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Gene: B3GNT4 |
Gene summary for B3GNT4 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | B3GNT4 | Gene ID | 79369 |
| Gene name | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 4 | |
| Gene Alias | B3GN-T4 | |
| Cytomap | 12q24.31 | |
| Gene Type | protein-coding | GO ID | GO:0000271 | UniProtAcc | Q9C0J1 |
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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 |
| 79369 | B3GNT4 | P4T-E | Human | Esophagus | ESCC | 6.27e-06 | 1.57e-01 | 0.1323 |
| 79369 | B3GNT4 | P5T-E | Human | Esophagus | ESCC | 2.05e-07 | 1.63e-01 | 0.1327 |
| 79369 | B3GNT4 | P12T-E | Human | Esophagus | ESCC | 1.62e-13 | 2.69e-01 | 0.1122 |
| 79369 | B3GNT4 | P15T-E | Human | Esophagus | ESCC | 2.13e-05 | 1.40e-01 | 0.1149 |
| 79369 | B3GNT4 | P16T-E | Human | Esophagus | ESCC | 4.17e-05 | 1.03e-01 | 0.1153 |
| 79369 | B3GNT4 | P20T-E | Human | Esophagus | ESCC | 3.11e-04 | 1.21e-01 | 0.1124 |
| 79369 | B3GNT4 | P21T-E | Human | Esophagus | ESCC | 8.13e-14 | 1.53e-01 | 0.1617 |
| 79369 | B3GNT4 | P24T-E | Human | Esophagus | ESCC | 8.40e-04 | 1.20e-01 | 0.1287 |
| 79369 | B3GNT4 | P26T-E | Human | Esophagus | ESCC | 1.76e-12 | 2.74e-01 | 0.1276 |
| 79369 | B3GNT4 | P27T-E | Human | Esophagus | ESCC | 6.73e-06 | 9.44e-02 | 0.1055 |
| 79369 | B3GNT4 | P28T-E | Human | Esophagus | ESCC | 4.13e-05 | 9.02e-02 | 0.1149 |
| 79369 | B3GNT4 | P31T-E | Human | Esophagus | ESCC | 1.96e-05 | 1.23e-01 | 0.1251 |
| 79369 | B3GNT4 | P36T-E | Human | Esophagus | ESCC | 5.72e-04 | 2.40e-01 | 0.1187 |
| 79369 | B3GNT4 | P37T-E | Human | Esophagus | ESCC | 1.36e-15 | 3.28e-01 | 0.1371 |
| 79369 | B3GNT4 | P38T-E | Human | Esophagus | ESCC | 2.41e-07 | 2.99e-01 | 0.127 |
| 79369 | B3GNT4 | P49T-E | Human | Esophagus | ESCC | 5.57e-05 | 3.99e-01 | 0.1768 |
| 79369 | B3GNT4 | P52T-E | Human | Esophagus | ESCC | 3.75e-03 | 7.77e-02 | 0.1555 |
| 79369 | B3GNT4 | P54T-E | Human | Esophagus | ESCC | 2.75e-03 | 1.31e-01 | 0.0975 |
| 79369 | B3GNT4 | P61T-E | Human | Esophagus | ESCC | 2.42e-03 | 9.79e-02 | 0.099 |
| 79369 | B3GNT4 | P74T-E | Human | Esophagus | ESCC | 1.42e-04 | 1.74e-01 | 0.1479 |
| Page: 1 2 |
| 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:00091002 | Esophagus | ESCC | glycoprotein metabolic process | 226/8552 | 387/18723 | 2.64e-07 | 3.94e-06 | 226 |
| GO:00067906 | Esophagus | ESCC | sulfur compound metabolic process | 201/8552 | 339/18723 | 2.64e-07 | 3.94e-06 | 201 |
| GO:00442725 | Esophagus | ESCC | sulfur compound biosynthetic process | 96/8552 | 148/18723 | 1.86e-06 | 2.16e-05 | 96 |
| GO:00700854 | Esophagus | ESCC | glycosylation | 144/8552 | 240/18723 | 5.12e-06 | 5.38e-05 | 144 |
| GO:00064865 | Esophagus | ESCC | protein glycosylation | 135/8552 | 226/18723 | 1.36e-05 | 1.24e-04 | 135 |
| GO:00434135 | Esophagus | ESCC | macromolecule glycosylation | 135/8552 | 226/18723 | 1.36e-05 | 1.24e-04 | 135 |
| GO:00091012 | Esophagus | ESCC | glycoprotein biosynthetic process | 181/8552 | 317/18723 | 2.54e-05 | 2.15e-04 | 181 |
| GO:00442626 | Esophagus | ESCC | cellular carbohydrate metabolic process | 160/8552 | 283/18723 | 1.43e-04 | 9.66e-04 | 160 |
| GO:00160514 | Esophagus | ESCC | carbohydrate biosynthetic process | 117/8552 | 202/18723 | 2.96e-04 | 1.79e-03 | 117 |
| GO:00064931 | Esophagus | ESCC | protein O-linked glycosylation | 51/8552 | 86/18723 | 7.54e-03 | 2.70e-02 | 51 |
| GO:0006024 | Esophagus | ESCC | glycosaminoglycan biosynthetic process | 45/8552 | 75/18723 | 8.75e-03 | 3.08e-02 | 45 |
| GO:0006023 | Esophagus | ESCC | aminoglycan biosynthetic process | 47/8552 | 79/18723 | 9.29e-03 | 3.23e-02 | 47 |
| GO:00346372 | Esophagus | ESCC | cellular carbohydrate biosynthetic process | 46/8552 | 78/18723 | 1.24e-02 | 4.13e-02 | 46 |
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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 |
| ∗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 |
| B3GNT4 | SNV | Missense_Mutation | c.288N>G | p.Phe96Leu | p.F96L | Q9C0J1 | protein_coding | deleterious(0.04) | possibly_damaging(0.541) | TCGA-A2-A0D0-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |
| B3GNT4 | SNV | Missense_Mutation | rs147517845 | c.869N>A | p.Arg290His | p.R290H | Q9C0J1 | protein_coding | tolerated(0.22) | benign(0.019) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| B3GNT4 | SNV | Missense_Mutation | novel | c.7C>T | p.Pro3Ser | p.P3S | Q9C0J1 | protein_coding | deleterious_low_confidence(0) | benign(0.044) | TCGA-BH-A0H5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | CR |
| B3GNT4 | SNV | Missense_Mutation | c.1045N>T | p.His349Tyr | p.H349Y | Q9C0J1 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-C8-A12T-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| B3GNT4 | SNV | Missense_Mutation | novel | c.539N>G | p.Asp180Gly | p.D180G | Q9C0J1 | protein_coding | deleterious(0) | possibly_damaging(0.862) | TCGA-D8-A1Y1-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | tamoxiphen | PD |
| B3GNT4 | deletion | Frame_Shift_Del | c.243_244delNN | p.Ser83Ter | p.S83* | Q9C0J1 | protein_coding | TCGA-E2-A15D-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | |||
| B3GNT4 | SNV | Missense_Mutation | rs147517845 | c.869N>A | p.Arg290His | p.R290H | Q9C0J1 | protein_coding | tolerated(0.22) | benign(0.019) | TCGA-A6-2672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| B3GNT4 | SNV | Missense_Mutation | rs150666707 | c.221G>A | p.Ser74Asn | p.S74N | Q9C0J1 | protein_coding | tolerated(0.09) | benign(0.003) | TCGA-AA-3947-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| B3GNT4 | SNV | Missense_Mutation | rs749136382 | c.253G>A | p.Ala85Thr | p.A85T | Q9C0J1 | protein_coding | tolerated(0.79) | benign(0.005) | TCGA-AD-6889-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | xeloda | PD |
| B3GNT4 | SNV | Missense_Mutation | rs570110830 | c.868N>T | p.Arg290Cys | p.R290C | Q9C0J1 | protein_coding | deleterious(0.01) | benign(0.052) | TCGA-AZ-6601-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| Page: 1 2 3 4 5 |
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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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