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Gene: HMBOX1 |
Gene summary for HMBOX1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HMBOX1 | Gene ID | 79618 |
| Gene name | homeobox containing 1 | |
| Gene Alias | HNF1LA | |
| Cytomap | 8p21.1-p12 | |
| Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | Q6NT76 |
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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 |
| 79618 | HMBOX1 | RNA-P17T-P17T-4 | Human | Lung | IAC | 2.72e-03 | 5.72e-01 | 0.343 |
| 79618 | HMBOX1 | RNA-P25T1-P25T1-1 | Human | Lung | AIS | 4.41e-13 | 6.85e-01 | -0.2116 |
| 79618 | HMBOX1 | RNA-P25T1-P25T1-2 | Human | Lung | AIS | 7.42e-03 | 5.98e-01 | -0.1941 |
| 79618 | HMBOX1 | RNA-P25T1-P25T1-3 | Human | Lung | AIS | 2.17e-02 | 5.40e-01 | -0.2107 |
| 79618 | HMBOX1 | RNA-P25T1-P25T1-4 | Human | Lung | AIS | 3.37e-07 | 5.59e-01 | -0.2119 |
| 79618 | HMBOX1 | RNA-P6T2-P6T2-1 | Human | Lung | IAC | 1.04e-05 | 3.47e-01 | -0.0166 |
| 79618 | HMBOX1 | RNA-P6T2-P6T2-2 | Human | Lung | IAC | 4.16e-05 | 3.08e-01 | -0.0132 |
| 79618 | HMBOX1 | RNA-P6T2-P6T2-3 | Human | Lung | IAC | 1.26e-04 | 3.24e-01 | -0.013 |
| 79618 | HMBOX1 | RNA-P6T2-P6T2-4 | Human | Lung | IAC | 3.18e-06 | 3.37e-01 | -0.0121 |
| 79618 | HMBOX1 | RNA-P7T1-P7T1-2 | Human | Lung | AIS | 1.62e-03 | 4.85e-01 | -0.0876 |
| 79618 | HMBOX1 | HTA12-23-1 | Human | Pancreas | PDAC | 1.55e-03 | 5.91e-01 | 0.3405 |
| 79618 | HMBOX1 | HTA12-26-1 | Human | Pancreas | PDAC | 4.37e-10 | 6.69e-01 | 0.3728 |
| 79618 | HMBOX1 | HTA12-29-1 | Human | Pancreas | PDAC | 1.39e-25 | 5.97e-01 | 0.3722 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma |
| ∗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:00510988 | Lung | IAC | regulation of binding | 66/2061 | 363/18723 | 2.78e-05 | 7.29e-04 | 66 |
| GO:00510998 | Lung | IAC | positive regulation of binding | 34/2061 | 173/18723 | 5.58e-04 | 7.76e-03 | 34 |
| GO:20012528 | Lung | IAC | positive regulation of chromosome organization | 18/2061 | 82/18723 | 3.09e-03 | 2.71e-02 | 18 |
| GO:00510547 | Lung | IAC | positive regulation of DNA metabolic process | 35/2061 | 201/18723 | 4.07e-03 | 3.32e-02 | 35 |
| GO:00510527 | Lung | IAC | regulation of DNA metabolic process | 55/2061 | 359/18723 | 7.12e-03 | 4.87e-02 | 55 |
| GO:005109813 | Lung | AIS | regulation of binding | 61/1849 | 363/18723 | 2.48e-05 | 8.06e-04 | 61 |
| GO:005109913 | Lung | AIS | positive regulation of binding | 30/1849 | 173/18723 | 1.61e-03 | 1.87e-02 | 30 |
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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 |
| HMBOX1 | BAS | Cervix | ADJ | AC244205.1,ARHGAP6,CHPT1, etc. | 6.10e-03 |  |
| HMBOX1 | URO | Prostate | Healthy | AMN,USP1,COL27A1, etc. | 1.37e-01 |  |
| HMBOX1 | MVA | Stomach | CAG | CDC14B,ZHX3,KLF7, etc. | 1.50e-01 |  |
| HMBOX1 | ICAF | Stomach | CAG | CDC14B,ZHX3,KLF7, etc. | 5.25e-02 | |
| HMBOX1 | PERI | Stomach | SIM | CDC14B,ZHX3,KLF7, etc. | 1.63e-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 |
| HMBOX1 | SNV | Missense_Mutation | c.64N>G | p.Phe22Val | p.F22V | Q6NT76 | protein_coding | deleterious(0) | possibly_damaging(0.88) | TCGA-D8-A1XK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicine+cyclophosphamide | SD | |
| HMBOX1 | insertion | Frame_Shift_Ins | novel | c.1290_1291insCCACAAAAGTTAGCCTGGTATGGTGGCCT | p.Gly431ProfsTer28 | p.G431Pfs*28 | Q6NT76 | protein_coding | TCGA-A8-A0A1-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| HMBOX1 | deletion | Frame_Shift_Del | c.118delN | p.Lys40AsnfsTer117 | p.K40Nfs*117 | Q6NT76 | protein_coding | TCGA-BH-A18I-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | CR | |||
| HMBOX1 | SNV | Missense_Mutation | rs764079365 | c.714N>A | p.Met238Ile | p.M238I | Q6NT76 | protein_coding | tolerated(0.09) | possibly_damaging(0.57) | TCGA-DR-A0ZM-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unspecific | Cisplatin | SD |
| HMBOX1 | SNV | Missense_Mutation | rs768350606 | c.284N>T | p.Ser95Leu | p.S95L | Q6NT76 | protein_coding | tolerated(0.39) | benign(0.038) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| HMBOX1 | SNV | Missense_Mutation | c.803G>A | p.Arg268Gln | p.R268Q | Q6NT76 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| HMBOX1 | SNV | Missense_Mutation | rs372399969 | c.907N>A | p.Ala303Thr | p.A303T | Q6NT76 | protein_coding | deleterious(0.02) | possibly_damaging(0.723) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| HMBOX1 | SNV | Missense_Mutation | c.946N>C | p.Ser316Pro | p.S316P | Q6NT76 | protein_coding | tolerated(0.35) | benign(0.275) | TCGA-CA-6718-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | PD | |
| HMBOX1 | SNV | Missense_Mutation | c.764N>T | p.Pro255Leu | p.P255L | Q6NT76 | protein_coding | tolerated(0.1) | benign(0.018) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| HMBOX1 | SNV | Missense_Mutation | c.812N>A | p.Arg271Gln | p.R271Q | Q6NT76 | protein_coding | deleterious(0) | probably_damaging(0.989) | TCGA-AP-A056-01 | 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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