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 PIK3C2G
Basic gene info.Gene symbolPIK3C2G
Gene namephosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 gamma
SynonymsPI3K-C2-gamma|PI3K-C2GAMMA
CytomapUCSC genome browser: 12p12
Genomic locationchr12 :18414473-18801352
Type of geneprotein-coding
RefGenesNM_001288772.1,
NM_001288774.1,NM_004570.5,
Ensembl idENSG00000139144
DescriptionPTDINS-3-kinase C2 gammaphosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit gammaphosphatidylinositol-4-phosphate 3-kinase C2 domain-containing gamma polypeptidephosphatidylinositol-4-phosphate 3-kinase C2 domain-containing subunit g
Modification date20141207
dbXrefs MIM : 609001
HGNC : HGNC
Ensembl : ENSG00000139144
HPRD : 16416
Vega : OTTHUMG00000168841
ProteinUniProt: O75747
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PIK3C2G
BioGPS: 5288
Gene Expression Atlas: ENSG00000139144
The Human Protein Atlas: ENSG00000139144
PathwayNCI Pathway Interaction Database: PIK3C2G
KEGG: PIK3C2G
REACTOME: PIK3C2G
ConsensusPathDB
Pathway Commons: PIK3C2G
MetabolismMetaCyc: PIK3C2G
HUMANCyc: PIK3C2G
RegulationEnsembl's Regulation: ENSG00000139144
miRBase: chr12 :18,414,473-18,801,352
TargetScan: NM_001288772
cisRED: ENSG00000139144
ContextiHOP: PIK3C2G
cancer metabolism search in PubMed: PIK3C2G
UCL Cancer Institute: PIK3C2G
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for PIK3C2G(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PIK3C2G
Familial Cancer Database: PIK3C2G
* 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_INOSITOL_PHOSPHATE_METABOLISM
REACTOME_PHOSPHOLIPID_METABOLISM
REACTOME_PI_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM 609001; gene.
Orphanet
DiseaseKEGG Disease: PIK3C2G
MedGen: PIK3C2G (Human Medical Genetics with Condition)
ClinVar: PIK3C2G
PhenotypeMGI: PIK3C2G (International Mouse Phenotyping Consortium)
PhenomicDB: PIK3C2G

Mutations for PIK3C2G
* 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

- Statistics for Tissue and Mutation typeTop
- For Inter-chromosomal Variations
There's no inter-chromosomal structural variation.
- For Intra-chromosomal Variations
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
liverPIK3C2Gchr121844163218441632chr121883354318833543
ovaryPIK3C2Gchr121861216518612185PIK3C2Gchr121860240118602421
ovaryPIK3C2Gchr121878361918783639PIK3C2Gchr121878387418783894
pancreasPIK3C2Gchr121843811518438135PIK3C2Gchr121843820818438228
pancreasPIK3C2Gchr121845619218456212PIK3C2Gchr121842344718423467
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PIK3C2G 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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample62    3 1 2  14 1
GAIN (# sample)62    2 1 2  14 1
LOSS (# sample)      1          
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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=145)
Stat. for Synonymous SNVs
(# total SNVs=38)
Stat. for Deletions
(# total SNVs=3)
Stat. for Insertions
(# total SNVs=1)

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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
chr12:18552663-18552663p.P692S4
chr12:18443909-18443909p.I294I3
chr12:18573884-18573884p.D734D3
chr12:18446881-18446881p.C322W3
chr12:18573894-18573894p.R738C3
chr12:18716344-18716344p.E1231K3
chr12:18435178-18435178p.E55*3
chr12:18435035-18435035p.T7M2
chr12:18691166-18691166p.Q1093*2
chr12:18435201-18435202p.V65fs*162

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample2412115 7 61 1595  398113
# mutation2411917 7 61 1595  478117
nonsynonymous SNV2311213 5 21 1472  377114
synonymous SNV 1 84 2 4  123  101 3
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
chr12:18443909p.I294I,PIK3C2G3
chr12:18658236p.N1014S,PIK3C2G3
chr12:18573884p.D734D,PIK3C2G3
chr12:18573894p.A789V,PIK3C2G2
chr12:18762521p.I835M,PIK3C2G2
chr12:18800840p.R1069Q,PIK3C2G2
chr12:18435178p.G1086G,PIK3C2G2
chr12:18576958p.E55K,PIK3C2G2
chr12:18641506p.E1339E,PIK3C2G2
chr12:18691095p.E1231K,PIK3C2G2

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 PIK3C2G 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 PIK3C2G

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

ARL4A,CAPZA3,CLDN19,DST,ECEL1,FAM13A,FAM196B,
FRZB,GPM6B,GRAMD3,KIT,KLHL13,KY,NFIB,
PAK7,PIK3C2G,RERGL,SAMD5,SFRP1,TCF7L2,TSLP
ABI2,COG3,DSC2,EHF,ESYT3,GRHL1,KIAA1671,
KIAA1804,KIT,LY75,MCTP2,METAP1,NEBL,NSUN7,
PIK3C2G,RPS6KA5,SUDS3,TFAP2C,TRIM2,ZNF33B,ZNF711

AFM,APOH,CYP4F30P,C3orf20,C5,CCKAR,DEFA5,
DEFA6,ESRRB,GC,GP2,PCDHA13,PCDHA1,PCDHB1,
PIK3C2G,PPP1R3A,PRLHR,RANBP2,RIMBP2,SCGB1A1,SEC11C
ABCC2,DAB1,DNASE1,GSTA1,HTR1D,LRAT,MME,
MTTP,NR0B2,OAT,PIK3C2G,PLB1,PRODH,REEP6,
SEC14L2,SI,SLC34A3,SLC5A4,SOAT2,SULT2A1,ZNF488
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 PIK3C2G


There's no related Drug.
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Cross referenced IDs for PIK3C2G
* 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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