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Gene: B4GALNT2 |
Gene summary for B4GALNT2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | B4GALNT2 | Gene ID | 124872 |
| Gene name | beta-1,4-N-acetyl-galactosaminyltransferase 2 | |
| Gene Alias | B4GALT | |
| Cytomap | 17q21.32 | |
| Gene Type | protein-coding | GO ID | GO:0005975 | UniProtAcc | Q8NHY0 |
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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 |
| 124872 | B4GALNT2 | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.19e-07 | 5.40e-01 | -0.1808 |
| 124872 | B4GALNT2 | HTA11_78_2000001011 | Human | Colorectum | AD | 1.24e-11 | 8.26e-01 | -0.1088 |
| 124872 | B4GALNT2 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.20e-14 | 5.16e-01 | -0.1954 |
| 124872 | B4GALNT2 | HTA11_3361_2000001011 | Human | Colorectum | AD | 7.12e-12 | 5.68e-01 | -0.1207 |
| 124872 | B4GALNT2 | HTA11_83_2000001011 | Human | Colorectum | SER | 4.02e-15 | 9.21e-01 | -0.1526 |
| 124872 | B4GALNT2 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.63e-07 | 5.20e-01 | -0.1464 |
| 124872 | B4GALNT2 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.56e-10 | 6.57e-01 | -0.1001 |
| 124872 | B4GALNT2 | HTA11_546_2000001011 | Human | Colorectum | AD | 6.26e-10 | 9.12e-01 | -0.0842 |
| 124872 | B4GALNT2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.40e-09 | -2.42e-01 | 0.294 |
| 124872 | B4GALNT2 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 8.87e-03 | -2.23e-01 | 0.3859 |
| 124872 | B4GALNT2 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.22e-04 | -2.31e-01 | 0.3005 |
| 124872 | B4GALNT2 | A001-C-207 | Human | Colorectum | FAP | 1.14e-02 | -2.48e-01 | 0.1278 |
| 124872 | B4GALNT2 | A015-C-203 | Human | Colorectum | FAP | 2.71e-02 | -9.33e-02 | -0.1294 |
| 124872 | B4GALNT2 | A002-C-203 | Human | Colorectum | FAP | 2.81e-06 | -2.38e-01 | 0.2786 |
| 124872 | B4GALNT2 | A001-C-108 | Human | Colorectum | FAP | 6.26e-07 | -2.24e-01 | -0.0272 |
| 124872 | B4GALNT2 | A002-C-021 | Human | Colorectum | FAP | 7.14e-03 | -2.24e-01 | 0.1171 |
| 124872 | B4GALNT2 | A001-C-104 | Human | Colorectum | FAP | 7.35e-03 | -2.10e-01 | 0.0184 |
| 124872 | B4GALNT2 | A015-C-106 | Human | Colorectum | FAP | 7.07e-03 | -1.88e-01 | -0.0511 |
| 124872 | B4GALNT2 | A015-C-104 | Human | Colorectum | FAP | 9.97e-03 | -1.35e-01 | -0.1899 |
| 124872 | B4GALNT2 | A015-C-202 | Human | Colorectum | FAP | 3.72e-05 | 3.05e-01 | -0.0849 |
| 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 |
| ∗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:0018279 | Colorectum | AD | protein N-linked glycosylation via asparagine | 15/3918 | 23/18723 | 5.47e-06 | 1.40e-04 | 15 |
| GO:0018196 | Colorectum | AD | peptidyl-asparagine modification | 15/3918 | 24/18723 | 1.18e-05 | 2.62e-04 | 15 |
| GO:0030258 | Colorectum | AD | lipid modification | 67/3918 | 212/18723 | 1.66e-04 | 2.27e-03 | 67 |
| GO:0006487 | Colorectum | AD | protein N-linked glycosylation | 25/3918 | 65/18723 | 9.12e-04 | 8.71e-03 | 25 |
| GO:0009225 | Colorectum | AD | nucleotide-sugar metabolic process | 16/3918 | 36/18723 | 1.27e-03 | 1.12e-02 | 16 |
| GO:0006486 | Colorectum | AD | protein glycosylation | 64/3918 | 226/18723 | 4.86e-03 | 3.27e-02 | 64 |
| GO:0043413 | Colorectum | AD | macromolecule glycosylation | 64/3918 | 226/18723 | 4.86e-03 | 3.27e-02 | 64 |
| GO:0070085 | Colorectum | AD | glycosylation | 67/3918 | 240/18723 | 5.78e-03 | 3.67e-02 | 67 |
| GO:0007162 | Colorectum | SER | negative regulation of cell adhesion | 68/2897 | 303/18723 | 8.02e-04 | 1.01e-02 | 68 |
| GO:00182791 | Colorectum | SER | protein N-linked glycosylation via asparagine | 9/2897 | 23/18723 | 5.20e-03 | 3.95e-02 | 9 |
