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Gene: POLR1A |
Gene summary for POLR1A |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | POLR1A | Gene ID | 25885 |
| Gene name | RNA polymerase I subunit A | |
| Gene Alias | A190 | |
| Cytomap | 2p11.2 | |
| Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | O95602 |
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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 |
| 25885 | POLR1A | P27T-E | Human | Esophagus | ESCC | 1.48e-11 | 1.99e-01 | 0.1055 |
| 25885 | POLR1A | P28T-E | Human | Esophagus | ESCC | 1.30e-19 | 3.42e-01 | 0.1149 |
| 25885 | POLR1A | P30T-E | Human | Esophagus | ESCC | 8.64e-17 | 5.78e-01 | 0.137 |
| 25885 | POLR1A | P31T-E | Human | Esophagus | ESCC | 1.60e-16 | 1.39e-01 | 0.1251 |
| 25885 | POLR1A | P32T-E | Human | Esophagus | ESCC | 3.97e-14 | 1.94e-01 | 0.1666 |
| 25885 | POLR1A | P36T-E | Human | Esophagus | ESCC | 5.82e-09 | 4.22e-01 | 0.1187 |
| 25885 | POLR1A | P37T-E | Human | Esophagus | ESCC | 5.85e-10 | 2.37e-01 | 0.1371 |
| 25885 | POLR1A | P39T-E | Human | Esophagus | ESCC | 7.11e-07 | 1.09e-01 | 0.0894 |
| 25885 | POLR1A | P42T-E | Human | Esophagus | ESCC | 3.73e-03 | 2.00e-01 | 0.1175 |
| 25885 | POLR1A | P44T-E | Human | Esophagus | ESCC | 2.31e-04 | 6.02e-02 | 0.1096 |
| 25885 | POLR1A | P47T-E | Human | Esophagus | ESCC | 2.55e-07 | 9.93e-02 | 0.1067 |
| 25885 | POLR1A | P48T-E | Human | Esophagus | ESCC | 6.13e-15 | 2.03e-01 | 0.0959 |
| 25885 | POLR1A | P49T-E | Human | Esophagus | ESCC | 1.02e-03 | 6.79e-01 | 0.1768 |
| 25885 | POLR1A | P52T-E | Human | Esophagus | ESCC | 1.46e-21 | 3.08e-01 | 0.1555 |
| 25885 | POLR1A | P54T-E | Human | Esophagus | ESCC | 3.05e-09 | 1.94e-01 | 0.0975 |
| 25885 | POLR1A | P56T-E | Human | Esophagus | ESCC | 9.29e-05 | 7.26e-01 | 0.1613 |
| 25885 | POLR1A | P57T-E | Human | Esophagus | ESCC | 9.42e-09 | 1.40e-01 | 0.0926 |
| 25885 | POLR1A | P61T-E | Human | Esophagus | ESCC | 3.36e-14 | 2.01e-01 | 0.099 |
| 25885 | POLR1A | P62T-E | Human | Esophagus | ESCC | 2.31e-09 | 2.85e-01 | 0.1302 |
| 25885 | POLR1A | P65T-E | Human | Esophagus | ESCC | 5.75e-11 | 1.18e-01 | 0.0978 |
| Page: 1 2 3 4 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| 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 |
| 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). |
| 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:003450418 | Esophagus | ESCC | protein localization to nucleus | 211/8552 | 290/18723 | 4.06e-21 | 6.60e-19 | 211 |
| GO:190018018 | Esophagus | ESCC | regulation of protein localization to nucleus | 102/8552 | 136/18723 | 2.84e-12 | 1.13e-10 | 102 |
| GO:00063602 | Esophagus | ESCC | transcription by RNA polymerase I | 42/8552 | 55/18723 | 3.41e-06 | 3.78e-05 | 42 |
| GO:19038289 | Esophagus | ESCC | negative regulation of cellular protein localization | 76/8552 | 117/18723 | 1.97e-05 | 1.72e-04 | 76 |
| GO:190257011 | Esophagus | ESCC | protein localization to nucleolus | 13/8552 | 16/18723 | 4.05e-03 | 1.62e-02 | 13 |
| GO:003450421 | Liver | HCC | protein localization to nucleus | 194/7958 | 290/18723 | 2.84e-17 | 2.85e-15 | 194 |
| GO:190018012 | Liver | HCC | regulation of protein localization to nucleus | 95/7958 | 136/18723 | 9.26e-11 | 3.26e-09 | 95 |
