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Gene: HOXD11 |
Gene summary for HOXD11 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HOXD11 | Gene ID | 3237 |
| Gene name | homeobox D11 | |
| Gene Alias | HOX4 | |
| Cytomap | 2q31.1 | |
| Gene Type | protein-coding | GO ID | GO:0001655 | UniProtAcc | P31277 |
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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 |
| 3237 | HOXD11 | LZE2D | Human | Esophagus | HGIN | 2.47e-07 | 4.85e-01 | 0.0642 |
| 3237 | HOXD11 | LZE2T | Human | Esophagus | ESCC | 2.18e-04 | 4.66e-01 | 0.082 |
| 3237 | HOXD11 | LZE4T | Human | Esophagus | ESCC | 1.20e-26 | 6.59e-01 | 0.0811 |
| 3237 | HOXD11 | LZE5T | Human | Esophagus | ESCC | 1.48e-05 | 3.63e-01 | 0.0514 |
| 3237 | HOXD11 | LZE8T | Human | Esophagus | ESCC | 4.82e-12 | 3.77e-01 | 0.067 |
| 3237 | HOXD11 | LZE20T | Human | Esophagus | ESCC | 1.65e-20 | 6.01e-01 | 0.0662 |
| 3237 | HOXD11 | LZE21D1 | Human | Esophagus | HGIN | 3.53e-05 | 3.63e-01 | 0.0632 |
| 3237 | HOXD11 | LZE24T | Human | Esophagus | ESCC | 2.62e-15 | 4.09e-01 | 0.0596 |
| 3237 | HOXD11 | LZE21T | Human | Esophagus | ESCC | 2.14e-10 | 5.85e-01 | 0.0655 |
| 3237 | HOXD11 | LZE6T | Human | Esophagus | ESCC | 2.61e-09 | 3.97e-01 | 0.0845 |
| 3237 | HOXD11 | P1T-E | Human | Esophagus | ESCC | 1.05e-17 | 5.70e-01 | 0.0875 |
| 3237 | HOXD11 | P2T-E | Human | Esophagus | ESCC | 1.31e-36 | 5.20e-01 | 0.1177 |
| 3237 | HOXD11 | P4T-E | Human | Esophagus | ESCC | 1.07e-48 | 9.85e-01 | 0.1323 |
| 3237 | HOXD11 | P5T-E | Human | Esophagus | ESCC | 5.17e-27 | 4.69e-01 | 0.1327 |
| 3237 | HOXD11 | P8T-E | Human | Esophagus | ESCC | 1.24e-51 | 7.51e-01 | 0.0889 |
| 3237 | HOXD11 | P9T-E | Human | Esophagus | ESCC | 2.41e-06 | 1.56e-01 | 0.1131 |
| 3237 | HOXD11 | P12T-E | Human | Esophagus | ESCC | 6.31e-48 | 8.99e-01 | 0.1122 |
| 3237 | HOXD11 | P15T-E | Human | Esophagus | ESCC | 3.15e-42 | 9.11e-01 | 0.1149 |
| 3237 | HOXD11 | P16T-E | Human | Esophagus | ESCC | 8.56e-12 | 2.21e-01 | 0.1153 |
| 3237 | HOXD11 | P17T-E | Human | Esophagus | ESCC | 1.49e-05 | 3.00e-01 | 0.1278 |
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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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma |
| ∗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:006056210 | Esophagus | ESCC | epithelial tube morphogenesis | 187/8552 | 325/18723 | 9.95e-06 | 9.44e-05 | 187 |
| GO:00016559 | Esophagus | ESCC | urogenital system development | 177/8552 | 338/18723 | 7.51e-03 | 2.69e-02 | 177 |
| GO:00017639 | Esophagus | ESCC | morphogenesis of a branching structure | 106/8552 | 196/18723 | 1.08e-02 | 3.66e-02 | 106 |
| GO:00016558 | Oral cavity | OSCC | urogenital system development | 160/7305 | 338/18723 | 1.03e-03 | 5.31e-03 | 160 |
| GO:00605629 | Oral cavity | OSCC | epithelial tube morphogenesis | 149/7305 | 325/18723 | 6.73e-03 | 2.50e-02 | 149 |
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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 |
| HOXD11 | INCAF | Cervix | N_HPV | WNT16,SLC18A2,SERPINE2, etc. | 7.86e-01 |  |
| HOXD11 | LUM | Endometrium | Healthy | LFNG,SULF1,TCF19, etc. | 3.58e-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 |
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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 |
| HOXD11 | SNV | Missense_Mutation | c.815N>A | p.Pro272His | p.P272H | P31277 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AR-A1AQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| HOXD11 | SNV | Missense_Mutation | novel | c.982C>T | p.Arg328Cys | p.R328C | P31277 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| HOXD11 | SNV | Missense_Mutation | c.7N>A | p.Asp3Asn | p.D3N | P31277 | protein_coding | tolerated(0.07) | benign(0.031) | TCGA-EK-A2RB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| HOXD11 | SNV | Missense_Mutation | c.794N>A | p.Arg265Gln | p.R265Q | P31277 | protein_coding | deleterious(0) | possibly_damaging(0.534) | TCGA-AA-3858-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| HOXD11 | SNV | Missense_Mutation | novel | c.977G>T | p.Arg326Ile | p.R326I | P31277 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| HOXD11 | SNV | Missense_Mutation | novel | c.974N>G | p.Asn325Ser | p.N325S | P31277 | protein_coding | tolerated(0.29) | benign(0.074) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| HOXD11 | deletion | Frame_Shift_Del | rs778212888 | c.790delC | p.Gln264SerfsTer28 | p.Q264Sfs*28 | P31277 | protein_coding | TCGA-AA-3950-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| HOXD11 | SNV | Missense_Mutation | novel | c.982N>T | p.Arg328Cys | p.R328C | P31277 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| HOXD11 | SNV | Missense_Mutation | novel | c.40N>G | p.Met14Val | p.M14V | P31277 | protein_coding | deleterious(0.03) | benign(0.091) | TCGA-AX-A3FT-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| HOXD11 | SNV | Missense_Mutation | c.835N>T | p.Arg279Cys | p.R279C | P31277 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | 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 |
| Page: 1 |
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