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Gene: IRF3 |
Gene summary for IRF3 |
Gene summary. |
Gene information | Species | Human | Gene symbol | IRF3 | Gene ID | 3661 |
Gene name | interferon regulatory factor 3 | |
Gene Alias | IIAE7 | |
Cytomap | 19q13.33 | |
Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | Q14653 |
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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 |
3661 | IRF3 | LZE4T | Human | Esophagus | ESCC | 1.73e-08 | 2.39e-01 | 0.0811 |
3661 | IRF3 | LZE5T | Human | Esophagus | ESCC | 7.84e-04 | 4.51e-01 | 0.0514 |
3661 | IRF3 | LZE7T | Human | Esophagus | ESCC | 6.34e-11 | 5.18e-01 | 0.0667 |
3661 | IRF3 | LZE8T | Human | Esophagus | ESCC | 3.76e-09 | 3.27e-01 | 0.067 |
3661 | IRF3 | LZE20T | Human | Esophagus | ESCC | 2.06e-06 | 2.73e-01 | 0.0662 |
3661 | IRF3 | LZE22D1 | Human | Esophagus | HGIN | 1.03e-05 | 3.38e-01 | 0.0595 |
3661 | IRF3 | LZE22T | Human | Esophagus | ESCC | 3.53e-04 | 4.03e-01 | 0.068 |
3661 | IRF3 | LZE24D1 | Human | Esophagus | HGIN | 3.63e-03 | 4.97e-01 | 0.054 |
3661 | IRF3 | LZE24T | Human | Esophagus | ESCC | 1.88e-16 | 5.66e-01 | 0.0596 |
3661 | IRF3 | LZE6T | Human | Esophagus | ESCC | 1.22e-04 | 2.23e-01 | 0.0845 |
3661 | IRF3 | P1T-E | Human | Esophagus | ESCC | 2.05e-16 | 7.87e-01 | 0.0875 |
3661 | IRF3 | P2T-E | Human | Esophagus | ESCC | 1.45e-32 | 5.29e-01 | 0.1177 |
3661 | IRF3 | P4T-E | Human | Esophagus | ESCC | 6.31e-26 | 5.42e-01 | 0.1323 |
3661 | IRF3 | P5T-E | Human | Esophagus | ESCC | 5.55e-09 | 2.41e-01 | 0.1327 |
3661 | IRF3 | P8T-E | Human | Esophagus | ESCC | 1.36e-71 | 1.37e+00 | 0.0889 |
3661 | IRF3 | P9T-E | Human | Esophagus | ESCC | 9.58e-15 | 3.80e-01 | 0.1131 |
3661 | IRF3 | P10T-E | Human | Esophagus | ESCC | 4.92e-35 | 6.68e-01 | 0.116 |
3661 | IRF3 | P11T-E | Human | Esophagus | ESCC | 1.46e-12 | 5.31e-01 | 0.1426 |
3661 | IRF3 | P12T-E | Human | Esophagus | ESCC | 2.19e-22 | 4.52e-01 | 0.1122 |
3661 | IRF3 | P15T-E | Human | Esophagus | ESCC | 3.61e-21 | 5.54e-01 | 0.1149 |
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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:004312220 | Esophagus | HGIN | regulation of I-kappaB kinase/NF-kappaB signaling | 63/2587 | 249/18723 | 8.91e-07 | 3.61e-05 | 63 |
GO:000724918 | Esophagus | HGIN | I-kappaB kinase/NF-kappaB signaling | 67/2587 | 281/18723 | 3.84e-06 | 1.29e-04 | 67 |
GO:004312317 | Esophagus | HGIN | positive regulation of I-kappaB kinase/NF-kappaB signaling | 49/2587 | 186/18723 | 4.22e-06 | 1.40e-04 | 49 |
GO:003052220 | Esophagus | HGIN | intracellular receptor signaling pathway | 62/2587 | 265/18723 | 1.63e-05 | 4.50e-04 | 62 |
GO:00027538 | Esophagus | HGIN | cytoplasmic pattern recognition receptor signaling pathway | 19/2587 | 60/18723 | 3.07e-04 | 5.15e-03 | 19 |
GO:00395284 | Esophagus | HGIN | cytoplasmic pattern recognition receptor signaling pathway in response to virus | 13/2587 | 34/18723 | 3.51e-04 | 5.65e-03 | 13 |
GO:00343406 | Esophagus | HGIN | response to type I interferon | 17/2587 | 58/18723 | 1.64e-03 | 1.82e-02 | 17 |
