Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for HS3ST6
Basic gene info.Gene symbolHS3ST6
Gene nameheparan sulfate (glucosamine) 3-O-sulfotransferase 6
Synonyms3-OST-6|HS3ST5|h3-OST-6
CytomapUCSC genome browser: 16p13.3
Genomic locationchr16 :1961464-1968231
Type of geneprotein-coding
RefGenesNM_001009606.3,
Ensembl idENSG00000162040
Descriptionheparan sulfate (glucosamine) 3-O-sulfotransferase 5heparan sulfate D-glucosaminyl 3-O-sulfotransferase 6heparan sulfate glucosamine 3-O-sulfotransferase 6heparan sulphate D-glucosaminyl 3-O-sulfotransferase-3B like
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000162040
HPRD : 17115
Vega : OTTHUMG00000047860
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_HS3ST6
BioGPS: 64711
Gene Expression Atlas: ENSG00000162040
The Human Protein Atlas: ENSG00000162040
PathwayNCI Pathway Interaction Database: HS3ST6
KEGG: HS3ST6
REACTOME: HS3ST6
ConsensusPathDB
Pathway Commons: HS3ST6
MetabolismMetaCyc: HS3ST6
HUMANCyc: HS3ST6
RegulationEnsembl's Regulation: ENSG00000162040
miRBase: chr16 :1,961,464-1,968,231
TargetScan: NM_001009606
cisRED: ENSG00000162040
ContextiHOP: HS3ST6
cancer metabolism search in PubMed: HS3ST6
UCL Cancer Institute: HS3ST6
Assigned class in ccmGDBC

Top
Phenotypic Information for HS3ST6(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: HS3ST6
Familial Cancer Database: HS3ST6
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_CARBOHYDRATES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: HS3ST6
MedGen: HS3ST6 (Human Medical Genetics with Condition)
ClinVar: HS3ST6
PhenotypeMGI: HS3ST6 (International Mouse Phenotyping Consortium)
PhenomicDB: HS3ST6

Mutations for HS3ST6
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows HS3ST6 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
There's no copy number variation information in COSMIC data for this gene.

Top
check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=3

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=22)
Stat. for Synonymous SNVs
(# total SNVs=5)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

Top
check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr16:1961674-1961674p.L285V3
chr16:1961822-1961822p.F235F3
chr16:1962046-1962046p.A161T2
chr16:1962047-1962047p.Y160Y2
chr16:1961725-1961725p.R268C2
chr16:1961987-1961987p.H180H2
chr16:1961835-1961835p.R231H2
chr16:1962006-1962006p.R174H1
chr16:1962140-1962140p.T129T1
chr16:1961845-1961845p.E228K1

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample    3 4    211  53 3
# mutation    3 4    211  53 3
nonsynonymous SNV    2 2    2    21 2
synonymous SNV    1 2     11  32 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])

Top
check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr16:1961835p.R231H3
chr16:1961684p.T129T1
chr16:1962078p.V281V1
chr16:1961753p.F127F1
chr16:1962098p.L258L1
chr16:1962127p.G116R1
chr16:1961845p.S108I1
chr16:1962130p.E228K1
chr16:1961936p.Y197Y1
chr16:1962139p.G183R1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for HS3ST6 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 HS3ST6

check002.gifGene 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.

check002.gifDifferential 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
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

C1orf68,CCL27,FLG2,HS3ST6,KCNK7,KPRP,KRT1,
LCE1A,LCE1B,LCE1C,LCE1D,LCE1E,LCE1F,LCE2B,
LCE2C,LCE2D,LCE4A,LCE5A,LCE6A,LIPM,LOR
ASCL2,C11orf85,THEM6,CPA6,RIPPLY3,FAM110A,GLYATL3,
HS3ST6,KCNF1,KREMEN2,KRTAP10-10,MCHR1,PCSK1N,PRSS1,
PSCA,SLC7A13,SPANXA2,SPANXC,SPANXD,ABHD11-AS1,WNT3A

BRDT,CT45A1,CT45A4,CT47A2,CT47A6,DCAF8L2,DUPD1,
GAGE1,GAGE2C,HS3ST6,LOC100287704,NF1P1,NOBOX,OR4N4,
OR51B6,OR51F2,OR52E6,POM121L12,STRA8,TNP1,TUBA3C
ACER2,C12orf75,CHST5,FAM163B,FKBP1A,GLRA2,FFAR4,
HRK,HS3ST6,MFSD4,MINPP1,MLLT3,MMP28,PP14571,
PRAC1,REP15,SCEL,ST6GALNAC6,TBX10,TMEM200A,UGT2B11
check002.gifCo-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

: Open all plots for all cancer types

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for HS3ST6


There's no related Drug.
Top
Cross referenced IDs for HS3ST6
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas