TissGeneSummary for B4GALNT3 |
Gene summary |
Basic gene information | Gene symbol | B4GALNT3 |
Gene name | beta-1,4-N-acetyl-galactosaminyl transferase 3 | |
Synonyms | - | |
Cytomap | UCSC genome browser: 12p13.33 | |
Type of gene | protein-coding | |
RefGenes | NM_173593.3, | |
Description | B4GalNAcT3Beta4GalNAc-T3N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N- acetylgalactosaminyltransferaseN-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase 2NGalNAc-T2beta-1,4-N-acetylgalactosaminyltransferase 3beta-1,4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 612220 | |
HGNC : HGNC | ||
HPRD : 12514 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_B4GALNT3 | |
BioGPS: 283358 | ||
Pathway | NCI Pathway Interaction Database: B4GALNT3 | |
KEGG: B4GALNT3 | ||
REACTOME: B4GALNT3 | ||
Pathway Commons: B4GALNT3 | ||
Context | iHOP: B4GALNT3 | |
ligand binding site mutation search in PubMed: B4GALNT3 | ||
UCL Cancer Institute: B4GALNT3 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | ColonStomach | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | COADSTAD | |
Reference showing the relevant tissue of B4GALNT3 | ||
Description by TissGene annotations | Have significant anti-correlated miRNA Fused withTSGene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID | GO:0008152 | metabolic process | 12966086 | GO:0008152 | metabolic process | 12966086 |
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TissGeneExp for B4GALNT3 |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
THCA | 0.505339658 | -0.761695936 | 1.267035593 | 1.21E-06 | 4.54E-06 |
KIRC | -2.722204528 | 1.172621861 | -3.894826389 | 1.29E-36 | 4.02E-35 |
BRCA | 0.233806949 | -1.079716735 | 1.313523684 | 7.41E-09 | 2.47E-08 |
KIRP | -2.485084389 | 1.566890611 | -4.051975 | 1.22E-10 | 1.35E-09 |
KICH | 2.883003861 | 1.364827861 | 1.518176 | 0.000523 | 0.001189569 |
COAD | 1.910856476 | 3.011929553 | -1.101073077 | 0.000246 | 0.000816645 |
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TissGene-miRNA for B4GALNT3 |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
LUAD | hsa-miR-301a-3p | MIMAT0000688 | 0.035 | -0.28 | 60 |
UCS | hsa-miR-502-3p | MIMAT0004775 | 0.014 | -0.33 | 56 |
UCS | hsa-miR-125a-5p | MIMAT0000443 | 0.011 | -0.34 | 56 |
UCS | hsa-miR-501-3p | MIMAT0004774 | 0.012 | -0.34 | 56 |
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TissGeneMut for B4GALNT3 |
TissGeneSNV for B4GALNT3 |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.W953X | LIHC | 2 |
p.K517I | LUSC | 1 |
p.H911L | LIHC | 1 |
p.E246* | SARC | 1 |
p.C775Y | LGG | 1 |
p.E592K | SKCM | 1 |
p.V897L | THYM | 1 |
p.E604G | LIHC | 1 |
p.V594L | LUAD | 1 |
p.K411R | COAD | 1 |
p.V868M | THCA | 1 |
p.T462I | LAML | 1 |
p.R169H | STAD | 1 |
p.R471H | STAD | 1 |
p.A902S | LUSC | 1 |
p.H872D | READ | 1 |
p.G584E | HNSC | 1 |
p.Q862* | BLCA | 1 |
p.D807Y | LIHC | 1 |
p.D629H | BLCA | 1 |
p.M452I | MESO | 1 |
p.S936F | HNSC | 1 |
p.R577M | UCEC | 1 |
p.G424S | SKCM | 1 |
p.R264X | PAAD | 1 |
p.R577K | BLCA | 1 |
p.P78L | UCS | 1 |
p.P533L | SKCM | 1 |
p.D756G | STAD | 1 |
p.I874N | HNSC | 1 |
p.R265Q | COAD | 1 |
p.P871Q | PRAD | 1 |
p.S519G | LIHC | 1 |
p.R693H | BRCA | 1 |
p.R473Q | UCEC | 1 |
p.V508L | SKCM | 1 |
p.A552T | STAD | 1 |
p.F490V | COAD | 1 |
p.S498F | SKCM | 1 |
p.S197N | SKCM | 1 |
