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 GSTO1
Basic gene info.Gene symbolGSTO1
Gene nameglutathione S-transferase omega 1
SynonymsGSTO 1-1|GSTTLp28|HEL-S-21|P28|SPG-R
CytomapUCSC genome browser: 10q25.1
Genomic locationchr10 :106013951-106027222
Type of geneprotein-coding
RefGenesNM_001191002.1,
NM_001191003.1,NM_004832.2,
Ensembl idENSG00000148834
DescriptionGSTO-1MMA(V) reductaseS-(Phenacyl)glutathione reductaseepididymis secretory protein Li 21glutathione S-transferase omega 1-1glutathione S-transferase omega-1glutathione-S-transferase likeglutathione-dependent dehydroascorbate reductasemonomethylar
Modification date20141207
dbXrefs MIM : 605482
HGNC : HGNC
Ensembl : ENSG00000148834
HPRD : 10401
Vega : OTTHUMG00000019001
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GSTO1
BioGPS: 9446
Gene Expression Atlas: ENSG00000148834
The Human Protein Atlas: ENSG00000148834
PathwayNCI Pathway Interaction Database: GSTO1
KEGG: GSTO1
REACTOME: GSTO1
ConsensusPathDB
Pathway Commons: GSTO1
MetabolismMetaCyc: GSTO1
HUMANCyc: GSTO1
RegulationEnsembl's Regulation: ENSG00000148834
miRBase: chr10 :106,013,951-106,027,222
TargetScan: NM_001191002
cisRED: ENSG00000148834
ContextiHOP: GSTO1
cancer metabolism search in PubMed: GSTO1
UCL Cancer Institute: GSTO1
Assigned class in ccmGDBC

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Phenotypic Information for GSTO1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GSTO1
Familial Cancer Database: GSTO1
* 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
KEGG_GLUTATHIONE_METABOLISM
KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450
KEGG_DRUG_METABOLISM_CYTOCHROME_P450
REACTOME_METABOLISM_OF_VITAMINS_AND_COFACTORS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: GSTO1
MedGen: GSTO1 (Human Medical Genetics with Condition)
ClinVar: GSTO1
PhenotypeMGI: GSTO1 (International Mouse Phenotyping Consortium)
PhenomicDB: GSTO1

Mutations for GSTO1
* 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 GSTO1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AA234313CPD1140172875884728766081GSTO113138310106019490106025928
BG314836GSTO1618310106014951106019431PLIN217555691911588819116268
BC082963HS3ST3A1222058171339948713505235GSTO12058285810106014662106027213

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample      1          
GAIN (# sample)                 
LOSS (# sample)      1          
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)

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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=1

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=8)
Stat. for Synonymous SNVs
(# total SNVs=2)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted 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
chr10:106022834-106022836p.?3
chr10:106019360-106019360p.K57T1
chr10:106025884-106025884p.I170V1
chr10:106019439-106019439p.I83I1
chr10:106025928-106025928p.L184L1
chr10:106019443-106019443p.E85K1
chr10:106027036-106027036p.K200T1
chr10:106022748-106022748p.L126F1
chr10:106027078-106027078p.A214V1
chr10:106022765-106022765p.R132K1

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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
# sample11 1  3     1   2  3
# mutation11 1  3     1   2  3
nonsynonymous SNV1  1  2     1   2  3
synonymous SNV 1    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])

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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
chr10:106019360p.K57T,GSTO11
chr10:106019428p.G80S,GSTO11
chr10:106019443p.E85K,GSTO11
chr10:106022748p.L98F,GSTO11
chr10:106022765p.R104K,GSTO11
chr10:106025846p.L124P,GSTO11
chr10:106025864p.T130I,GSTO11
chr10:106027036p.K167T,GSTO11
chr10:106014943p.D176N,GSTO11
chr10:106027062p.V19V,GSTO11

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 GSTO1 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 GSTO1

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

BLOC1S1,C19orf43,COX4I1,EDF1,EXOSC1,GADD45GIP1,GPX1,
GSTO1,LOC100270710,MRPL23,LINC00152,NDUFA11,NDUFB8,PFDN5,
PSMB6,RHOG,RNASEK,RPL24,RPLP2,TNFSF12-TNFSF13,USMG5
ARPC2,ATP6V1F,AKIP1,C17orf49,CAPZB,GABARAP,GSTO1,
IFI27L2,JTB,LST1,NENF,NPC2,NUTF2,PFN1,
RBX1,RHOG,SCNM1,SH3BGRL3,SNRPG,TMSB10,TRAPPC1

ASNA1,FAM204A,COX7A2,GADD45GIP1,GLRX3,GPX1,GSTO1,
LSM2,MED31,MRPL43,MRPL54,MYEOV2,NDUFA11,NDUFA13,
NDUFB7,NDUFB8,PFDN5,SNRPG,TIMM8B,TOMM22,VPS29
BET1,COX14,IFT43,CHCHD2,CKLF,DYNLT1,GLO1,
GSTO1,IFT20,LSM1,MYEOV2,NDUFB6,POLR2C,PSMA2,
PSMA6,PSMA7,PSMB1,PSMB4,PSMD8,PSMD9,RNF181
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 GSTO1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00143glutathione S-transferase omega 1approved; nutraceuticalGlutathione
DB00515glutathione S-transferase omega 1approvedCisplatin
DB01169glutathione S-transferase omega 1approved; investigationalArsenic trioxide


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Cross referenced IDs for GSTO1
* 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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