Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 GSTP1
Basic gene info.Gene symbolGSTP1
Gene nameglutathione S-transferase pi 1
SynonymsDFN7|FAEES3|GST3|GSTP|HEL-S-22|PI
CytomapUCSC genome browser: 11q13
Genomic locationchr11 :67351065-67354124
Type of geneprotein-coding
RefGenesNM_000852.3,
Ensembl idENSG00000084207
DescriptionGST class-piGSTP1-1deafness, X-linked 7epididymis secretory protein Li 22fatty acid ethyl ester synthase IIIglutathione S-transferase P
Modification date20141222
dbXrefs MIM : 134660
HGNC : HGNC
Ensembl : ENSG00000084207
HPRD : 00614
Vega : OTTHUMG00000137430
ProteinUniProt: P09211
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GSTP1
BioGPS: 2950
Gene Expression Atlas: ENSG00000084207
The Human Protein Atlas: ENSG00000084207
PathwayNCI Pathway Interaction Database: GSTP1
KEGG: GSTP1
REACTOME: GSTP1
ConsensusPathDB
Pathway Commons: GSTP1
MetabolismMetaCyc: GSTP1
HUMANCyc: GSTP1
RegulationEnsembl's Regulation: ENSG00000084207
miRBase: chr11 :67,351,065-67,354,124
TargetScan: NM_000852
cisRED: ENSG00000084207
ContextiHOP: GSTP1
cancer metabolism search in PubMed: GSTP1
UCL Cancer Institute: GSTP1
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of GSTP1 in cancer cell metabolism1. Yuan ZJ, Zhou WW, Liu W, Wu BP, Zhao J, et al. (2015) Association of GSTP1 and RRM1 Polymorphisms with the Response and Toxicity of Gemcitabine-cisplatin Combination Chemotherapy in Chinese Patients with Non-small Cell Lung Cancer. Asian Pac J Cancer Prev 16: 4347-4351. go to article
2. Hevir-Kene N, Rizner TL (2015) The endometrial cancer cell lines Ishikawa and HEC-1A, and the control cell line HIEEC, differ in expression of estrogen biosynthetic and metabolic genes, and in androstenedione and estrone-sulfate metabolism. Chem Biol Interact 234: 309-319. doi: 10.1016/j.cbi.2014.11.015. go to article

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Phenotypic Information for GSTP1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GSTP1
Familial Cancer Database: GSTP1
* 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

check002.gifOthers
OMIM 134660; gene.
Orphanet
DiseaseKEGG Disease: GSTP1
MedGen: GSTP1 (Human Medical Genetics with Condition)
ClinVar: GSTP1
PhenotypeMGI: GSTP1 (International Mouse Phenotyping Consortium)
PhenomicDB: GSTP1

Mutations for GSTP1
* 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 GSTP1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BG978110GSTP127204116735217067352713PSMB12054596170855254170862345
AW263990GSTP11365116735358467354125FAM53B35951910126310197126310357
BF819091GSTP128355116735161367352713XRCC53515472217002818217006020
AA535995GSTP13203116735392567354124CTSA192251204452264544522704
BU527119GSTP1105477116735357567354124SLC26A44684947107322541107322567
AW206069GSTP117246116735372367354124LAMA5244323206090056960900648
AW390894GSTP119175116735268267353878WHSC1164304419627601976611
AW390893GSTP1198116735268267353645WHSC187206419627601962879

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=15)
Stat. for Synonymous SNVs
(# total SNVs=13)
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
chr11:67353985-67353985p.L190L2
chr11:67353970-67353970p.S185S2
chr11:67352191-67352191p.D60E2
chr11:67352198-67352198p.L63M1
chr11:67353675-67353675p.G146V1
chr11:67352199-67352199p.L63P1
chr11:67353865-67353865p.S150S1
chr11:67353993-67353993p.F193S1
chr11:67352214-67352214p.T68S1
chr11:67353898-67353898p.L161L1

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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
# sample221      1 111  32 9
# mutation321      1 111  42 9
nonsynonymous SNV11       1 11   21 2
synonymous SNV211          1  21 7
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
chr11:67353985p.L190L2
chr11:67352613p.A88A1
chr11:67353933p.L194L1
chr11:67352640p.D118Y1
chr11:67353934p.Y199Y1
chr11:67353590p.L134L1
chr11:67353948p.N201D1
chr11:67353638p.Q136Q1
chr11:67353976p.G140G1
chr11:67353646p.G146V1

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 GSTP1 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 GSTP1

