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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PLA2G15 |
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Phenotypic Information for PLA2G15(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PLA2G15 |
Familial Cancer Database: PLA2G15 |
* This gene is included in those cancer gene databases. |
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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 |
Mutations for PLA2G15 |
* 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 PLA2G15 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 |
BQ000365 | PLA2G15 | 19 | 278 | 16 | 68294707 | 68294965 | APBB2 | 274 | 673 | 4 | 41015813 | 41016213 | |
T11609 | SDF4 | 4 | 84 | 1 | 1159256 | 1159336 | PLA2G15 | 70 | 198 | 16 | 68294264 | 68294391 | |
CN480826 | PLA2G15 | 17 | 564 | 16 | 68294413 | 68294961 | CD82 | 559 | 676 | 11 | 44638251 | 44638370 |
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=27) | (# total SNVs=13) |
(# total SNVs=1) | (# total SNVs=2) |
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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 |
chr16:68283280-68283280 | p.Y72C | 3 |
chr16:68293320-68293320 | p.G333G | 2 |
chr16:68288909-68288909 | p.L124L | 2 |
chr16:68293167-68293167 | p.F282F | 2 |
chr16:68289753-68289753 | p.A196V | 1 |
chr16:68293500-68293500 | p.I393I | 1 |
chr16:68293226-68293227 | p.I302>? | 1 |
chr16:68288856-68288856 | p.F107V | 1 |
chr16:68293461-68293461 | p.H380Q | 1 |
chr16:68289811-68289811 | p.W215* | 1 |
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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 |   | 2 |   | 7 | 1 |   | 3 |   | 2 |   |   | 1 | 1 | 2 |   | 1 |   | 8 |   | 2 |
# mutation |   | 2 |   | 5 | 1 |   | 3 |   | 2 |   |   | 1 | 1 | 2 |   | 1 |   | 8 |   | 2 |
nonsynonymous SNV |   | 1 |   | 4 |   |   | 3 |   | 1 |   |   | 1 | 1 | 1 |   |   |   | 5 |   |   |
synonymous SNV |   | 1 |   | 1 | 1 |   |   |   | 1 |   |   |   |   | 1 |   | 1 |   | 3 |   | 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 |
chr16:68283280 | p.Y72C | 3 |
chr16:68293136 | p.P172P | 1 |
chr16:68288909 | p.L410I | 1 |
chr16:68293208 | p.R178C | 1 |
chr16:68289188 | p.A228A | 1 |
chr16:68293237 | p.A241A | 1 |
chr16:68289217 | p.R9G | 1 |
chr16:68293320 | p.N245S | 1 |
chr16:68279354 | p.V43V | 1 |
chr16:68289275 | p.L270L | 1 |
Other DBs for Point Mutations |
Copy Number for PLA2G15 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 PLA2G15 |
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 |
APOE,ATP6V0D1,CCM2,CHPF,CLEC11A,CRYBB1,CTSB, DUS2,EMP3,FHOD1,GPX1,GRN,MGAT1,NAGK, PLA2G15,PRMT7,TMEM208,TRADD,TYROBP,VAC14,VPS4A | ARRB2,C1QC,CD300C,CD68,CTSB,DOK2,DPEP2, FERMT3,HK3,IFI30,ITGB2,LRRC25,NRROS,NFAM1, PILRA,PLA2G15,PLD3,SLC15A3,SPI1,TRPV2,TYROBP | ||||
AEBP1,ARAP1,C16orf86,CMTM3,COL8A2,CTSZ,EFEMP2, GLIS2,ISLR,ITGB5,MRAS,MXRA8,PLA2G15,PSAP, RAB3IL1,RARRES2,RUSC2,SFRP4,THBS2,TNS3,VEGFB | C1QA,C2,M1AP,C3AR1,CD4,CMKLR1,CSF1R, CYTH4,DISC1,GGTA1P,GIMAP1,LAIR1,NRROS,MAFB, NFAM1,NPL,PLA2G15,RASGRP4,SIGLEC1,TMEM86A,TRIM50 |
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 PLA2G15 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB01992 | phospholipase A2, group XV | experimental | Coenzyme A | ||
DB03230 | phospholipase A2, group XV | experimental | Adenosine-5'-Propylphosphate |
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Cross referenced IDs for PLA2G15 |
* 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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