| GO:190382811 | Liver | HCC | negative regulation of cellular protein localization | 71/7958 | 117/18723 | 5.44e-05 | 5.12e-04 | 71 |
| GO:0006360 | Liver | HCC | transcription by RNA polymerase I | 36/7958 | 55/18723 | 4.94e-04 | 3.23e-03 | 36 |
| GO:19025701 | Liver | HCC | protein localization to nucleolus | 13/7958 | 16/18723 | 1.84e-03 | 9.42e-03 | 13 |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa0302021 | Esophagus | ESCC | RNA polymerase | 28/4205 | 34/8465 | 8.19e-05 | 3.35e-04 | 1.71e-04 | 28 |
| hsa0302031 | Esophagus | ESCC | RNA polymerase | 28/4205 | 34/8465 | 8.19e-05 | 3.35e-04 | 1.71e-04 | 28 |
| hsa03020 | Liver | HCC | RNA polymerase | 24/4020 | 34/8465 | 5.40e-03 | 1.57e-02 | 8.75e-03 | 24 |
| hsa030201 | Liver | HCC | RNA polymerase | 24/4020 | 34/8465 | 5.40e-03 | 1.57e-02 | 8.75e-03 | 24 |
| 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 |
| POLR1A | SNV | Missense_Mutation | novel | c.2069C>A | p.Thr690Lys | p.T690K | O95602 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-A2-A0EP-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophosphamide | CR |
| POLR1A | SNV | Missense_Mutation | novel | c.1794N>A | p.Phe598Leu | p.F598L | O95602 | protein_coding | tolerated(0.09) | possibly_damaging(0.841) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| POLR1A | SNV | Missense_Mutation | c.799N>A | p.Ala267Thr | p.A267T | O95602 | protein_coding | tolerated(0.22) | benign(0.021) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| POLR1A | SNV | Missense_Mutation | rs373061040 | c.4682N>A | p.Arg1561Gln | p.R1561Q | O95602 | protein_coding | tolerated(0.05) | probably_damaging(0.961) | TCGA-AO-A128-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
| POLR1A | SNV | Missense_Mutation | rs762778123 | c.2528G>A | p.Arg843Gln | p.R843Q | O95602 | protein_coding | tolerated(1) | benign(0.003) | TCGA-AR-A250-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
| POLR1A | SNV | Missense_Mutation | c.4538N>G | p.Asp1513Gly | p.D1513G | O95602 | protein_coding | tolerated(0.14) | benign(0) | TCGA-BH-A0B1-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | adriamycin | SD | |
| POLR1A | SNV | Missense_Mutation | novel | c.4411G>C | p.Glu1471Gln | p.E1471Q | O95602 | protein_coding | tolerated(0.28) | possibly_damaging(0.87) | TCGA-BH-A18P-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
| POLR1A | SNV | Missense_Mutation | c.2614T>G | p.Tyr872Asp | p.Y872D | O95602 | protein_coding | deleterious(0.03) | benign(0.409) | TCGA-D8-A1JG-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| POLR1A | SNV | Missense_Mutation | c.721G>C | p.Glu241Gln | p.E241Q | O95602 | protein_coding | tolerated(0.17) | benign(0.076) | TCGA-GM-A2DO-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | CR | |
| POLR1A | SNV | Missense_Mutation | novel | c.4006N>A | p.Glu1336Lys | p.E1336K | O95602 | protein_coding | tolerated(0.9) | benign(0.011) | TCGA-PE-A5DE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | CR |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 |
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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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