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

BID,CEBPB,YBX3,FAM58A,GSTP1,HMGA1,LAD1,
MAGOH,MRPS5,NMB,NPM3,POLR2F,PPP1R14B,RPS7,
SHFM1,SNRPA,TMEM39B,UBE2E3,UQCRH,UQCRHL,YBX1
APOA1BP,ARF5,CFL1,CHCHD5,CNFN,FAM58A,FIBP,
GSTP1,MOSPD3,MRPL52,MRPS21,NSMCE1,PPP4C,PSMG3,
RHOC,SDF2,SF3B5,TMEM115,TMEM208,TRMT112,YIPF3

BANF1,TMEM258,ANAPC15,UQCC3,TMEM256,CDK2AP2,FAM96B,
FAU,GLB1L2,GSTP1,MGST2,MRPL28,NT5C,NUDT8,
POP7,PPP1CA,PPP1R14B,THOC6,PAM16,TMEM134,WIBG
APRT,TMEM258,C17orf49,C9orf16,CLPP,EIF3I,GADD45GIP1,
GSTP1,IMP4,KRTCAP2,MRPL52,NAA10,NDUFA7,NDUFS6,
NME2,POLR2L,POP7,SF3B5,SNRPB,TMEM11,TMEM147
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 GSTP1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB P09211; -.
ChemistryChEMBL CHEMBL3902; -.
Organism-specific databasesPharmGKB PA29028; -.
Organism-specific databasesCTD 2950; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00143glutathione S-transferase pi 1approved; nutraceuticalGlutathione
DB01242glutathione S-transferase pi 1approvedClomipramine
DB01834glutathione S-transferase pi 1experimental(9r,10r)-9-(S-Glutathionyl)-10-Hydroxy-9,10-Dihydrophenanthrene
DB01915glutathione S-transferase pi 1experimentalS-Hydroxycysteine
DB02633glutathione S-transferase pi 1experimentalCibacron Blue
DB03003glutathione S-transferase pi 1experimentalGlutathione Sulfonic Acid
DB03686glutathione S-transferase pi 1experimentalS-(P-Nitrobenzyl)Glutathione
DB03814glutathione S-transferase pi 1experimental2-(N-Morpholino)-Ethanesulfonic Acid
DB04077glutathione S-transferase pi 1experimentalGlycerol
DB04132glutathione S-transferase pi 1experimentalS-Hexylglutathione
DB04339glutathione S-transferase pi 1experimentalCarboxymethylenecysteine
DB07849glutathione S-transferase pi 1experimentalS-NONYL-CYSTEINE
DB08370glutathione S-transferase pi 1experimentalS-(4-BROMOBENZYL)CYSTEINE
DB00443glutathione S-transferase pi 1approvedBetamethasone
DB01234glutathione S-transferase pi 1approved; investigationalDexamethasone
DB00997glutathione S-transferase pi 1approved; investigationalDoxorubicin
DB01236glutathione S-transferase pi 1approvedSevoflurane
DB04572glutathione S-transferase pi 1approvedThiotepa
DB01229glutathione S-transferase pi 1approvedPaclitaxel
DB00928glutathione S-transferase pi 1approved; investigationalAzacitidine
DB00313glutathione S-transferase pi 1approved; investigationalValproic Acid
DB00445glutathione S-transferase pi 1approvedEpirubicin
DB00205glutathione S-transferase pi 1approvedPyrimethamine
DB01248glutathione S-transferase pi 1approved; investigationalDocetaxel
DB00544glutathione S-transferase pi 1approvedFluorouracil
DB00291glutathione S-transferase pi 1approvedChlorambucil
DB01204glutathione S-transferase pi 1approved; investigationalMitoxantrone
DB00515glutathione S-transferase pi 1approvedCisplatin
DB00526glutathione S-transferase pi 1approved; investigationalOxaliplatin
DB00531glutathione S-transferase pi 1approved; investigationalCyclophosphamide
DB00958glutathione S-transferase pi 1approvedCarboplatin
DB00762glutathione S-transferase pi 1approved; investigationalIrinotecan
DB00987glutathione S-transferase pi 1approved; investigationalCytarabine
DB00694glutathione S-transferase pi 1approvedDaunorubicin
DB00773glutathione S-transferase pi 1approvedEtoposide
DB00650glutathione S-transferase pi 1approvedLeucovorin
DB01033glutathione S-transferase pi 1approvedMercaptopurine
DB00563glutathione S-transferase pi 1approvedMethotrexate
DB00635glutathione S-transferase pi 1approvedPrednisone
DB00541glutathione S-transferase pi 1approved; investigationalVincristine
DB01042glutathione S-transferase pi 1approvedMelphalan
DB01008glutathione S-transferase pi 1approved; investigationalBusulfan
DB01101glutathione S-transferase pi 1approved; investigationalCapecitabine


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Cross referenced IDs for GSTP1
* 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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