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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for DPAGT1 |
Basic gene info. | Gene symbol | DPAGT1 |
Gene name | dolichyl-phosphate (UDP-N-acetylglucosamine) N-acetylglucosaminephosphotransferase 1 (GlcNAc-1-P transferase) | |
Synonyms | ALG7|CDG-Ij|CDG1J|CMSTA2|D11S366|DGPT|DPAGT|DPAGT2|G1PT|GPT|UAGT|UGAT | |
Cytomap | UCSC genome browser: 11q23.3 | |
Genomic location | chr11 :118967212-118972785 | |
Type of gene | protein-coding | |
RefGenes | NM_001382.3, NM_203316.1, | |
Ensembl id | ENSG00000172269 | |
Description | GlcNAc-1-P transferaseN-acetylglucosamine-1-phosphate transferaseUDP-GlcNAc:dolichyl-phosphate N-acetylglucosaminephosphotransferaseUDP-N-acetylglucosamine--dolichyl-phosphate N-acetylglucosaminephosphotransferasedolichyl-phosphate (UDP-N-acetylglucos | |
Modification date | 20141219 | |
dbXrefs | MIM : 191350 | |
HGNC : HGNC | ||
Ensembl : ENSG00000172269 | ||
HPRD : 01879 | ||
Vega : OTTHUMG00000153533 | ||
Protein | UniProt: Q9H3H5 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_DPAGT1 | |
BioGPS: 1798 | ||
Gene Expression Atlas: ENSG00000172269 | ||
The Human Protein Atlas: ENSG00000172269 | ||
Pathway | NCI Pathway Interaction Database: DPAGT1 | |
KEGG: DPAGT1 | ||
REACTOME: DPAGT1 | ||
ConsensusPathDB | ||
Pathway Commons: DPAGT1 | ||
Metabolism | MetaCyc: DPAGT1 | |
HUMANCyc: DPAGT1 | ||
Regulation | Ensembl's Regulation: ENSG00000172269 | |
miRBase: chr11 :118,967,212-118,972,785 | ||
TargetScan: NM_001382 | ||
cisRED: ENSG00000172269 | ||
Context | iHOP: DPAGT1 | |
cancer metabolism search in PubMed: DPAGT1 | ||
UCL Cancer Institute: DPAGT1 | ||
Assigned class in ccmGDB | A - This gene has a literature evidence and it belongs to cancer gene. | |
References showing role of DPAGT1 in cancer cell metabolism | 1. Hou H, Sun H, Lu P, Ge C, Zhang L, et al. (2013) Tunicamycin potentiates cisplatin anticancer efficacy through the DPAGT1/Akt/ABCG2 pathway in mouse Xenograft models of human hepatocellular carcinoma. Mol Cancer Ther 12: 2874-2884. doi: 10.1158/1535-7163.MCT-13-0201. go to article 2. Sengupta PK, Bouchie MP, Kukuruzinska MA (2010) N-glycosylation gene DPAGT1 is a target of the Wnt/beta-catenin signaling pathway. J Biol Chem 285: 31164-31173. doi: 10.1074/jbc.M110.149195. pmid: 2951190. go to article 3. Jamal B, Sengupta PK, Gao ZN, Nita-Lazar M, Amin B, et al. (2012) Aberrant amplification of the crosstalk between canonical Wnt signaling and N-glycosylation gene DPAGT1 promotes oral cancer. Oral Oncol 48: 523-529. doi: 10.1016/j.oraloncology.2012.01.010. pmid: 3362683. go to article |
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Phenotypic Information for DPAGT1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: DPAGT1 |
Familial Cancer Database: DPAGT1 |
* This gene is included in those cancer gene databases. |
. | ||||||||||||||||||||
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
Metabolic Pathway Description | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | 191350; gene. 608093; phenotype. 614750; phenotype. |
Orphanet | 353327; Congenital myasthenic syndromes with glycosylation defect. 86309; DPAGT1-CDG. |
Disease | KEGG Disease: DPAGT1 |
MedGen: DPAGT1 (Human Medical Genetics with Condition) | |
ClinVar: DPAGT1 | |
Phenotype | MGI: DPAGT1 (International Mouse Phenotyping Consortium) |
PhenomicDB: DPAGT1 |
Mutations for DPAGT1 |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows DPAGT1 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=34) | (# total SNVs=6) |
(# total SNVs=8) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr11:118969143-118969143 | p.F233fs*28 | 8 |
chr11:118971369-118971369 | p.R156H | 3 |
chr11:118971782-118971782 | p.F76L | 2 |
chr11:118969160-118969160 | p.F227F | 2 |
chr11:118968574-118968574 | p.R303H | 2 |
chr11:118971414-118971414 | p.F141S | 2 |
chr11:118971534-118971534 | p.A101V | 2 |
chr11:118969112-118969112 | p.? | 2 |
chr11:118972339-118972339 | p.M9I | 2 |
chr11:118967894-118967894 | p.I374fs*>35 | 1 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   | 1 |   | 7 |   |   |   |   | 2 | 1 |   | 5 | 1 | 1 |   |   | 4 | 3 |   | 4 |
# mutation |   | 1 |   | 5 |   |   |   |   | 2 | 1 |   | 5 | 1 | 1 |   |   | 4 | 3 |   | 4 |
nonsynonymous SNV |   | 1 |   | 4 |   |   |   |   | 2 | 1 |   | 2 |   | 1 |   |   | 1 | 1 |   | 3 |
synonymous SNV |   |   |   | 1 |   |   |   |   |   |   |   | 3 | 1 |   |   |   | 3 | 2 |   | 1 |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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Top 10 SNVs Having the Most Samples in TCGA data |
* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr11:118968599 | p.H295Y | 2 |
chr11:118969160 | p.F227F | 2 |
chr11:118971369 | p.R156H | 2 |
chr11:118968584 | p.L379L | 1 |
chr11:118971415 | p.A132A | 1 |
chr11:118971440 | p.H375H | 1 |
chr11:118968667 | p.A114V | 1 |
chr11:118971495 | p.L340F | 1 |
chr11:118971500 | p.G112G | 1 |
chr11:118969169 | p.R303H | 1 |
Other DBs for Point Mutations |
Copy Number for DPAGT1 in TCGA |
* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for DPAGT1 |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
ALG9,ARCN1,C11orf57,DDX10,DLAT,DPAGT1,EI24, HMBS,HYOU1,PUS3,REXO2,RNF214,RNF26,SDHD, SLC37A4,SRPR,STT3A,TRAPPC4,UBE4A,ZPR1,ZW10 | AGA,ALG3,TMEM254,C14orf1,ABRACL,COPZ1,DPAGT1, DYNLT1,MYCBP,ORMDL2,SLC50A1,RPN2,RPP40,SRD5A3, SRPRB,TM9SF1,TMBIM6,TMEM179B,TMEM99,VAMP8,YIPF1 |
ALG9,CCDC86,DDX10,DLAT,DPAGT1,EI24,FAM86C1, FOXRED1,HMBS,LOC653566,MEN1,PPME1,RNF26,RPUSD4, SLC29A2,SLC37A4,SPCS2,STIP1,STT3A,TMEM138,TMX2 | ANLN,BUB1B,C17orf53,CEP55,DPAGT1,FOXM1,HYOU1, LARS2,LMNB1,PDIA4,PKMYT1,RAD54L,RPN2,RRM2, SCFD2,SEC61A1,SLC38A5,SLCO4A1,SSRP1,STT3A,TYMS |
Co-Expressed gene's Protein-protein interaction Network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for DPAGT1 |
There's no related Drug. |
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Cross referenced IDs for DPAGT1 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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