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Gene: IRX4 |
Gene summary for IRX4 |
Gene summary. |
Gene information | Species | Human | Gene symbol | IRX4 | Gene ID | 50805 |
Gene name | iroquois homeobox 4 | |
Gene Alias | IRXA3 | |
Cytomap | 5p15.33 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | P78413 |
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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 |
50805 | IRX4 | LZE22D3 | Human | Esophagus | HGIN | 3.50e-02 | 2.45e-01 | 0.0653 |
50805 | IRX4 | P2T-E | Human | Esophagus | ESCC | 7.37e-59 | 1.12e+00 | 0.1177 |
50805 | IRX4 | P4T-E | Human | Esophagus | ESCC | 1.30e-10 | 5.84e-02 | 0.1323 |
50805 | IRX4 | P5T-E | Human | Esophagus | ESCC | 2.68e-08 | -8.56e-02 | 0.1327 |
50805 | IRX4 | P8T-E | Human | Esophagus | ESCC | 1.02e-02 | -1.93e-01 | 0.0889 |
50805 | IRX4 | P9T-E | Human | Esophagus | ESCC | 7.61e-05 | -1.09e-01 | 0.1131 |
50805 | IRX4 | P10T-E | Human | Esophagus | ESCC | 7.30e-19 | 2.98e-01 | 0.116 |
50805 | IRX4 | P12T-E | Human | Esophagus | ESCC | 2.97e-31 | 7.68e-01 | 0.1122 |
50805 | IRX4 | P15T-E | Human | Esophagus | ESCC | 3.27e-09 | 1.95e-01 | 0.1149 |
50805 | IRX4 | P16T-E | Human | Esophagus | ESCC | 3.10e-32 | 4.75e-01 | 0.1153 |
50805 | IRX4 | P17T-E | Human | Esophagus | ESCC | 2.73e-02 | 1.91e-01 | 0.1278 |
50805 | IRX4 | P20T-E | Human | Esophagus | ESCC | 3.30e-24 | 5.89e-01 | 0.1124 |
50805 | IRX4 | P21T-E | Human | Esophagus | ESCC | 1.69e-23 | 5.28e-01 | 0.1617 |
50805 | IRX4 | P22T-E | Human | Esophagus | ESCC | 1.20e-15 | 2.89e-01 | 0.1236 |
50805 | IRX4 | P24T-E | Human | Esophagus | ESCC | 1.03e-05 | 2.56e-01 | 0.1287 |
50805 | IRX4 | P26T-E | Human | Esophagus | ESCC | 5.43e-08 | 8.98e-03 | 0.1276 |
50805 | IRX4 | P27T-E | Human | Esophagus | ESCC | 9.11e-24 | 3.05e-01 | 0.1055 |
50805 | IRX4 | P30T-E | Human | Esophagus | ESCC | 1.32e-24 | 1.05e+00 | 0.137 |
50805 | IRX4 | P31T-E | Human | Esophagus | ESCC | 5.30e-27 | 5.15e-01 | 0.1251 |
50805 | IRX4 | P32T-E | Human | Esophagus | ESCC | 2.56e-12 | 5.72e-01 | 0.1666 |
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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 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
IRX4 | BAS | Prostate | Tumor | IL15RA,SOCS6,SERPINF2, etc. | 2.30e-02 |
∗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 |
IRX4 | SNV | Missense_Mutation | c.689A>G | p.Asn230Ser | p.N230S | P78413 | protein_coding | deleterious(0) | probably_damaging(0.984) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
IRX4 | SNV | Missense_Mutation | novel | c.157N>A | p.Glu53Lys | p.E53K | P78413 | protein_coding | deleterious(0) | probably_damaging(0.98) | TCGA-LD-A74U-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | taxotere | SD |
IRX4 | insertion | In_Frame_Ins | novel | c.837_838insAAA | p.Lys279dup | p.K279dup | P78413 | protein_coding | TCGA-C8-A131-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | 5-fluorouracil | CR | ||
IRX4 | deletion | Frame_Shift_Del | novel | c.761delN | p.Glu254GlyfsTer48 | p.E254Gfs*48 | P78413 | protein_coding | TCGA-D8-A1XQ-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
IRX4 | SNV | Missense_Mutation | rs770961282 | c.704C>T | p.Pro235Leu | p.P235L | P78413 | protein_coding | deleterious(0) | probably_damaging(0.961) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
IRX4 | SNV | Missense_Mutation | c.203C>T | p.Ala68Val | p.A68V | P78413 | protein_coding | deleterious(0.01) | probably_damaging(0.987) | TCGA-EA-A410-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
IRX4 | SNV | Missense_Mutation | c.670N>T | p.Arg224Trp | p.R224W | P78413 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
IRX4 | SNV | Missense_Mutation | c.239N>T | p.Ser80Leu | p.S80L | P78413 | protein_coding | deleterious(0.01) | probably_damaging(0.975) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
IRX4 | SNV | Missense_Mutation | rs753385487 | c.727G>A | p.Glu243Lys | p.E243K | P78413 | protein_coding | deleterious(0) | possibly_damaging(0.79) | TCGA-FU-A5XV-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD |
IRX4 | SNV | Missense_Mutation | c.668G>A | p.Arg223His | p.R223H | P78413 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-AA-3815-01 | Colorectum | colon adenocarcinoma | Female | >=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 |
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