp | p.E254D | Q13472 | protein_coding | deleterious(0.04) | possibly_damaging(0.593) | TCGA-AO-A128-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| TOP3A | SNV | Missense_Mutation | c.2548G>C | p.Asp850His | p.D850H | Q13472 | protein_coding | deleterious(0) | probably_damaging(0.941) | TCGA-D8-A27G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| TOP3A | SNV | Missense_Mutation | c.2258N>T | p.Ser753Leu | p.S753L | Q13472 | protein_coding | tolerated(0.4) | benign(0.001) | TCGA-EK-A2R7-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| TOP3A | SNV | Missense_Mutation | novel | c.385A>G | p.Ile129Val | p.I129V | Q13472 | protein_coding | deleterious(0.01) | possibly_damaging(0.823) | TCGA-5M-AAT6-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
| TOP3A | SNV | Missense_Mutation | c.351N>C | p.Glu117Asp | p.E117D | Q13472 | protein_coding | tolerated(0.09) | benign(0.282) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| TOP3A | SNV | Missense_Mutation | c.967C>T | p.Arg323Trp | p.R323W | Q13472 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3710-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| TOP3A | SNV | Missense_Mutation | c.1295N>A | p.Arg432Gln | p.R432Q | Q13472 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| TOP3A | SNV | Missense_Mutation | rs767516704 | c.2749C>T | p.Arg917Cys | p.R917C | Q13472 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3966-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 7 8 9 |
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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 |
| Page: 1 |
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