GO:00324817 | Esophagus | HGIN | positive regulation of type I interferon production | 16/2587 | 58/18723 | 4.35e-03 | 3.84e-02 | 16 |
GO:00985867 | Esophagus | HGIN | cellular response to virus | 21/2587 | 84/18723 | 4.35e-03 | 3.84e-02 | 21 |
GO:000961517 | Esophagus | HGIN | response to virus | 69/2587 | 367/18723 | 4.39e-03 | 3.86e-02 | 69 |
GO:00324794 | Esophagus | HGIN | regulation of type I interferon production | 23/2587 | 95/18723 | 4.51e-03 | 3.93e-02 | 23 |
GO:00326064 | Esophagus | HGIN | type I interferon production | 23/2587 | 95/18723 | 4.51e-03 | 3.93e-02 | 23 |
GO:000961518 | Esophagus | ESCC | response to virus | 238/8552 | 367/18723 | 6.65e-14 | 3.32e-12 | 238 |
GO:004312318 | Esophagus | ESCC | positive regulation of I-kappaB kinase/NF-kappaB signaling | 132/8552 | 186/18723 | 2.07e-12 | 8.58e-11 | 132 |
GO:0043122110 | Esophagus | ESCC | regulation of I-kappaB kinase/NF-kappaB signaling | 167/8552 | 249/18723 | 6.11e-12 | 2.32e-10 | 167 |
GO:000724919 | Esophagus | ESCC | I-kappaB kinase/NF-kappaB signaling | 183/8552 | 281/18723 | 3.02e-11 | 1.01e-09 | 183 |
GO:00516075 | Esophagus | ESCC | defense response to virus | 171/8552 | 265/18723 | 3.91e-10 | 1.05e-08 | 171 |
GO:01405465 | Esophagus | ESCC | defense response to symbiont | 171/8552 | 265/18723 | 3.91e-10 | 1.05e-08 | 171 |
GO:0030522110 | Esophagus | ESCC | intracellular receptor signaling pathway | 170/8552 | 265/18723 | 8.58e-10 | 2.09e-08 | 170 |
GO:003434013 | Esophagus | ESCC | response to type I interferon | 48/8552 | 58/18723 | 6.18e-09 | 1.26e-07 | 48 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0517139 | Esophagus | HGIN | Coronavirus disease - COVID-19 | 105/1383 | 232/8465 | 7.84e-26 | 5.11e-24 | 4.06e-24 | 105 |
hsa0513139 | Esophagus | HGIN | Shigellosis | 71/1383 | 247/8465 | 4.89e-07 | 7.98e-06 | 6.34e-06 | 71 |
hsa0516930 | Esophagus | HGIN | Epstein-Barr virus infection | 55/1383 | 202/8465 | 5.13e-05 | 6.19e-04 | 4.92e-04 | 55 |
hsa0516730 | Esophagus | HGIN | Kaposi sarcoma-associated herpesvirus infection | 51/1383 | 194/8465 | 2.46e-04 | 2.69e-03 | 2.14e-03 | 51 |
hsa052039 | Esophagus | HGIN | Viral carcinogenesis | 53/1383 | 204/8465 | 2.58e-04 | 2.71e-03 | 2.15e-03 | 53 |
hsa0517029 | Esophagus | HGIN | Human immunodeficiency virus 1 infection | 51/1383 | 212/8465 | 2.16e-03 | 1.90e-02 | 1.51e-02 | 51 |
hsa0541739 | Esophagus | HGIN | Lipid and atherosclerosis | 51/1383 | 215/8465 | 2.95e-03 | 2.41e-02 | 1.91e-02 | 51 |
hsa046219 | Esophagus | HGIN | NOD-like receptor signaling pathway | 45/1383 | 186/8465 | 3.40e-03 | 2.54e-02 | 2.02e-02 | 45 |
hsa0516420 | Esophagus | HGIN | Influenza A | 42/1383 | 171/8465 | 3.41e-03 | 2.54e-02 | 2.02e-02 | 42 |
hsa0516330 | Esophagus | HGIN | Human cytomegalovirus infection | 51/1383 | 225/8465 | 7.67e-03 | 4.63e-02 | 3.68e-02 | 51 |
hsa05171115 | Esophagus | HGIN | Coronavirus disease - COVID-19 | 105/1383 | 232/8465 | 7.84e-26 | 5.11e-24 | 4.06e-24 | 105 |
hsa05131114 | Esophagus | HGIN | Shigellosis | 71/1383 | 247/8465 | 4.89e-07 | 7.98e-06 | 6.34e-06 | 71 |
