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 PPP2R1B
Basic gene info.Gene symbolPPP2R1B
Gene nameprotein phosphatase 2, regulatory subunit A, beta
SynonymsPP2A-Abeta|PR65B
CytomapUCSC genome browser: 11q23.2
Genomic locationchr11 :111597631-111637169
Type of geneprotein-coding
RefGenesNM_001177562.1,
NM_001177563.1,NM_002716.4,NM_181699.2,NM_181700.1,
Ensembl idENSG00000262764
DescriptionPP2A, subunit A, PR65-beta isoformPP2A, subunit A, R1-beta isoformprotein phosphatase 2 (formerly 2A), regulatory subunit A, beta isoformprotein phosphatase 2, structural/regulatory subunit A, betaserine/threonine-protein phosphatase 2A 65 kDa regulat
Modification date20141207
dbXrefs MIM : 603113
HGNC : HGNC
Ensembl : ENSG00000137713
HPRD : 04384
Vega : OTTHUMG00000166741
ProteinUniProt: P30154
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PPP2R1B
BioGPS: 5519
Gene Expression Atlas: ENSG00000262764
The Human Protein Atlas: ENSG00000262764
PathwayNCI Pathway Interaction Database: PPP2R1B
KEGG: PPP2R1B
REACTOME: PPP2R1B
ConsensusPathDB
Pathway Commons: PPP2R1B
MetabolismMetaCyc: PPP2R1B
HUMANCyc: PPP2R1B
RegulationEnsembl's Regulation: ENSG00000262764
miRBase: chr11 :111,597,631-111,637,169
TargetScan: NM_001177562
cisRED: ENSG00000262764
ContextiHOP: PPP2R1B
cancer metabolism search in PubMed: PPP2R1B
UCL Cancer Institute: PPP2R1B
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for PPP2R1B(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PPP2R1B
Familial Cancer Database: PPP2R1B
* 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
REACTOME_INTEGRATION_OF_ENERGY_METABOLISM
REACTOME_METABOLISM_OF_CARBOHYDRATES
REACTOME_GLUCOSE_METABOLISM

check002.gifOthers
OMIM 603113; gene.
603113; gene.
Orphanet
DiseaseKEGG Disease: PPP2R1B
MedGen: PPP2R1B (Human Medical Genetics with Condition)
ClinVar: PPP2R1B
PhenotypeMGI: PPP2R1B (International Mouse Phenotyping Consortium)
PhenomicDB: PPP2R1B

Mutations for PPP2R1B
* 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 PPP2R1B related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BG562569TAT1339167160128671601625PPP2R1B33378111111610550111611006
BQ329687PPP2R1B1811411111610247111610344NHP2L1108366224207019542070449
BE564406LAD11621201355560201355621PPP2R1B5059611111611769111612317

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample        1        
GAIN (# sample)        1        
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

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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=36)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
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
chr11:111612831-111612831p.L579L2
chr11:111624171-111624171p.D387G2
chr11:111613292-111613292p.N551S2
chr11:111618707-111618707p.S457F2
chr11:111614213-111614213p.L481V2
chr11:111637038-111637038p.G16G1
chr11:111623033-111623033p.I396M1
chr11:111625800-111625800p.P288S1
chr11:111614250-111614250p.Y468Y1
chr11:111631718-111631718p.E122*1

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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
# sample4 152 2 4  7311 3715
# mutation4 152 2 4  9311 3817
nonsynonymous SNV3  42 2 1  5211 34 5
synonymous SNV1 11    3  41    412
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
chr11:111618707p.S330F,PPP2R1B2
chr11:111612831p.R184R,PPP2R1B2
chr11:111625731p.L452L,PPP2R1B2
chr11:111626023p.R40R,PPP2R1B1
chr11:111614227p.D325H,PPP2R1B1
chr11:111636056p.P170P,PPP2R1B1
chr11:111624222p.Q38R,PPP2R1B1
chr11:111626048p.E322A,PPP2R1B1
chr11:111614250p.S153L,PPP2R1B1
chr11:111636068p.E31K,PPP2R1B1

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 PPP2R1B 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 PPP2R1B

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

ALDOB,ALG9,ANKFN1,ARCN1,C11orf57,SPX,CHRNA2,
CPE,DAAM2,DLAT,ENAM,GNMT,KCTD4,NR5A1,
PPP2R1B,PRKACB,SAMD13,SIK2,SMOC2,UCN3,ZNF836
APOL6,CLMP,ASPA,BTD,DMGDH,DOCK11,EHBP1,
FERMT2,GLYAT,HRASLS5,LAMA4,LOC339524,MMD,MRAS,
PALMD,PPP2R1B,SAR1A,SEPT11,SORBS1,TSPAN3,VKORC1L1

AASDHPPT,ALG9,C11orf54,C11orf57,CHEK1,CUL5,DLAT,
EED,FAM76B,MPZL2,NPAT,NUP160,PPP2R1B,PPP6R3,
SC5D,SDHD,THUMPD3,TMEM135,UBE4A,USP28,ZW10
ACTR2,AP1G1,CDH17,CEBPG,CMAS,CORO2A,EPCAM,
F11R,GPD2,KIF16B,LIMA1,MYO6,NIPA2,PDCD6IP,
PPP2R1B,RAB14,RBM47,RNF6,PTBP3,VDAC1,YWHAB
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 PPP2R1B


There's no related Drug.
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Cross referenced IDs for PPP2R1B
* 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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