|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: HOXB3 |
Gene summary for HOXB3 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HOXB3 | Gene ID | 3213 |
| Gene name | homeobox B3 | |
| Gene Alias | HOX2 | |
| Cytomap | 17q21.32 | |
| Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | P14651 |
Top |
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 |
| 3213 | HOXB3 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.04e-13 | -5.02e-01 | 0.0155 |
| 3213 | HOXB3 | HTA11_347_2000001011 | Human | Colorectum | AD | 4.11e-06 | -2.62e-01 | -0.1954 |
| 3213 | HOXB3 | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.71e-05 | -4.90e-01 | -0.1207 |
| 3213 | HOXB3 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.19e-13 | -4.72e-01 | -0.1464 |
| 3213 | HOXB3 | HTA11_866_2000001011 | Human | Colorectum | AD | 7.73e-16 | -4.52e-01 | -0.1001 |
| 3213 | HOXB3 | HTA11_1391_2000001011 | Human | Colorectum | AD | 4.38e-03 | -3.40e-01 | -0.059 |
| 3213 | HOXB3 | HTA11_866_3004761011 | Human | Colorectum | AD | 6.86e-05 | -3.98e-01 | 0.096 |
| 3213 | HOXB3 | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.47e-02 | -3.96e-01 | 0.0338 |
| 3213 | HOXB3 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.78e-10 | -3.82e-01 | 0.0674 |
| 3213 | HOXB3 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.74e-10 | -3.81e-01 | 0.3859 |
| 3213 | HOXB3 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 5.64e-04 | -5.08e-01 | 0.2585 |
| 3213 | HOXB3 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.98e-22 | -5.18e-01 | 0.3005 |
| 3213 | HOXB3 | A015-C-203 | Human | Colorectum | FAP | 4.03e-12 | -2.74e-01 | -0.1294 |
| 3213 | HOXB3 | A002-C-201 | Human | Colorectum | FAP | 5.64e-05 | -1.55e-01 | 0.0324 |
| 3213 | HOXB3 | A001-C-119 | Human | Colorectum | FAP | 4.60e-04 | -3.70e-01 | -0.1557 |
| 3213 | HOXB3 | A001-C-108 | Human | Colorectum | FAP | 5.92e-06 | -1.23e-01 | -0.0272 |
| 3213 | HOXB3 | A002-C-205 | Human | Colorectum | FAP | 1.42e-11 | -2.59e-01 | -0.1236 |
| 3213 | HOXB3 | A015-C-005 | Human | Colorectum | FAP | 1.41e-02 | -2.53e-01 | -0.0336 |
| 3213 | HOXB3 | A015-C-006 | Human | Colorectum | FAP | 3.70e-08 | -2.56e-01 | -0.0994 |
| 3213 | HOXB3 | A015-C-106 | Human | Colorectum | FAP | 2.49e-05 | -1.61e-01 | -0.0511 |
| Page: 1 2 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| 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. |
Top |
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:0048732 | Colorectum | AD | gland development | 149/3918 | 436/18723 | 6.07e-11 | 6.33e-09 | 149 |
| GO:0050767 | Colorectum | AD | regulation of neurogenesis | 99/3918 | 364/18723 | 2.35e-03 | 1.82e-02 | 99 |
| GO:0048568 | Colorectum | AD | embryonic organ development | 112/3918 | 427/18723 | 4.60e-03 | 3.14e-02 | 112 |
| GO:00487322 | Colorectum | MSS | gland development | 143/3467 | 436/18723 | 3.85e-13 | 8.01e-11 | 143 |
| GO:00507671 | Colorectum | MSS | regulation of neurogenesis | 94/3467 | 364/18723 | 3.12e-04 | 4.06e-03 | 94 |
| GO:00485681 | Colorectum | MSS | embryonic organ development | 100/3467 | 427/18723 | 6.00e-03 | 4.03e-02 | 100 |
| GO:0051960 | Colorectum | MSS | regulation of nervous system development | 103/3467 | 443/18723 | 6.68e-03 | 4.38e-02 | 103 |
| GO:0002244 | Colorectum | MSS | hematopoietic progenitor cell differentiation | 32/3467 | 114/18723 | 8.07e-03 | 4.91e-02 | 32 |
| GO:00487324 | Colorectum | FAP | gland development | 103/2622 | 436/18723 | 3.61e-08 | 3.12e-06 | 103 |
| GO:00507672 | Colorectum | FAP | regulation of neurogenesis | 82/2622 | 364/18723 | 6.28e-06 | 1.96e-04 | 82 |
