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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PLA2G10 |
Basic gene info. | Gene symbol | PLA2G10 |
Gene name | phospholipase A2, group X | |
Synonyms | GXPLA2|GXSPLA2|SPLA2 | |
Cytomap | UCSC genome browser: 16p13.1-p12 | |
Genomic location | chr16 :14766404-14788526 | |
Type of gene | protein-coding | |
RefGenes | NM_003561.1, | |
Ensembl id | ENSG00000069764 | |
Description | GX sPLA2group 10 secretory phospholipase A2group X secretory phospholipase A2phosphatidylcholine 2-acylhydrolase 10sPLA2-X | |
Modification date | 20141207 | |
dbXrefs | MIM : 603603 | |
HGNC : HGNC | ||
Ensembl : ENSG00000069764 | ||
HPRD : 04674 | ||
Vega : OTTHUMG00000048069 | ||
Protein | UniProt: O15496 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PLA2G10 | |
BioGPS: 8399 | ||
Gene Expression Atlas: ENSG00000069764 | ||
The Human Protein Atlas: ENSG00000069764 | ||
Pathway | NCI Pathway Interaction Database: PLA2G10 | |
KEGG: PLA2G10 | ||
REACTOME: PLA2G10 | ||
ConsensusPathDB | ||
Pathway Commons: PLA2G10 | ||
Metabolism | MetaCyc: PLA2G10 | |
HUMANCyc: PLA2G10 | ||
Regulation | Ensembl's Regulation: ENSG00000069764 | |
miRBase: chr16 :14,766,404-14,788,526 | ||
TargetScan: NM_003561 | ||
cisRED: ENSG00000069764 | ||
Context | iHOP: PLA2G10 | |
cancer metabolism search in PubMed: PLA2G10 | ||
UCL Cancer Institute: PLA2G10 | ||
Assigned class in ccmGDB | A - This gene has a literature evidence and it belongs to cancer gene. | |
References showing role of PLA2G10 in cancer cell metabolism | 1. Liesenfeld DB, Grapov D, Fahrmann JF, Salou M, Scherer D, et al. (2015) Metabolomics and transcriptomics identify pathway differences between visceral and subcutaneous adipose tissue in colorectal cancer patients: the ColoCare study. The American Journal of Clinical Nutrition: ajcn103804. go to article |
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Phenotypic Information for PLA2G10(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PLA2G10 |
Familial Cancer Database: PLA2G10 |
* This gene is included in those cancer gene databases. |
. | ||||||||||||||||||||
Oncogene 1 | Significant driver gene in |
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/ |
Metabolic 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 |
Others | |
OMIM | 603603; gene. |
Orphanet | |
Disease | KEGG Disease: PLA2G10 |
MedGen: PLA2G10 (Human Medical Genetics with Condition) | |
ClinVar: PLA2G10 | |
Phenotype | MGI: PLA2G10 (International Mouse Phenotyping Consortium) |
PhenomicDB: PLA2G10 |
Mutations for PLA2G10 |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PLA2G10 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
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Copy 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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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=0) | (# total SNVs=0) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 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 position | Mutation(aa) | Unique sampleID count |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   |   |   |   |   |   |   |   |   |   |   | 3 |   |   |   |   |   | 1 |   |   |
# mutation |   |   |   |   |   |   |   |   |   |   |   | 3 |   |   |   |   |   | 1 |   |   |
nonsynonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   | 1 |   |   |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 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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Top 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 Position | Mutation(aa) | Unique sampleID count |
chr16:14766485 | p.P159P | 1 |
chr16:14766512 | p.L150L | 1 |
chr16:14766538 | p.Q142K | 1 |
chr16:14766560 | p.Q134H | 1 |
Other DBs for Point Mutations |
Copy Number for PLA2G10 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 PLA2G10 |
Gene 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. |
Differential 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-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 |
ASIC3,ASIC4,C16orf92,MISP,SYCE3,C2orf81,CIB3, MZT2A,FLYWCH2,HMG20B,IER2,KIF22,KLF2,MVP, NPW,NR2F6,PLA2G10,PP14571,PYCARD,UCN,ZNF688 | BAAT,CDHR2,CEACAM5,CEACAM6,GKN2,KRTAP13-1,MAGEA4, NAPSA,NKX2-1,PAEP,PLA2G10,BPIFA1,PSAPL1,SCGB3A2, SFTA2,SFTA3,SFTPB,SLC26A9,SPINK1,TM4SF20,TM4SF5 |
ATP2A3,BCAS1,CAPN5,CDHR5,CLDN23,CTSE,DHRS9, GDPD2,GDPD3,FAM214B,LOC646627,MARVELD3,MGLL,MMP28, MYPN,PLA2G10,ST6GALNAC6,TSPAN1,VILL,VSIG1,VSIG2 | ACVRL1,ARF1,C12orf75,CANT1,CTSS,DHX32,DIRC2, FAM3D,FKBP1A,GALE,GIPC1,FFAR4,HIST1H3H,ITM2C, KCNK1,MAGIX,PARM1,PLA2G10,TBC1D10A,TOR2A,TSPAN15 |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for PLA2G10 |
There's no related Drug. |
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Cross referenced IDs for PLA2G10 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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