|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for HK3 |
Basic gene info. | Gene symbol | HK3 |
Gene name | hexokinase 3 (white cell) | |
Synonyms | HKIII|HXK3 | |
Cytomap | UCSC genome browser: 5q35.2 | |
Genomic location | chr5 :176307869-176326333 | |
Type of gene | protein-coding | |
RefGenes | NM_002115.2, | |
Ensembl id | ENSG00000160883 | |
Description | ATP:D-hexose 6-phosphotransferaseHK IIIhexokinase type IIIhexokinase-3 | |
Modification date | 20141207 | |
dbXrefs | MIM : 142570 | |
HGNC : HGNC | ||
Ensembl : ENSG00000160883 | ||
HPRD : 00806 | ||
Vega : OTTHUMG00000130855 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_HK3 | |
BioGPS: 3101 | ||
Gene Expression Atlas: ENSG00000160883 | ||
The Human Protein Atlas: ENSG00000160883 | ||
Pathway | NCI Pathway Interaction Database: HK3 | |
KEGG: HK3 | ||
REACTOME: HK3 | ||
ConsensusPathDB | ||
Pathway Commons: HK3 | ||
Metabolism | MetaCyc: HK3 | |
HUMANCyc: HK3 | ||
Regulation | Ensembl's Regulation: ENSG00000160883 | |
miRBase: chr5 :176,307,869-176,326,333 | ||
TargetScan: NM_002115 | ||
cisRED: ENSG00000160883 | ||
Context | iHOP: HK3 | |
cancer metabolism search in PubMed: HK3 | ||
UCL Cancer Institute: HK3 | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for HK3(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: HK3 |
Familial Cancer Database: HK3 |
* 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 | |
KEGG_GLYCOLYSIS_GLUCONEOGENESIS KEGG_FRUCTOSE_AND_MANNOSE_METABOLISM KEGG_GALACTOSE_METABOLISM KEGG_STARCH_AND_SUCROSE_METABOLISM KEGG_AMINO_SUGAR_AND_NUCLEOTIDE_SUGAR_METABOLISM REACTOME_METABOLISM_OF_CARBOHYDRATES |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: HK3 |
MedGen: HK3 (Human Medical Genetics with Condition) | |
ClinVar: HK3 | |
Phenotype | MGI: HK3 (International Mouse Phenotyping Consortium) |
PhenomicDB: HK3 |
Mutations for HK3 |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | HK3 | chr5 | 176309035 | 176309055 | chr5 | 177211977 | 177211997 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows HK3 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 |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=102) | (# total SNVs=28) |
(# total SNVs=1) | (# total SNVs=1) |
Top |
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 |
chr5:176314614-176314614 | p.R480W | 4 |
chr5:176311062-176311062 | p.R644Q | 3 |
chr5:176314705-176314705 | p.P449P | 3 |
chr5:176314302-176314302 | p.T546M | 3 |
chr5:176317718-176317718 | p.S183F | 2 |
chr5:176317730-176317730 | p.S179N | 2 |
chr5:176311040-176311040 | p.Q651Q | 2 |
chr5:176309065-176309065 | p.S706* | 2 |
chr5:176314250-176314250 | p.S563S | 2 |
chr5:176314276-176314276 | p.V555M | 2 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 | 3 | 2 |   | 17 | 2 |   | 7 |   | 2 |   |   | 20 | 7 | 4 |   |   | 21 | 10 | 2 | 10 |
# mutation | 3 | 2 |   | 14 | 2 |   | 7 |   | 2 |   |   | 20 | 7 | 4 |   |   | 23 | 10 | 2 | 13 |
nonsynonymous SNV | 1 | 2 |   | 11 | 2 |   | 4 |   |   |   |   | 15 | 6 | 4 |   |   | 13 | 6 |   | 9 |
synonymous SNV | 2 |   |   | 3 |   |   | 3 |   | 2 |   |   | 5 | 1 |   |   |   | 10 | 4 | 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]) |
Top |
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 |
chr5:176314527 | p.P875P | 2 |
chr5:176308305 | p.R644Q | 2 |
chr5:176311062 | p.D721N | 2 |
chr5:176310832 | p.A509T | 2 |
chr5:176315478 | p.V387I | 2 |
chr5:176308393 | p.A846V | 2 |
chr5:176323160 | p.M1V | 2 |
chr5:176314628 | p.T664T | 2 |
chr5:176309021 | p.R475H | 2 |
chr5:176316712 | p.V658I | 1 |
Other DBs for Point Mutations |
Copy Number for HK3 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] |
Top |
Gene Expression for HK3 |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
CD68,EMILIN2,FERMT3,FGR,HK3,IFI30,ITGAX, ITGB2,LILRA6,LILRB2,LILRB3,LILRB4,LRRC25,NCF2, PILRA,SIGLEC7,SIGLEC9,SLAMF8,SLC7A7,SPI1,TMEM150B | CATSPER1,CD300C,CD300LB,CD68,CTSB,DHRS9,DOK2, FGR,HCST,HK3,IFI30,ITGB2,LOC653786,MS4A6E, OTOA,PTCRA,SIGLEC7,SLAMF9,SPOCD1,TM4SF19,TYROBP |
CD300C,CYBB,FCER1G,FGR,HAVCR2,HCK,HK3, ITGAM,ITGAX,ITGB2,LAIR1,LAPTM5,LILRB4,OSCAR, PILRA,PRAM1,SIGLEC7,SIGLEC9,SLAMF8,SPI1,TYROBP | ADAP2,C1QA,C1QB,C1QC,C2,C3AR1,CD33, CHI3L1,CMKLR1,DOK2,EMILIN2,FCER1G,FCGR3A,HAVCR2, HK3,LAIR1,LILRA6,LILRB4,LRRC25,NRROS,NFAM1 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for HK3 |
There's no related Drug. |
Top |
Cross referenced IDs for HK3 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |