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 SGSH
Basic gene info.Gene symbolSGSH
Gene nameN-sulfoglucosamine sulfohydrolase
SynonymsHSS|MPS3A|SFMD
CytomapUCSC genome browser: 17q25.3
Genomic locationchr17 :78183078-78194199
Type of geneprotein-coding
RefGenesNM_000199.3,
Ensembl idENSG00000181523
DescriptionN-sulphoglucosamine sulphohydrolaseheparan sulfate sulfatasemucopolysaccharidosis type IIIAsulfoglucosamine sulfamidasesulphamidase
Modification date20141207
dbXrefs MIM : 605270
HGNC : HGNC
Ensembl : ENSG00000181523
HPRD : 05590
Vega : OTTHUMG00000177569
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SGSH
BioGPS: 6448
Gene Expression Atlas: ENSG00000181523
The Human Protein Atlas: ENSG00000181523
PathwayNCI Pathway Interaction Database: SGSH
KEGG: SGSH
REACTOME: SGSH
ConsensusPathDB
Pathway Commons: SGSH
MetabolismMetaCyc: SGSH
HUMANCyc: SGSH
RegulationEnsembl's Regulation: ENSG00000181523
miRBase: chr17 :78,183,078-78,194,199
TargetScan: NM_000199
cisRED: ENSG00000181523
ContextiHOP: SGSH
cancer metabolism search in PubMed: SGSH
UCL Cancer Institute: SGSH
Assigned class in ccmGDBC

Top
Phenotypic Information for SGSH(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SGSH
Familial Cancer Database: SGSH
* 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: SGSH
MedGen: SGSH (Human Medical Genetics with Condition)
ClinVar: SGSH
PhenotypeMGI: SGSH (International Mouse Phenotyping Consortium)
PhenomicDB: SGSH

Mutations for SGSH
* 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 SGSH related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CA306626RGS791511241161698241161840SGSH142667177819374678197108

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample1     1   1      
GAIN (# sample)1     1   1      
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

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=24)
Stat. for Synonymous SNVs
(# total SNVs=9)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=1)
There's no deleted 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
chr17:78185892-78185892p.S309S2
chr17:78184627-78184627p.S378F2
chr17:78185956-78185956p.P288L2
chr17:78184723-78184723p.R346Q2
chr17:78187975-78187975p.V220A2
chr17:78184308-78184308p.D484E1
chr17:78188442-78188442p.R160W1
chr17:78184625-78184625p.V379M1
chr17:78190986-78190986p.D32N1
chr17:78185893-78185893p.S309I1

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample12 51 1    121 251 3
# mutation12 61 1    121 251 3
nonsynonymous SNV 2 5       111 231 2
synonymous SNV1  11 1     1   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])

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
chr17:78184316p.A482T2
chr17:78185956p.P288L2
chr17:78188482p.G485G1
chr17:78184800p.Q307E1
chr17:78188523p.P455P1
chr17:78184395p.V220A1
chr17:78185891p.Q400Q1
chr17:78190938p.P208T1
chr17:78184560p.P397P1
chr17:78185892p.G200R1

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 SGSH 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 SGSH

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

ARHGDIA,ASPSCR1,OGFOD3,ENTHD2,C17orf62,C17orf70,OXLD1,
CCDC57,CHMP6,CSNK1D,ENGASE,GAA,HEXDC,PLEKHH3,
RFNG,SGSH,SIRT7,SLC26A11,SLC38A10,TMEM115,TMEM175
AMPD2,ASB6,C17orf70,SMG9,CABIN1,CNTROB,DCAF15,
FZR1,GAK,LRCH4,MED22,NDOR1,PLXNB2,PPOX,
RHBDF1,SGSH,SLC12A9,SLC26A11,SPPL2B,STK11IP,TOP3B

ACBD4,ENTHD2,C17orf70,CDK5RAP3,COG1,EXOC7,FAM134C,
FN3K,HDAC10,HEXDC,HGS,KIAA0195,RECQL5,RFNG,
RNPEPL1,SGSH,SLC26A11,SPPL2B,TIAF1,TMEM175,TP53I13
ANKRD11,ARHGAP1,BRD1,COL6A4P2,CRAMP1L,FOXP4,IFT140,
INPPL1,MMP14,PDE4A,PLEKHM2,SGSH,SLC27A1,SMG6,
SNAPC4,SORBS3,SPTB,TMEM184B,TNRC18,ZBTB17,ZDHHC8
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 SGSH


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