Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 PRKACG
Basic gene info.Gene symbolPRKACG
Gene nameprotein kinase, cAMP-dependent, catalytic, gamma
SynonymsKAPG|PKACg
CytomapUCSC genome browser: 9q13
Genomic locationchr9 :71627448-71629039
Type of geneprotein-coding
RefGenesNM_002732.3,
Ensembl idENSG00000165059
DescriptionPKA C-gammacAMP-dependent protein kinase catalytic subunit gammaserine(threonine) protein kinase
Modification date20141207
dbXrefs MIM : 176893
HGNC : HGNC
Ensembl : ENSG00000165059
HPRD : 01483
Vega : OTTHUMG00000019974
ProteinUniProt: P22612
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PRKACG
BioGPS: 5568
Gene Expression Atlas: ENSG00000165059
The Human Protein Atlas: ENSG00000165059
PathwayNCI Pathway Interaction Database: PRKACG
KEGG: PRKACG
REACTOME: PRKACG
ConsensusPathDB
Pathway Commons: PRKACG
MetabolismMetaCyc: PRKACG
HUMANCyc: PRKACG
RegulationEnsembl's Regulation: ENSG00000165059
miRBase: chr9 :71,627,448-71,629,039
TargetScan: NM_002732
cisRED: ENSG00000165059
ContextiHOP: PRKACG
cancer metabolism search in PubMed: PRKACG
UCL Cancer Institute: PRKACG
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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

check002.gifOthers
OMIM 176893; gene.
Orphanet
DiseaseKEGG Disease: PRKACG
MedGen: PRKACG (Human Medical Genetics with Condition)
ClinVar: PRKACG
PhenotypeMGI: PRKACG (International Mouse Phenotyping Consortium)
PhenomicDB: PRKACG

Mutations for PRKACG
* 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 PRKACG 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
There's no copy number variation information in COSMIC data for this gene.

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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=48)
Stat. for Synonymous SNVs
(# total SNVs=20)
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
chr9:71628115-71628115p.F298F4
chr9:71628152-71628152p.R286K3
chr9:71628097-71628097p.I304I3
chr9:71628114-71628114p.A299T3
chr9:71628435-71628435p.V192M3
chr9:71628877-71628877p.F44F3
chr9:71628130-71628130p.K293N2
chr9:71628021-71628021p.D330N2
chr9:71628385-71628385p.P208P2
chr9:71628289-71628289p.Y240Y2

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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
# sample13 11  3 2  211 1177 12
# mutation13 10  3 2  211 1198 12
nonsynonymous SNV 1 6  1 2  211  85 8
synonymous SNV12 4  2        1113 4
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
chr9:71628877p.I304I3
chr9:71628097p.F44F3
chr9:71628979p.T10T2
chr9:71628021p.A299T2
chr9:71628409p.C200C2
chr9:71628435p.K293K2
chr9:71628059p.V192M2
chr9:71628866p.I175I2
chr9:71628114p.R48K2
chr9:71628484p.D330N2

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 PRKACG 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 PRKACG

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

CLRN2,KRTAP19-2,KRTAP25-1,KRTAP6-1,MUC17,OPRM1,OR11A1,
OR13F1,OR4C16,OR4L1,OR5AP2,OR5D18,OR5L2,OR6C65,
OR6C75,OR8H3,POM121L12,PRKACG,REG1P,TAAR2,TAAR5
SLC35G3,AMZ2P1,CCDC70,CSNK1A1P1,DPPA2,ELMOD1,GLT6D1,
KRTAP9-4,LILRP2,OR10G3,OR2T2,OR4A5,OR5F1,OR7G3,
OR8H2,PRB1,PRKACG,RAB9BP1,SNORA32,SNORA71C,SVOP

BMPER,NAT16,CCDC144NL,CTAG1B,CTXN3,DYNLL2,KCNIP4,
KRTAP10-10,KRTAP10-5,LOC389493,LOC572558,OR51B4,OR52D1,POTEH,
PRKACG,SLC10A4,SLC6A11,TMEM213,UBE2U,WDR87,ZNF492
SLC35G3,BEND2,LINC00305,SSMEM1,CD300LD,FAM74A4,GAGE10,
LRIT1,MSX2P1,NXF4,OR52E6,PAPOLB,PLCZ1,PRKACG,
SCARNA16,SLC22A24,SLC9C2,SPRR2G,STRA8,TRIM24,UBASH3B,
ZN
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 PRKACG
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryChEMBL CHEMBL2094138; -.
ChemistryGuidetoPHARMACOLOGY 1478; -.
Organism-specific databasesPharmGKB PA33750; -.
Organism-specific databasesCTD 5568; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00125protein kinase, cAMP-dependent, catalytic, gammaapproved; nutraceuticalL-Arginine
DB00155protein kinase, cAMP-dependent, catalytic, gammaapproved; nutraceuticalL-Citrulline
DB00435protein kinase, cAMP-dependent, catalytic, gammaapprovedNitric Oxide
DB00988protein kinase, cAMP-dependent, catalytic, gammaapprovedDopamine
DB00171protein kinase, cAMP-dependent, catalytic, gammaapproved; nutraceuticalAdenosine triphosphate
DB00770protein kinase, cAMP-dependent, catalytic, gammaapproved; investigationalAlprostadil
DB00668protein kinase, cAMP-dependent, catalytic, gammaapprovedEpinephrine
DB00131protein kinase, cAMP-dependent, catalytic, gammaapproved; nutraceuticalAdenosine monophosphate
DB00396protein kinase, cAMP-dependent, catalytic, gammaapprovedProgesterone
DB00938protein kinase, cAMP-dependent, catalytic, gammaapprovedSalmeterol


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Cross referenced IDs for PRKACG
* 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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