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 PLA2G5
Basic gene info.Gene symbolPLA2G5
Gene namephospholipase A2, group V
SynonymsFRFB|GV-PLA2|PLA2-10|hVPLA(2)
CytomapUCSC genome browser: 1p36-p34
Genomic locationchr1 :20396700-20418394
Type of geneprotein-coding
RefGenesNM_000929.2,
Ensembl idENSG00000127472
DescriptionCa2+-dependent phospholipase A2calcium-dependent phospholipase A2phosphatidylcholine 2-acylhydrolase 5
Modification date20141207
dbXrefs MIM : 601192
HGNC : HGNC
Ensembl : ENSG00000127472
HPRD : 03117
Vega : OTTHUMG00000002698
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PLA2G5
BioGPS: 5322
Gene Expression Atlas: ENSG00000127472
The Human Protein Atlas: ENSG00000127472
PathwayNCI Pathway Interaction Database: PLA2G5
KEGG: PLA2G5
REACTOME: PLA2G5
ConsensusPathDB
Pathway Commons: PLA2G5
MetabolismMetaCyc: PLA2G5
HUMANCyc: PLA2G5
RegulationEnsembl's Regulation: ENSG00000127472
miRBase: chr1 :20,396,700-20,418,394
TargetScan: NM_000929
cisRED: ENSG00000127472
ContextiHOP: PLA2G5
cancer metabolism search in PubMed: PLA2G5
UCL Cancer Institute: PLA2G5
Assigned class in ccmGDBC

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Phenotypic Information for PLA2G5(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PLA2G5
Familial Cancer Database: PLA2G5
* 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_GLYCEROPHOSPHOLIPID_METABOLISM
KEGG_ARACHIDONIC_ACID_METABOLISM
KEGG_LINOLEIC_ACID_METABOLISM
KEGG_ALPHA_LINOLENIC_ACID_METABOLISM
REACTOME_PHOSPHOLIPID_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: PLA2G5
MedGen: PLA2G5 (Human Medical Genetics with Condition)
ClinVar: PLA2G5
PhenotypeMGI: PLA2G5 (International Mouse Phenotyping Consortium)
PhenomicDB: PLA2G5

Mutations for PLA2G5
* 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 PLA2G5 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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=13)
Stat. for Synonymous SNVs
(# total SNVs=7)
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
chr1:20412659-20412659p.G42R2
chr1:20411332-20411332p.G3G2
chr1:20417110-20417110p.L114L2
chr1:20416366-20416366p.F90F2
chr1:20412612-20412612p.K26R1
chr1:20416369-20416369p.A91A1
chr1:20412625-20412625p.E30E1
chr1:20416375-20416375p.G93G1
chr1:20412644-20412644p.A37T1
chr1:20416376-20416376p.V94M1

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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       321 131 3
# mutation   2       321 131 3
nonsynonymous SNV   1        21 111 1
synonymous SNV   1       3    2  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
chr1:20416366p.F90F2
chr1:20416369p.A91A2
chr1:20412659p.G93G1
chr1:20412680p.L114L1
chr1:20412716p.Y116Y1
chr1:20411351p.R123Q1
chr1:20411358p.F10V1
chr1:20416375p.A12V1
chr1:20412576p.S14N1
chr1:20417110p.V15V1

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 PLA2G5 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 PLA2G5

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,AGR2___C11orf96,MGARP,CFH,CHST7,DEFA1B,DEFA4,
EMILIN1,HPCAL4,HSD3B1,HSD3B2,IL5RA,KLHL4,MRAP,
MRC2,MRO,PLA2G5,SEMA3A,SEMA7A,TMEM225,ZDHHC19
ACVRL1,C10orf54,C1QTNF2,CD34,CYGB,F10,FBLN1,
GRK5,IL15RA,KIF17,LHFP,LRRN4CL,MAN1C1,MAP1LC3C,
MFAP4,MSX1,PLA2G5,PODN,TPST1,TSPAN4,WISP2

ACTA2,ANGPTL1,FERMT2,ARHGEF25,HSD17B6,HSPB8,KCNMB1,
LMOD1,LOC399959,MSRB3,MYL9,MYLK,NECAB1,PDLIM3,
PEG3,PLA2G5,PLN,POPDC2,TAGLN,TPM2,WFDC1
AMIGO2,BAG2,COPZ2,FEZ1,GUCY1A3,GUCY1B3,LOC644538,
LRCH2,MRAS,PALLD,PLA2G5,PTBP2,RAB23,RHOQ,
SORBS2,SPG20,STX2,TCEAL4,TEAD2,ZCCHC24,ZEB1
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 PLA2G5


There's no related Drug.
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Cross referenced IDs for PLA2G5
* 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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