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 GSTO2
Basic gene info.Gene symbolGSTO2
Gene nameglutathione S-transferase omega 2
SynonymsGSTO 2-2|bA127L20.1
CytomapUCSC genome browser: 10q25.1
Genomic locationchr10 :106028630-106059176
Type of geneprotein-coding
RefGenesNM_001191013.1,
NM_001191014.1,NM_001191015.1,NM_183239.1,
Ensembl idENSG00000065621
DescriptionGSTO-2MMA(V) reductasebA127L20.1 (novel glutathione-S-transferase)glutathione S-transferase omega 2-2glutathione S-transferase omega-2glutathione-S-transferase-like proteinglutathione-dependent dehydroascorbate reductasemonomethylarsonic acid reduc
Modification date20141207
dbXrefs MIM : 612314
HGNC : HGNC
Ensembl : ENSG00000065621
HPRD : 13614
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GSTO2
BioGPS: 119391
Gene Expression Atlas: ENSG00000065621
The Human Protein Atlas: ENSG00000065621
PathwayNCI Pathway Interaction Database: GSTO2
KEGG: GSTO2
REACTOME: GSTO2
ConsensusPathDB
Pathway Commons: GSTO2
MetabolismMetaCyc: GSTO2
HUMANCyc: GSTO2
RegulationEnsembl's Regulation: ENSG00000065621
miRBase: chr10 :106,028,630-106,059,176
TargetScan: NM_001191013
cisRED: ENSG00000065621
ContextiHOP: GSTO2
cancer metabolism search in PubMed: GSTO2
UCL Cancer Institute: GSTO2
Assigned class in ccmGDBC

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Phenotypic Information for GSTO2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GSTO2
Familial Cancer Database: GSTO2
* 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: GSTO2
MedGen: GSTO2 (Human Medical Genetics with Condition)
ClinVar: GSTO2
PhenotypeMGI: GSTO2 (International Mouse Phenotyping Consortium)
PhenomicDB: GSTO2

Mutations for GSTO2
* 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 GSTO2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BE771867GSTO2144910106059051106059086GSTO24924410106058886106059081
BQ369613ZFAT92328135627327135627551GSTO223325410106046882106046903

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 2          
GAIN (# sample)    1            
LOSS (# sample)      2          
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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=17)
Stat. for Synonymous SNVs
(# total SNVs=4)
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
chr10:106039209-106039209p.E150*2
chr10:106037800-106037800p.P98S2
chr10:106057406-106057406p.P180L2
chr10:106058901-106058901p.T197T2
chr10:106039185-106039185p.N142D2
chr10:106058970-106058970p.K220K1
chr10:106037761-106037761p.E85*1
chr10:106039228-106039228p.E156V1
chr10:106059034-106059034p.L242L1
chr10:106037786-106037786p.L93P1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 2 2       3 1   4 1
# mutation 2 2       3 1   4 1
nonsynonymous SNV 2 2       2 1   3 1
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
chr10:106057406p.P118L,GSTO22
chr10:106057398p.L115L,GSTO21
chr10:106058929p.M145L,GSTO21
chr10:106058933p.K146T,GSTO21
chr10:106058959p.L155I,GSTO21
chr10:106035092p.L180L,GSTO21
chr10:106059034p.R20K,GSTO21
chr10:106037800p.P70S,GSTO21
chr10:106037866p.F92I,GSTO21
chr10:106039129p.V95A,GSTO21

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 GSTO2 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 GSTO2

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

ARL3,ATP5G2,BTF3,C12orf10,COA3,CHCHD5,CUEDC2,
DPCD,EIF4EBP3,FBXW4,GAMT,GSTO2,IMPDH2,MRPL43,
NPRL2,OBFC1,OVOL2,POLL,RBKS,SNHG8,TEX264
BSPRY,RHNO1,VWA9,GSTO2,HMGN1,KCTD1,KDM1A,
KRTCAP3,LOC348926,LOC645332,OCIAD2,PATZ1,PDE6B,PGAP2,
PLEK2,PRSS16,RAB25,SPINT1,TMC4,TMEM125,TRIM27

ATP5G2,B9D1,C14orf166,C14orf2,DNPH1,CINP,F12,
GSTO2,KRTCAP3,NDUFB8,NPM3,OXA1L,PCBD1,PHB2,
RPL12,RPL29,RPL3,RPL36AL,RPS2,SNRPD1,TIMM9
AFMID,VWA9,C1orf131,ZFAS1,COG2,CRYM,FAM60A,
GSTO2,KRTCAP3,NGLY1,NUDT16P1,SAMD13,SLC25A38,SLC35A1,
SNX5,STARD10,TTPA,TXNDC12,YIPF2,ZNF28,ZNF468
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 GSTO2
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 2approved; nutraceuticalGlutathione
DB00515glutathione S-transferase omega 2approvedCisplatin
DB01169glutathione S-transferase omega 2approved; investigationalArsenic trioxide


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Cross referenced IDs for GSTO2
* 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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