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Gene: DENR |
Gene summary for DENR |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | DENR | Gene ID | 8562 |
| Gene name | density regulated re-initiation and release factor | |
| Gene Alias | DRP | |
| Cytomap | 12q24.31 | |
| Gene Type | protein-coding | GO ID | GO:0001731 | UniProtAcc | A0A024RBR3 |
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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 |
| 8562 | DENR | LZE3D | Human | Esophagus | HGIN | 7.53e-06 | 3.75e-01 | 0.0668 |
| 8562 | DENR | LZE4T | Human | Esophagus | ESCC | 7.58e-19 | 4.41e-01 | 0.0811 |
| 8562 | DENR | LZE7T | Human | Esophagus | ESCC | 4.32e-07 | 7.28e-01 | 0.0667 |
| 8562 | DENR | LZE8T | Human | Esophagus | ESCC | 4.12e-08 | 2.39e-01 | 0.067 |
| 8562 | DENR | LZE20T | Human | Esophagus | ESCC | 1.98e-08 | 2.82e-01 | 0.0662 |
| 8562 | DENR | LZE22D1 | Human | Esophagus | HGIN | 1.22e-07 | -1.15e-02 | 0.0595 |
| 8562 | DENR | LZE22T | Human | Esophagus | ESCC | 2.77e-05 | 3.27e-01 | 0.068 |
| 8562 | DENR | LZE24T | Human | Esophagus | ESCC | 2.67e-13 | 5.65e-01 | 0.0596 |
| 8562 | DENR | P1T-E | Human | Esophagus | ESCC | 1.29e-14 | 1.01e+00 | 0.0875 |
| 8562 | DENR | P2T-E | Human | Esophagus | ESCC | 2.02e-63 | 1.29e+00 | 0.1177 |
| 8562 | DENR | P4T-E | Human | Esophagus | ESCC | 1.49e-34 | 1.13e+00 | 0.1323 |
| 8562 | DENR | P5T-E | Human | Esophagus | ESCC | 2.44e-37 | 9.81e-01 | 0.1327 |
| 8562 | DENR | P8T-E | Human | Esophagus | ESCC | 4.40e-42 | 9.31e-01 | 0.0889 |
| 8562 | DENR | P9T-E | Human | Esophagus | ESCC | 1.17e-10 | 3.43e-01 | 0.1131 |
| 8562 | DENR | P10T-E | Human | Esophagus | ESCC | 8.27e-55 | 8.84e-01 | 0.116 |
| 8562 | DENR | P11T-E | Human | Esophagus | ESCC | 2.56e-15 | 9.05e-01 | 0.1426 |
| 8562 | DENR | P12T-E | Human | Esophagus | ESCC | 2.72e-32 | 5.10e-01 | 0.1122 |
| 8562 | DENR | P15T-E | Human | Esophagus | ESCC | 9.05e-23 | 5.70e-01 | 0.1149 |
| 8562 | DENR | P16T-E | Human | Esophagus | ESCC | 2.13e-43 | 8.65e-01 | 0.1153 |
| 8562 | DENR | P17T-E | Human | Esophagus | ESCC | 9.00e-19 | 7.60e-01 | 0.1278 |
| Page: 1 2 3 4 5 6 7 |
| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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:000218127 | Esophagus | HGIN | cytoplasmic translation | 108/2587 | 148/18723 | 1.70e-60 | 1.02e-56 | 108 |
| GO:002261327 | Esophagus | HGIN | ribonucleoprotein complex biogenesis | 158/2587 | 463/18723 | 2.61e-29 | 5.23e-26 | 158 |
| GO:007182627 | Esophagus | HGIN | ribonucleoprotein complex subunit organization | 84/2587 | 227/18723 | 1.34e-18 | 5.37e-16 | 84 |
| GO:002261827 | Esophagus | HGIN | ribonucleoprotein complex assembly | 82/2587 | 220/18723 | 2.07e-18 | 7.36e-16 | 82 |
| GO:000641320 | Esophagus | HGIN | translational initiation | 55/2587 | 118/18723 | 7.33e-18 | 2.31e-15 | 55 |
| GO:001603227 | Esophagus | HGIN | viral process | 118/2587 | 415/18723 | 3.01e-15 | 6.22e-13 | 118 |
| GO:000218320 | Esophagus | HGIN | cytoplasmic translational initiation | 19/2587 | 34/18723 | 1.01e-08 | 6.44e-07 | 19 |
| GO:002241120 | Esophagus | HGIN | cellular component disassembly | 102/2587 | 443/18723 | 8.31e-08 | 4.33e-06 | 102 |
| GO:19030089 | Esophagus | HGIN | organelle disassembly | 36/2587 | 114/18723 | 8.60e-07 | 3.58e-05 | 36 |
