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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PLA2G1B |
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Phenotypic Information for PLA2G1B(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PLA2G1B |
Familial Cancer Database: PLA2G1B |
* 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 KEGG_ARACHIDONIC_ACID_METABOLISM KEGG_LINOLEIC_ACID_METABOLISM KEGG_ALPHA_LINOLENIC_ACID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | 172410; gene. |
Orphanet | |
Disease | KEGG Disease: PLA2G1B |
MedGen: PLA2G1B (Human Medical Genetics with Condition) | |
ClinVar: PLA2G1B | |
Phenotype | MGI: PLA2G1B (International Mouse Phenotyping Consortium) |
PhenomicDB: PLA2G1B |
Mutations for PLA2G1B |
* 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 PLA2G1B 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 |
BP323855 | TUBGCP3 | 1 | 403 | 13 | 113158346 | 113159210 | PLA2G1B | 404 | 580 | 12 | 120763707 | 120765582 | |
BM926419 | PLA2G1B | 18 | 222 | 12 | 120763772 | 120763976 | TIPIN | 222 | 778 | 15 | 66641655 | 66649113 |
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=5) | (# total SNVs=3) |
(# 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 |
chr12:120763699-120763699 | p.L53F | 3 |
chr12:120759997-120759997 | p.*149L | 1 |
chr12:120763747-120763747 | p.G37G | 1 |
chr12:120760022-120760022 | p.D141N | 1 |
chr12:120763749-120763749 | p.G37R | 1 |
chr12:120760025-120760025 | p.L140L | 1 |
chr12:120765521-120765521 | p.? | 1 |
chr12:120760042-120760042 | p.N134T | 1 |
chr12:120765537-120765537 | p.A7V | 1 |
chr12:120760065-120760065 | p.I126M | 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 |   | 1 |   | 1 |   |   |   |   |   |   |   | 2 |   |   |   |   | 2 |   |   |   |
# mutation |   | 1 |   | 1 |   |   |   |   |   |   |   | 3 |   |   |   |   | 2 |   |   |   |
nonsynonymous SNV |   |   |   | 1 |   |   |   |   |   |   |   | 2 |   |   |   |   | 2 |   |   |   |
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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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 |
chr12:120760022 | p.D141N | 1 |
chr12:120762744 | p.T105T | 1 |
chr12:120762795 | p.D88E | 1 |
chr12:120763747 | p.G37G | 1 |
chr12:120763750 | p.P36P | 1 |
chr12:120763793 | p.R22L | 1 |
chr12:120765537 | p.A7V | 1 |
chr12:120765547 | p.L4I | 1 |
Other DBs for Point Mutations |
Copy Number for PLA2G1B 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 PLA2G1B |
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 |
CELA2B,CELA3A,CELA3B,CLPS,CPA1,CPA2,CTRB1, CTRB2,CTRC,ENAM,KCTD4,PLA2G1B,PNLIP,PNLIPRP1, PPP2R1B,REG1B,REG3A,SCGB3A1,SMOC2,SYCN,UCN3 | BEND5,CAPZA3,CCDC34,FGFBP3,LAMB2P1,LOC202781,LOC25845, LOC400752,NPM2,OVOL2,PATZ1,PDCD4,PDZK1IP1,PLA2G1B, SCNN1G,SLC25A41,TMEM87A,TMPRSS2,TRAM1L1,ZNF263,ZNF766 | ||||
AMY2A,C11orf40,BPIFB3,NAT16,CELA2A,CELA2B,CELA3A, CELA3B,CLPS,CPA1,CPB1,CTRB1,CTRB2,CTRC, OPRM1,PCDH19,PLA2G1B,PNLIP,PNLIPRP1,PSG8,SYCN | ALDOC,BST1,SLC25A47,C3orf35,MB21D2,CIB2,F11, FAM3C,MYH7,PFKFB4,PLA2G1B,PNLIP,PNLIPRP2,SERPINA1, SLC5A11,TCP10L2,TM4SF5,TMEM41A,TMEM92,TMPRSS7,UNC93A |
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 PLA2G1B |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Chemistry | BindingDB | P04054; -. |
Chemistry | ChEMBL | CHEMBL4426; -. |
Organism-specific databases | PharmGKB | PA33361; -. |
Organism-specific databases | CTD | 5319; -. |
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 |
DB02210 | phospholipase A2, group IB (pancreas) | experimental | Hexane-1,6-Diol | ||
DB02448 | phospholipase A2, group IB (pancreas) | experimental | N-Tridecanoic Acid | ||
DB02659 | phospholipase A2, group IB (pancreas) | experimental | Cholic Acid | ||
DB02795 | phospholipase A2, group IB (pancreas) | experimental | P-Anisic Acid | ||
DB02938 | phospholipase A2, group IB (pancreas) | experimental | Heptanoic Acid | ||
DB02944 | phospholipase A2, group IB (pancreas) | experimental | Alpha-D-Mannose | ||
DB03565 | phospholipase A2, group IB (pancreas) | experimental | 1-O-Octyl-2-Heptylphosphonyl-Sn-Glycero-3-Phosphoethanolamine | ||
DB03587 | phospholipase A2, group IB (pancreas) | experimental | Pyruvoyl Group | ||
DB03633 | phospholipase A2, group IB (pancreas) | experimental | Lpc-Ether | ||
DB04552 | phospholipase A2, group IB (pancreas) | approved | Niflumic Acid | ||
DB07657 | phospholipase A2, group IB (pancreas) | experimental | PHOSPHONIC ACID 2-DODECANOYLAMINO-HEXYL ESTER PROPYL ESTER | ||
DB07836 | phospholipase A2, group IB (pancreas) | experimental | 1-DECYL-3-TRIFLUORO ETHYL-SN-GLYCERO-2-PHOSPHOMETHANOL | ||
DB00917 | phospholipase A2, group IB (pancreas) | approved | Dinoprostone | ||
DB01240 | phospholipase A2, group IB (pancreas) | approved | Epoprostenol |
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Cross referenced IDs for PLA2G1B |
* 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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