p.L138P | LIHC | 1 |
p.P443S | ESCA | 1 |
p.V868M | COAD | 1 |
p.R993S | SKCM | 1 |
p.E421K | BLCA | 1 |
p.R574W | PRAD | 1 |
p.A398T | ESCA | 1 |
p.A262T | SKCM | 1 |
p.V764I | SKCM | 1 |
p.F425V | UCEC | 1 |
p.E426Q | BLCA | 1 |
p.Q407* | HNSC | 1 |
p.Q251H | LGG | 1 |
p.G707D | SARC | 1 |
p.N109S | BLCA | 1 |
p.R963K | LIHC | 1 |
p.R700H | UCEC | 1 |
p.W953* | LIHC | 1 |
p.A595V | UCEC | 1 |
p.Q543E | CESC | 1 |
p.R332* | SKCM | 1 |
p.R139K | SKCM | 1 |
p.R151H | COAD | 1 |
p.E42K | LUAD | 1 |
p.R264* | PAAD | 1 |
p.D402V | BRCA | 1 |
p.R724W | LUAD | 1 |
p.T915S | UCS | 1 |
p.P793H | UCEC | 1 |
p.H149N | STAD | 1 |
p.P111R | HNSC | 1 |
p.R264* | GBM | 1 |
p.R760C | UCEC | 1 |
p.T273S | STAD | 1 |
p.S660C | LUAD | 1 |
p.G719V | PRAD | 1 |
p.A597T | PAAD | 1 |
p.R151C | COAD | 1 |
p.A595V | PRAD | 1 |
p.V625A | LUAD | 1 |
p.R332X | SKCM | 1 |
p.Q572H | LUSC | 1 |
p.P482H | KIRP | 1 |
p.A570T | PRAD | 1 |
p.N449I | LUAD | 1 |
p.Q572R | ESCA | 1 |
p.R363C | KIRP | 1 |
p.C775* | BLCA | 1 |
p.R992H | COAD | 1 |
p.R857C | LGG | 1 |
p.V259M | CESC | 1 |
p.F622L | SKCM | 1 |
p.E920D | PRAD | 1 |
p.S639N | HNSC | 1 |
p.L282F | UCEC | 1 |
p.S841F | SKCM | 1 |
p.N759D | CHOL | 1 |
p.R641L | LIHC | 1 |
p.P360S | BLCA | 1 |
p.S639G | UCEC | 1 |
p.R323Q | LUSC | 1 |
p.H982Y | SKCM | 1 |
p.G598C | STAD | 1 |
p.Q543R | BLCA | 1 |
p.R893W | UCEC | 1 |
p.E607V | OV | 1 |
p.G943S | SKCM | 1 |
p.G942A | LIHC | 1 |
p.Q572L | BLCA | 1 |
p.P500S | SKCM | 1 |
p.F144V | SKCM | 1 |
p.P161S | SKCM | 1 |
p.S384I | STAD | 1 |
p.K935M | KIRP | 1 |
p.S858X | KIRC | 1 |
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TissGeneCNV for B4GALNT3 |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for B4GALNT3 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | BF759460 | B4GALNT3-NFATC1 | chr12:648101 | chr18:77215311 | |
Chimerdb3.0 | ChiTaRs | NA | BE070329 | B4GALNT3-TMTC1 | chr12:584933 | chr12:29805128 | |
Chimerdb3.0 | ChiTaRs | NA | BE070244 | B4GALNT3-TMTC1 | chr12:584954 | chr12:29805128 | |
Chimerdb3.0 | FusionScan | BRCA | TCGA-A7-A13E-01A | B4GALNT3-NFATC1 | Out-of-Frame | chr12:645461 | chr18:77193578 |
Chimerdb3.0 | FusionScan | BRCA | TCGA-AO-A0J2-01A | B4GALNT3-CCDC77 | Out-of-Frame | chr12:569711 | chr12:527659 |
TCGAfusionPortal | PRADA | BRCA | TCGA-AN-A0AM-01A | B4GALNT3-SLCO4A1 | In-frame | Chr12:666032 | Chr20:61290029 |
TCGAfusionPortal | PRADA | BRCA | TCGA-AO-A0J2-01A | B4GALNT3-CCDC77 | Out-of-frame | Chr12:569711 | Chr12:520913 |
TCGAfusionPortal | PRADA | LUAD | TCGA-91-7771-01A | WNK1-B4GALNT3 | Out-of-frame | Chr12:863490 | Chr12:644332 |
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TissGeneNet for B4GALNT3 |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for B4GALNT3 |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for B4GALNT3 |
TissGeneDrug for B4GALNT3 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for B4GALNT3 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0007102 | Malignant tumor of colon | 1 | BeFree |
umls:C0009402 | Colorectal Carcinoma | 1 | BeFree |
umls:C0018799 | Heart Diseases | 1 | GAD |
umls:C0029408 | Degenerative polyarthritis | 1 | BeFree |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0085298 | Sudden Cardiac Death | 1 | GAD |
umls:C0699790 | Colon Carcinoma | 1 | BeFree |
umls:C1527249 | Colorectal Cancer | 1 | BeFree |