| GO:00519601 | Colorectum | FAP | regulation of nervous system development | 89/2622 | 443/18723 | 2.32e-04 | 3.25e-03 | 89 |
| GO:00022441 | Colorectum | FAP | hematopoietic progenitor cell differentiation | 29/2622 | 114/18723 | 8.35e-04 | 8.71e-03 | 29 |
| GO:0060216 | Colorectum | FAP | definitive hemopoiesis | 8/2622 | 19/18723 | 2.61e-03 | 2.03e-02 | 8 |
| GO:00485682 | Colorectum | FAP | embryonic organ development | 79/2622 | 427/18723 | 5.32e-03 | 3.49e-02 | 79 |
| GO:0009952 | Colorectum | FAP | anterior/posterior pattern specification | 41/2622 | 201/18723 | 7.82e-03 | 4.63e-02 | 41 |
| GO:00487325 | Colorectum | CRC | gland development | 88/2078 | 436/18723 | 1.62e-08 | 2.79e-06 | 88 |
| GO:00507673 | Colorectum | CRC | regulation of neurogenesis | 68/2078 | 364/18723 | 1.11e-05 | 3.62e-04 | 68 |
| GO:00519602 | Colorectum | CRC | regulation of nervous system development | 71/2078 | 443/18723 | 9.28e-04 | 1.14e-02 | 71 |
| GO:00099521 | Colorectum | CRC | anterior/posterior pattern specification | 36/2078 | 201/18723 | 2.56e-03 | 2.40e-02 | 36 |
| GO:00022442 | Colorectum | CRC | hematopoietic progenitor cell differentiation | 23/2078 | 114/18723 | 3.20e-03 | 2.79e-02 | 23 |
| Page: 1 2 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
Top |
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 |
| HOXB3 | SPI | Oral cavity | NEOLP | RGMA,HOXB2,FMO3, etc. | 1.65e-01 |  |
| HOXB3 | PVA | Thyroid | PTC | ZNF623,RALGAPA2,MAGI3, etc. | 1.02e-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 |
Top |
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 |
| HOXB3 | SNV | Missense_Mutation | novel | c.1127N>C | p.Leu376Pro | p.L376P | P14651 | protein_coding | deleterious(0.02) | probably_damaging(1) | TCGA-A7-A3IY-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | anastrozole | SD |
| HOXB3 | SNV | Missense_Mutation | c.416C>T | p.Thr139Met | p.T139M | P14651 | protein_coding | deleterious(0) | possibly_damaging(0.53) | TCGA-AN-A0XU-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| HOXB3 | SNV | Missense_Mutation | c.181N>A | p.Ala61Thr | p.A61T | P14651 | protein_coding | tolerated(0.41) | benign(0) | TCGA-E9-A22E-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphane | SD | |
| HOXB3 | SNV | Missense_Mutation | novel | c.598C>A | p.Leu200Met | p.L200M | P14651 | protein_coding | deleterious(0) | probably_damaging(0.972) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| HOXB3 | SNV | Missense_Mutation | c.649C>T | p.Arg217Cys | p.R217C | P14651 | protein_coding | deleterious(0) | possibly_damaging(0.832) | TCGA-VS-A9U6-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD | |
| HOXB3 | SNV | Missense_Mutation | c.257C>T | p.Pro86Leu | p.P86L | P14651 | protein_coding | tolerated(0.1) | benign(0.001) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| HOXB3 | SNV | Missense_Mutation | c.750G>T | p.Lys250Asn | p.K250N | P14651 | protein_coding | deleterious(0) | benign(0.134) | TCGA-D5-6928-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| HOXB3 | SNV | Missense_Mutation | c.832G>A | p.Ala278Thr | p.A278T | P14651 | protein_coding | tolerated(0.09) | benign(0.122) | TCGA-F4-6570-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| HOXB3 | SNV | Missense_Mutation | c.178N>A | p.Ala60Thr | p.A60T | P14651 | protein_coding | tolerated(0.72) | benign(0) | TCGA-G4-6304-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | PD | |
| HOXB3 | SNV | Missense_Mutation | c.243N>T | p.Glu81Asp | p.E81D | P14651 | protein_coding | tolerated(0.16) | benign(0.02) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |