TissGeneSummary for A4GNT |
Gene summary |
Basic gene information | Gene symbol | A4GNT |
Gene name | alpha-1,4-N-acetylglucosaminyltransferase | |
Synonyms | alpha4GnT | |
Cytomap | UCSC genome browser: 3p14.3 | |
Type of gene | protein-coding | |
RefGenes | NM_016161.2, | |
Description | - | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000118017 | ||
HPRD : 12390 | ||
Vega : OTTHUMG00000159820 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_A4GNT | |
BioGPS: 51146 | ||
Pathway | NCI Pathway Interaction Database: A4GNT | |
KEGG: A4GNT | ||
REACTOME: A4GNT | ||
Pathway Commons: A4GNT | ||
Context | iHOP: A4GNT | |
ligand binding site mutation search in PubMed: A4GNT | ||
UCL Cancer Institute: A4GNT | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Stomach | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | STAD | |
Reference showing the relevant tissue of A4GNT | ||
Description by TissGene annotations |
* 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:0009101 | glycoprotein biosynthetic process | 10430883 | GO:0009101 | glycoprotein biosynthetic process | 10430883 |
Top |
TissGeneExp for A4GNT |
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 |
KICH | -1.463978837 | 0.711825163 | -2.175804 | 4.92E-12 | 4.99E-11 |
LUSC | -0.982620406 | 0.285273712 | -1.267894118 | 6.27E-11 | 2.42E-10 |
LIHC | -1.194124837 | -0.077302837 | -1.116822 | 3.98E-05 | 0.00014957 |
Top |
TissGene-miRNA for A4GNT |
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 |
Top |
TissGeneMut for A4GNT |
TissGeneSNV for A4GNT |
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.L20F | SKCM | 1 |
p.T332S | BLCA | 1 |
p.V53E | OV | 1 |
p.D167G | STAD | 1 |
p.R318S | LUAD | 1 |
p.G303E | UCEC | 1 |
p.R154C | LIHC | 1 |
p.Y272C | UCEC | 1 |
p.D127E | LUAD | 1 |
p.V67F | LUSC | 1 |
p.D169N | UCEC | 1 |
p.W268G | KIRC | 1 |
p.A141V | COAD | 1 |
p.R313H | UCEC | 1 |
p.S98* | BLCA | 1 |
p.P95L | PRAD | 1 |
p.L25Q | HNSC | 1 |
p.R2W | HNSC | 1 |
p.G333R | LUSC | 1 |
p.D246N | SKCM | 1 |
p.R230M | UCEC | 1 |
p.G224V | LUAD | 1 |
p.E56D | READ | 1 |
p.M166I | SKCM | 1 |
p.H200Q | LUAD | 1 |
p.W235S | LUAD | 1 |
p.T306I | OV | 1 |
p.F31L | HNSC | 1 |
p.V71I | COAD | 1 |
p.S109* | BLCA | 1 |
p.S10* | ESCA | 1 |
p.V212F | LUSC | 1 |
p.S150L | HNSC | 1 |
p.P97S | ESCA | 1 |
p.I194L | UCEC | 1 |
p.R298Q | LUSC | 1 |
p.N192Y | BLCA | 1 |
p.E209K | SKCM | 1 |
p.T306A | UCEC | 1 |
p.S70Y | LUSC | 1 |
p.F254Y | UCEC | 1 |
p.S153F | CESC | 1 |
p.R270H | UCS | 1 |
p.D169E | OV | 1 |
p.R188Q | COAD | 1 |
p.R313H | COAD | 1 |
p.A44G | HNSC | 1 |
p.W81R | LUAD | 1 |
Top |
TissGeneCNV for A4GNT |
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) |
Top |
TissGeneFusions for A4GNT |
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 |
Top |
TissGeneNet for A4GNT |
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) |
Top |
TissGeneProg for A4GNT |
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. |
Top |
TissGeneClin for A4GNT |
TissGeneDrug for A4GNT |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
TissGeneDisease for A4GNT |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0017152 | Gastritis | 1 | BeFree |
umls:C0024623 | Malignant neoplasm of stomach | 1 | BeFree |
umls:C0030297 | Pancreatic Neoplasm | 1 | LHGDN |
umls:C0030920 | Peptic Ulcer | 1 | BeFree |
umls:C0038356 | Stomach Neoplasms | 1 | GAD |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0149521 | Pancreatitis, Chronic | 1 | BeFree |
umls:C0178874 | Tumor Progression | 1 | BeFree |
umls:C0235974 | Pancreatic carcinoma | 1 | BeFree |
umls:C0346647 | Malignant neoplasm of pancreas | 1 | BeFree |
umls:C0374997 | Helicobacter pylori (H. pylori) infection in conditions classified elsewhere and of unspecified site | 1 | BeFree |
umls:C0699791 | Stomach Carcinoma | 1 | BeFree |