Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 CHST7
Basic gene info.Gene symbolCHST7
Gene namecarbohydrate (N-acetylglucosamine 6-O) sulfotransferase 7
SynonymsC6ST-2|GST-5
CytomapUCSC genome browser: Xp11.23
Genomic locationchrX :46433191-46457838
Type of geneprotein-coding
RefGenesNM_019886.3,
Ensembl idENSG00000147119
DescriptionN-acetylglucosamine 6-O-sulfotransferase 4carbohydrate sulfotransferase 7chondroitin 6-sulfotransferase-2galactose/N-acetylglucosamine/N-acetylglucosamine 6-O-sulfotransferase 5glcNAc6ST-4gn6st-4
Modification date20141207
dbXrefs MIM : 300375
HGNC : HGNC
Ensembl : ENSG00000147119
HPRD : 02302
Vega : OTTHUMG00000021423
ProteinUniProt: Q9NS84
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CHST7
BioGPS: 56548
Gene Expression Atlas: ENSG00000147119
The Human Protein Atlas: ENSG00000147119
PathwayNCI Pathway Interaction Database: CHST7
KEGG: CHST7
REACTOME: CHST7
ConsensusPathDB
Pathway Commons: CHST7
MetabolismMetaCyc: CHST7
HUMANCyc: CHST7
RegulationEnsembl's Regulation: ENSG00000147119
miRBase: chrX :46,433,191-46,457,838
TargetScan: NM_019886
cisRED: ENSG00000147119
ContextiHOP: CHST7
cancer metabolism search in PubMed: CHST7
UCL Cancer Institute: CHST7
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of CHST7 in cancer cell metabolism1. Veeriah S, Miene C, Habermann N, Hofmann T, Klenow S, et al. (2008) Apple polyphenols modulate expression of selected genes related to toxicological defence and stress response in human colon adenoma cells. Int J Cancer 122: 2647-2655. doi: 10.1002/ijc.23440 go to article
2. Veeriah S, Kautenburger T, Habermann N, Sauer J, Dietrich H, et al. (2006) Apple flavonoids inhibit growth of HT29 human colon cancer cells and modulate expression of genes involved in the biotransformation of xenobiotics. Mol Carcinog 45: 164-174. doi: 10.1002/mc.20158. go to article

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Phenotypic Information for CHST7(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: CHST7
Familial Cancer Database: CHST7
* 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 300375; gene.
Orphanet
DiseaseKEGG Disease: CHST7
MedGen: CHST7 (Human Medical Genetics with Condition)
ClinVar: CHST7
PhenotypeMGI: CHST7 (International Mouse Phenotyping Consortium)
PhenomicDB: CHST7

Mutations for CHST7
* 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 CHST7 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

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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.

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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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=16)
Stat. for Synonymous SNVs
(# total SNVs=5)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=3)
There's no deleted snv.

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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
chr23:46433928-46433929p.T188fs*113
chr23:46433950-46433950p.W195*2
chr23:46433887-46433887p.P174R2
chr23:46433936-46433936p.A190A2
chr23:46433600-46433600p.A79fs*1931
chr23:46434160-46434160p.R265H1
chr23:46433865-46433865p.V167M1
chr23:46433945-46433945p.F193L1
chr23:46433662-46433662p.R99H1
chr23:46434195-46434195p.F277L1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample4       1  1    31 6
# mutation4       1  1    31 6
nonsynonymous SNV2       1  1    21 4
synonymous SNV2               1  2
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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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
chrX:46433603p.A79A1
chrX:46433945p.I104I1
chrX:46433678p.G113D1
chrX:46434060p.P143L1
chrX:46433704p.D145N1
chrX:46434091p.E147D1
chrX:46433794p.Q150L1
chrX:46434113p.R169Q1
chrX:46433799p.P174L1
chrX:46434158p.D176E1

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 CHST7 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 CHST7

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

: Open all plots for all cancer types


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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

AADAC,MGARP,CHST7,CYP11A1,CYP17A1,CYP19A1,FSHR,
HPCAL4,HSD11B1,HSD3B1,INSL3,KLHL4,LHCGR,MBOAT4,
MRAP,MRO,SEMA7A,STAR,TCF23,TREML5P,ZDHHC19
ACVRL1,ATOH8,C1QTNF1,CFD,CHST7,CYGB,FBLN2,
FYN,GALNT15,GRK5,GSN,HTRA3,LDLRAD2,LGI4,
NINJ2,PRELP,PROCR,TSPAN4,VAT1,VIM,WNT11

AFAP1L1,ARHGEF15,BCL6B,CHST7,CLEC14A,CNRIP1,ENG,
ERG,FAM101B,FLT4,FAM110D,HSPA12B,PLVAP,RASIP1,
RHOJ,S1PR1,SEMA6B,SH2D3C,SOX18,STARD8,TIE1
ADAM2,ADRA2B,AGAP7P,APCDD1,RUSC1-AS1,CHST7,CLEC11A,
CP,GLUL,KCNT1,KIF26A,OPN4,OR4D5,POFUT2,
SCNN1G,SEMA5B,SLC1A5,SLC6A1,STARD8,TSC22D3,ZNF514
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

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check002.gifInteracting Genes (from Pathway Commons)

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

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Pharmacological Information for CHST7


There's no related Drug.
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Cross referenced IDs for CHST7
* 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



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