| GO:00302581 | Colorectum | SER | lipid modification | 47/2897 | 212/18723 | 6.01e-03 | 4.38e-02 | 47 |
| GO:0022408 | Colorectum | SER | negative regulation of cell-cell adhesion | 44/2897 | 196/18723 | 6.08e-03 | 4.42e-02 | 44 |
| GO:00092251 | Colorectum | SER | nucleotide-sugar metabolic process | 12/2897 | 36/18723 | 6.11e-03 | 4.42e-02 | 12 |
| GO:00181961 | Colorectum | SER | peptidyl-asparagine modification | 9/2897 | 24/18723 | 7.19e-03 | 4.99e-02 | 9 |
| GO:00182792 | Colorectum | MSS | protein N-linked glycosylation via asparagine | 13/3467 | 23/18723 | 5.21e-05 | 9.31e-04 | 13 |
| GO:00181962 | Colorectum | MSS | peptidyl-asparagine modification | 13/3467 | 24/18723 | 9.44e-05 | 1.49e-03 | 13 |
| GO:00064871 | Colorectum | MSS | protein N-linked glycosylation | 23/3467 | 65/18723 | 9.47e-04 | 9.54e-03 | 23 |
| GO:00302582 | Colorectum | MSS | lipid modification | 57/3467 | 212/18723 | 1.64e-03 | 1.49e-02 | 57 |
| GO:00092252 | Colorectum | MSS | nucleotide-sugar metabolic process | 14/3467 | 36/18723 | 3.40e-03 | 2.56e-02 | 14 |
| GO:00302583 | Colorectum | FAP | lipid modification | 52/2622 | 212/18723 | 2.84e-05 | 6.49e-04 | 52 |
| Page: 1 2 |
| 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 |
| B4GALNT2 | SNV | Missense_Mutation | novel | c.1655N>G | p.Lys552Arg | p.K552R | Q8NHY0 | protein_coding | tolerated(0.08) | possibly_damaging(0.82) | TCGA-A2-A4S0-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| B4GALNT2 | SNV | Missense_Mutation | rs144833149 | c.488N>T | p.Ala163Val | p.A163V | Q8NHY0 | protein_coding | deleterious(0.03) | possibly_damaging(0.806) | TCGA-C8-A3M8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | CR |
| B4GALNT2 | SNV | Missense_Mutation | novel | c.452N>G | p.Asn151Ser | p.N151S | Q8NHY0 | protein_coding | tolerated(0.09) | benign(0.053) | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD |
| B4GALNT2 | insertion | In_Frame_Ins | novel | c.1342_1343insTAAGTGGTGTTGTGATCACAGTTAACTCTACTGCAAGTGGACAAT | p.Ala448delinsValSerGlyValValIleThrValAsnSerThrAlaSerGlyGlnSer | p.A448delinsVSGVVITVNSTASGQS | Q8NHY0 | protein_coding | TCGA-AN-A04A-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | ||
| B4GALNT2 | insertion | In_Frame_Ins | novel | c.1383_1384insCCTTCA | p.Asp461_Gly462insProSer | p.D461_G462insPS | Q8NHY0 | protein_coding | TCGA-B6-A0RE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| B4GALNT2 | insertion | Frame_Shift_Ins | novel | c.1384_1385insCCAAAACTTTGTCACACAGTGAAACGTT | p.Gly462AlafsTer37 | p.G462Afs*37 | Q8NHY0 | protein_coding | TCGA-B6-A0RE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| B4GALNT2 | SNV | Missense_Mutation | novel | c.227N>C | p.Val76Ala | p.V76A | Q8NHY0 | protein_coding | tolerated(0.06) | benign(0.001) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| B4GALNT2 | SNV | Missense_Mutation | rs779668398 | c.785N>A | p.Arg262Gln | p.R262Q | Q8NHY0 | protein_coding | tolerated(0.08) | benign(0.005) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| B4GALNT2 | SNV | Missense_Mutation | c.1273G>A | p.Val425Met | p.V425M | Q8NHY0 | protein_coding | tolerated(0.13) | benign(0.286) | TCGA-DS-A1OC-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | gemcitabine | SD | |
| B4GALNT2 | SNV | Missense_Mutation | c.914C>A | p.Pro305His | p.P305H | Q8NHY0 | protein_coding | deleterious(0.02) | probably_damaging(0.946) | TCGA-5M-AAT6-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
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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 |
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