| GO:001908016 | Esophagus | HGIN | viral gene expression | 28/2587 | 94/18723 | 4.52e-05 | 1.09e-03 | 28 |
| GO:001908115 | Esophagus | HGIN | viral translation | 8/2587 | 16/18723 | 6.00e-04 | 8.41e-03 | 8 |
| GO:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
| GO:0002181111 | Esophagus | ESCC | cytoplasmic translation | 135/8552 | 148/18723 | 4.17e-32 | 2.65e-29 | 135 |
| GO:0016032111 | Esophagus | ESCC | viral process | 301/8552 | 415/18723 | 3.34e-29 | 1.32e-26 | 301 |
| GO:0022411111 | Esophagus | ESCC | cellular component disassembly | 305/8552 | 443/18723 | 1.94e-23 | 4.57e-21 | 305 |
| GO:0006413110 | Esophagus | ESCC | translational initiation | 100/8552 | 118/18723 | 1.16e-18 | 1.25e-16 | 100 |
| GO:0071826111 | Esophagus | ESCC | ribonucleoprotein complex subunit organization | 166/8552 | 227/18723 | 2.94e-17 | 2.42e-15 | 166 |
| GO:0022618111 | Esophagus | ESCC | ribonucleoprotein complex assembly | 159/8552 | 220/18723 | 8.19e-16 | 5.71e-14 | 159 |
| GO:001908017 | Esophagus | ESCC | viral gene expression | 80/8552 | 94/18723 | 2.04e-15 | 1.28e-13 | 80 |
| GO:190300816 | Esophagus | ESCC | organelle disassembly | 89/8552 | 114/18723 | 1.36e-12 | 5.80e-11 | 89 |
| Page: 1 2 3 4 5 6 7 8 9 |
| 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 |
| DENR | deletion | Frame_Shift_Del | c.317delN | p.Lys108ArgfsTer10 | p.K108Rfs*10 | O43583 | protein_coding | TCGA-EI-6882-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |||
| DENR | SNV | Missense_Mutation | novel | c.375N>T | p.Lys125Asn | p.K125N | O43583 | protein_coding | tolerated(0.19) | possibly_damaging(0.874) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| DENR | SNV | Missense_Mutation | novel | c.174G>T | p.Glu58Asp | p.E58D | O43583 | protein_coding | deleterious(0.01) | possibly_damaging(0.493) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| DENR | SNV | Missense_Mutation | c.401N>C | p.Leu134Pro | p.L134P | O43583 | protein_coding | deleterious(0.02) | probably_damaging(0.999) | TCGA-AX-A0J1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| DENR | SNV | Missense_Mutation | novel | c.152C>G | p.Ala51Gly | p.A51G | O43583 | protein_coding | tolerated(0.37) | benign(0.001) | TCGA-AX-A3G7-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| DENR | SNV | Missense_Mutation | novel | c.456N>A | p.Phe152Leu | p.F152L | O43583 | protein_coding | deleterious(0) | probably_damaging(0.934) | TCGA-EO-A22X-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unspecific | Carboplatin | Complete Response |
| DENR | SNV | Missense_Mutation | novel | c.177N>T | p.Lys59Asn | p.K59N | O43583 | protein_coding | deleterious(0.04) | possibly_damaging(0.544) | TCGA-EO-A3AY-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
| DENR | SNV | Missense_Mutation | novel | c.467C>T | p.Ala156Val | p.A156V | O43583 | protein_coding | tolerated(0.1) | benign(0.151) | TCGA-FI-A2D0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| DENR | insertion | Frame_Shift_Ins | novel | c.316_317insA | p.Lys109GlufsTer30 | p.K109Efs*30 | O43583 | protein_coding | TCGA-EO-A22U-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 |
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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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