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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for NAGK |
Basic gene info. | Gene symbol | NAGK |
Gene name | N-acetylglucosamine kinase | |
Synonyms | GNK|HSA242910 | |
Cytomap | UCSC genome browser: 2p13.3 | |
Genomic location | chr2 :71295407-71305998 | |
Type of gene | protein-coding | |
RefGenes | NM_017567.4, | |
Ensembl id | ENSG00000124357 | |
Description | N-acetyl-D-glucosamine kinaseglcNAc kinase | |
Modification date | 20141207 | |
dbXrefs | MIM : 606828 | |
HGNC : HGNC | ||
Ensembl : ENSG00000124357 | ||
HPRD : 08441 | ||
Vega : OTTHUMG00000153239 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NAGK | |
BioGPS: 55577 | ||
Gene Expression Atlas: ENSG00000124357 | ||
The Human Protein Atlas: ENSG00000124357 | ||
Pathway | NCI Pathway Interaction Database: NAGK | |
KEGG: NAGK | ||
REACTOME: NAGK | ||
ConsensusPathDB | ||
Pathway Commons: NAGK | ||
Metabolism | MetaCyc: NAGK | |
HUMANCyc: NAGK | ||
Regulation | Ensembl's Regulation: ENSG00000124357 | |
miRBase: chr2 :71,295,407-71,305,998 | ||
TargetScan: NM_017567 | ||
cisRED: ENSG00000124357 | ||
Context | iHOP: NAGK | |
cancer metabolism search in PubMed: NAGK | ||
UCL Cancer Institute: NAGK | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for NAGK(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: NAGK |
Familial Cancer Database: NAGK |
* This gene is included in those cancer gene databases. |
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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 | |
KEGG_AMINO_SUGAR_AND_NUCLEOTIDE_SUGAR_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: NAGK |
MedGen: NAGK (Human Medical Genetics with Condition) | |
ClinVar: NAGK | |
Phenotype | MGI: NAGK (International Mouse Phenotyping Consortium) |
PhenomicDB: NAGK |
Mutations for NAGK |
* 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 NAGK 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 |
BQ334962 | PFN1 | 1 | 213 | 17 | 4849137 | 4849349 | NAGK | 207 | 269 | 2 | 71305764 | 71305826 | |
AW748767 | NAGK | 13 | 87 | 2 | 71300299 | 71300374 | NAGK | 85 | 357 | 2 | 71300055 | 71300326 |
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=23) | (# total SNVs=16) |
(# total SNVs=0) | (# total SNVs=1) |
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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 |
chr2:71297643-71297643 | p.R14Q | 3 |
chr2:71304726-71304726 | p.C268C | 3 |
chr2:71304751-71304751 | p.E277Q | 2 |
chr2:71297695-71297695 | p.D31D | 2 |
chr2:71305438-71305438 | p.? | 2 |
chr2:71302769-71302769 | p.E222K | 2 |
chr2:71303793-71303793 | p.G243S | 2 |
chr2:71297682-71297682 | p.L27R | 2 |
chr2:71300688-71300688 | p.I181I | 1 |
chr2:71299785-71299785 | p.I124V | 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 | 2 | 1 |   | 8 |   |   |   |   | 2 |   |   | 3 | 4 |   |   |   | 1 | 3 |   | 5 |
# mutation | 2 | 1 |   | 8 |   |   |   |   | 2 |   |   | 3 | 4 |   |   |   | 1 | 3 |   | 6 |
nonsynonymous SNV | 1 | 1 |   | 5 |   |   |   |   | 2 |   |   | 2 | 2 |   |   |   | 1 | 1 |   | 2 |
synonymous SNV | 1 |   |   | 3 |   |   |   |   |   |   |   | 1 | 2 |   |   |   |   | 2 |   | 4 |
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 |
chr2:71302769 | p.E268K | 2 |
chr2:71305448 | p.C263C | 1 |
chr2:71298830 | p.I95N | 1 |
chr2:71300655 | p.S122S | 1 |
chr2:71305464 | p.Y279H | 1 |
chr2:71298850 | p.A129V | 1 |
chr2:71300681 | p.L288L | 1 |
chr2:71305500 | p.G130W | 1 |
chr2:71298852 | p.H291Y | 1 |
chr2:71300684 | p.A154A | 1 |
Other DBs for Point Mutations |
Copy Number for NAGK 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 NAGK |
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 |
AP2S1,APOE,AURKAIP1,BAX,C19orf60,C1orf122,PRADC1, CCDC124,CCM2,EDF1,FASTK,IRF3,MGAT1,MRPL53, NAGK,NDUFS7,SIRT6,TMSB10,TRADD,TWF2,VAMP5 | ARPC4,C17orf62,C19orf10,MFSD12,CAPG,CCDC137,CNPY3, CORO7,CRELD2,CYBA,GBAP1,GRN,LRPAP1,NAGK, REEP4,RNASET2,SHKBP1,SIPA1,STX4,TMED9,TRADD | ||||
ABI3,ADAP2,AIF1,CD300A,CYTH4,DOK2,HAVCR2, HCST,IFFO1,LAIR1,LSP1,LST1,MGAT1,MYO1F, NAGK,PIK3R6,PLEKHO2,PPM1M,SPI1,TNFAIP8L2,TYROBP | AIF1,APOBEC3G,C19orf38,C1orf162,CD300C,CD40,CYBB, DOK2,FCER1G,GIMAP4,GIMAP5,HCST,KYNU,LST1, NAGK,NCF2,OSCAR,PDCD1LG2,SPI1,TNFAIP8L2,TYROBP |
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 NAGK |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00141 | N-acetylglucosamine kinase | approved; nutraceutical | N-Acetyl-D-glucosamine |
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Cross referenced IDs for NAGK |
* 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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