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Gene: HOXB4 |
Gene summary for HOXB4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HOXB4 | Gene ID | 3214 |
| Gene name | homeobox B4 | |
| Gene Alias | HOX-2.6 | |
| Cytomap | 17q21.32 | |
| Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | P17483 |
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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 |
| 3214 | HOXB4 | LZE24T | Human | Esophagus | ESCC | 9.01e-11 | 2.58e-01 | 0.0596 |
| 3214 | HOXB4 | P2T-E | Human | Esophagus | ESCC | 1.28e-12 | 1.22e-01 | 0.1177 |
| 3214 | HOXB4 | P5T-E | Human | Esophagus | ESCC | 4.69e-07 | 2.49e-01 | 0.1327 |
| 3214 | HOXB4 | P9T-E | Human | Esophagus | ESCC | 5.13e-12 | 2.81e-01 | 0.1131 |
| 3214 | HOXB4 | P10T-E | Human | Esophagus | ESCC | 1.11e-20 | 3.29e-01 | 0.116 |
| 3214 | HOXB4 | P12T-E | Human | Esophagus | ESCC | 3.17e-07 | 1.75e-01 | 0.1122 |
| 3214 | HOXB4 | P15T-E | Human | Esophagus | ESCC | 2.67e-21 | 3.78e-01 | 0.1149 |
| 3214 | HOXB4 | P16T-E | Human | Esophagus | ESCC | 2.75e-05 | 1.12e-01 | 0.1153 |
| 3214 | HOXB4 | P19T-E | Human | Esophagus | ESCC | 8.50e-03 | 1.90e-01 | 0.1662 |
| 3214 | HOXB4 | P20T-E | Human | Esophagus | ESCC | 2.23e-06 | 1.00e-01 | 0.1124 |
| 3214 | HOXB4 | P21T-E | Human | Esophagus | ESCC | 1.56e-04 | 1.06e-01 | 0.1617 |
| 3214 | HOXB4 | P22T-E | Human | Esophagus | ESCC | 1.38e-21 | 3.87e-01 | 0.1236 |
| 3214 | HOXB4 | P23T-E | Human | Esophagus | ESCC | 8.48e-27 | 5.88e-01 | 0.108 |
| 3214 | HOXB4 | P24T-E | Human | Esophagus | ESCC | 2.33e-04 | 1.06e-01 | 0.1287 |
| 3214 | HOXB4 | P27T-E | Human | Esophagus | ESCC | 2.74e-10 | 1.86e-01 | 0.1055 |
| 3214 | HOXB4 | P32T-E | Human | Esophagus | ESCC | 1.60e-15 | 2.34e-01 | 0.1666 |
| 3214 | HOXB4 | P36T-E | Human | Esophagus | ESCC | 2.43e-04 | 1.51e-01 | 0.1187 |
| 3214 | HOXB4 | P37T-E | Human | Esophagus | ESCC | 1.66e-06 | 1.01e-01 | 0.1371 |
| 3214 | HOXB4 | P39T-E | Human | Esophagus | ESCC | 5.88e-07 | 2.13e-01 | 0.0894 |
| 3214 | HOXB4 | P40T-E | Human | Esophagus | ESCC | 4.86e-09 | 2.53e-01 | 0.109 |
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| 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 |
| ∗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:00020115 | Esophagus | ESCC | morphogenesis of an epithelial sheet | 42/8552 | 57/18723 | 1.62e-05 | 1.45e-04 | 42 |
| GO:00488638 | Esophagus | ESCC | stem cell differentiation | 122/8552 | 206/18723 | 5.95e-05 | 4.59e-04 | 122 |
| GO:00485687 | Esophagus | ESCC | embryonic organ development | 228/8552 | 427/18723 | 7.28e-04 | 3.79e-03 | 228 |
| GO:200073614 | Esophagus | ESCC | regulation of stem cell differentiation | 39/8552 | 58/18723 | 7.43e-04 | 3.86e-03 | 39 |
| GO:00603485 | Esophagus | ESCC | bone development | 115/8552 | 205/18723 | 1.67e-03 | 7.72e-03 | 115 |
| GO:00602185 | Esophagus | ESCC | hematopoietic stem cell differentiation | 22/8552 | 30/18723 | 1.98e-03 | 8.90e-03 | 22 |
| GO:00487052 | Esophagus | ESCC | skeletal system morphogenesis | 120/8552 | 220/18723 | 4.90e-03 | 1.89e-02 | 120 |
| GO:00022446 | Esophagus | ESCC | hematopoietic progenitor cell differentiation | 66/8552 | 114/18723 | 5.74e-03 | 2.13e-02 | 66 |