hsa05169114 | Esophagus | HGIN | Epstein-Barr virus infection | 55/1383 | 202/8465 | 5.13e-05 | 6.19e-04 | 4.92e-04 | 55 |
hsa05167114 | Esophagus | HGIN | Kaposi sarcoma-associated herpesvirus infection | 51/1383 | 194/8465 | 2.46e-04 | 2.69e-03 | 2.14e-03 | 51 |
hsa0520315 | Esophagus | HGIN | Viral carcinogenesis | 53/1383 | 204/8465 | 2.58e-04 | 2.71e-03 | 2.15e-03 | 53 |
hsa05170112 | Esophagus | HGIN | Human immunodeficiency virus 1 infection | 51/1383 | 212/8465 | 2.16e-03 | 1.90e-02 | 1.51e-02 | 51 |
hsa05417114 | Esophagus | HGIN | Lipid and atherosclerosis | 51/1383 | 215/8465 | 2.95e-03 | 2.41e-02 | 1.91e-02 | 51 |
hsa0462114 | Esophagus | HGIN | NOD-like receptor signaling pathway | 45/1383 | 186/8465 | 3.40e-03 | 2.54e-02 | 2.02e-02 | 45 |
hsa05164110 | Esophagus | HGIN | Influenza A | 42/1383 | 171/8465 | 3.41e-03 | 2.54e-02 | 2.02e-02 | 42 |
hsa05163113 | Esophagus | HGIN | Human cytomegalovirus infection | 51/1383 | 225/8465 | 7.67e-03 | 4.63e-02 | 3.68e-02 | 51 |
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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 |
IRF3 | insertion | Frame_Shift_Ins | rs750476278 | c.1334_1335insC | p.Val446CysfsTer14 | p.V446Cfs*14 | Q14653 | protein_coding | TCGA-B5-A1MX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Hormone Therapy | megace | SD | ||
IRF3 | deletion | Frame_Shift_Del | novel | c.1334delC | p.Pro445LeufsTer? | p.P445Lfs*? | Q14653 | protein_coding | TCGA-BG-A220-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
IRF3 | SNV | Missense_Mutation | c.97C>T | p.Arg33Cys | p.R33C | Q14653 | protein_coding | deleterious(0) | probably_damaging(0.978) | TCGA-DD-A73C-01 | Liver | liver hepatocellular carcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
IRF3 | SNV | Missense_Mutation | rs369809017 | c.265N>A | p.Gly89Arg | p.G89R | Q14653 | protein_coding | tolerated(0.59) | possibly_damaging(0.897) | TCGA-BR-8363-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
IRF3 | SNV | Missense_Mutation | rs566321486 | c.826C>T | p.Arg276Trp | p.R276W | Q14653 | protein_coding | deleterious(0.03) | probably_damaging(0.984) | TCGA-BR-8487-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
IRF3 | SNV | Missense_Mutation | c.206N>G | p.Asp69Gly | p.D69G | Q14653 | protein_coding | deleterious(0.01) | probably_damaging(0.988) | TCGA-CD-A4MG-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
IRF3 | SNV | Missense_Mutation | c.1198C>T | p.His400Tyr | p.H400Y | Q14653 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.979) | TCGA-CG-4477-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Chemotherapy | cisplatin | PD | |
IRF3 | deletion | Frame_Shift_Del | novel | c.345_346delGG | p.Asp116LeufsTer18 | p.D116Lfs*18 | Q14653 | protein_coding | TCGA-ET-A40S-01 | Thyroid | thyroid carcinoma | Male | <65 | I/II | Unknown | Unknown | 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 |
3661 | IRF3 | KINASE, TRANSCRIPTION FACTOR | IFN | 10692430 |
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