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| 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 |
| HOXB4 | BMEM | Breast | ADJ | CITED4,TPD52L1,ADGRG5, etc. | 2.47e-01 |  |
| HOXB4 | pDC | Breast | DCIS | CITED4,TPD52L1,ADGRG5, etc. | 3.85e-02 |  |
| HOXB4 | pDC | Breast | Healthy | CITED4,TPD52L1,ADGRG5, etc. | 5.78e-02 |  |
| HOXB4 | NK | Breast | IDC | CITED4,TPD52L1,ADGRG5, etc. | 6.65e-02 |  |
| HOXB4 | pDC | Breast | IDC | CITED4,TPD52L1,ADGRG5, etc. | 2.52e-02 | |
| HOXB4 | NK | Breast | Precancer | CITED4,TPD52L1,ADGRG5, etc. | 2.90e-02 |  |
| HOXB4 | CD8TEREX | Breast | Precancer | CITED4,TPD52L1,ADGRG5, etc. | 2.33e-02 | |
| HOXB4 | MES | Cervix | N_HPV | TFF3,SRSF1,GALNT4, etc. | 5.95e-02 |  |
| HOXB4 | PLA | Liver | Cirrhotic | FGFBP2,MYOM2,IDH2, etc. | 8.97e-02 |  |
| HOXB4 | PLA | Liver | HCC | FGFBP2,MYOM2,IDH2, etc. | 1.37e-01 |  |
| ∗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 2 3 |
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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 |
| HOXB4 | SNV | Missense_Mutation | c.625T>G | p.Trp209Gly | p.W209G | P17483 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-C5-A7CO-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | SD | |
| HOXB4 | SNV | Missense_Mutation | novel | c.615N>T | p.Gln205His | p.Q205H | P17483 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-C5-A8XH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| HOXB4 | SNV | Missense_Mutation | c.88C>T | p.Pro30Ser | p.P30S | P17483 | protein_coding | deleterious(0.01) | possibly_damaging(0.854) | TCGA-D5-6930-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| HOXB4 | SNV | Missense_Mutation | c.604N>C | p.Ser202Pro | p.S202P | P17483 | protein_coding | deleterious(0.01) | possibly_damaging(0.893) | TCGA-NH-A6GA-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | PD | |
| HOXB4 | SNV | Missense_Mutation | novel | c.645N>T | p.Met215Ile | p.M215I | P17483 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| HOXB4 | SNV | Missense_Mutation | novel | c.12N>A | p.Ser4Arg | p.S4R | P17483 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-DI-A1BU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | paclitaxel | SD |
| HOXB4 | SNV | Missense_Mutation | novel | c.289N>T | p.Pro97Ser | p.P97S | P17483 | protein_coding | tolerated(0.28) | benign(0) | TCGA-DD-AAC9-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| HOXB4 | SNV | Missense_Mutation | novel | c.356N>A | p.Pro119Gln | p.P119Q | P17483 | protein_coding | deleterious(0.03) | benign(0.014) | TCGA-05-4249-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| HOXB4 | SNV | Missense_Mutation | c.722N>A | p.Pro241His | p.P241H | P17483 | protein_coding | tolerated(0.2) | benign(0.274) | TCGA-49-6767-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| HOXB4 | SNV | Missense_Mutation | c.715N>A | p.Gly239Arg | p.G239R | P17483 | protein_coding | tolerated(0.18) | benign(0.05) | TCGA-55-7994-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Chemotherapy | carboplatin | CR |
| Page: 1 2 3 |
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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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