Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 PRKCSH
Basic gene info.Gene symbolPRKCSH
Gene nameprotein kinase C substrate 80K-H
SynonymsAGE-R2|G19P1|PCLD|PKCSH|PLD1
CytomapUCSC genome browser: 19p13.2
Genomic locationchr19 :11546268-11561782
Type of geneprotein-coding
RefGenesNM_001001329.2,
NM_001289102.1,NM_001289103.1,NM_001289104.1,NM_002743.3,
Ensembl idENSG00000130175
DescriptionAGE-binding receptor 2glucosidase 2 subunit betaglucosidase II subunit betahepatocystinprotein kinase C substrate 60.1 kDa protein heavy chainprotein kinase C substrate, 80 Kda protein
Modification date20141207
dbXrefs MIM : 177060
HGNC : HGNC
Ensembl : ENSG00000130175
HPRD : 03518
Vega : OTTHUMG00000182029
ProteinUniProt: P14314
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PRKCSH
BioGPS: 5589
Gene Expression Atlas: ENSG00000130175
The Human Protein Atlas: ENSG00000130175
PathwayNCI Pathway Interaction Database: PRKCSH
KEGG: PRKCSH
REACTOME: PRKCSH
ConsensusPathDB
Pathway Commons: PRKCSH
MetabolismMetaCyc: PRKCSH
HUMANCyc: PRKCSH
RegulationEnsembl's Regulation: ENSG00000130175
miRBase: chr19 :11,546,268-11,561,782
TargetScan: NM_001001329
cisRED: ENSG00000130175
ContextiHOP: PRKCSH
cancer metabolism search in PubMed: PRKCSH
UCL Cancer Institute: PRKCSH
Assigned class in ccmGDBB - This gene belongs to cancer gene.

Top
Phenotypic Information for PRKCSH(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PRKCSH
Familial Cancer Database: PRKCSH
* 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_METABOLISM_OF_PROTEINS

check002.gifOthers
OMIM 174050; phenotype.
177060; gene.
Orphanet 2924; Isolated polycystic liver disease.
DiseaseKEGG Disease: PRKCSH
MedGen: PRKCSH (Human Medical Genetics with Condition)
ClinVar: PRKCSH
PhenotypeMGI: PRKCSH (International Mouse Phenotyping Consortium)
PhenomicDB: PRKCSH

Mutations for PRKCSH
* 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 PRKCSH related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BE938446PRKCSH4144191155624111557903PRKCSH132264191155793711558347
BF746637PRKCSH38112191156008711560161PRKCSH106313191155624811557976
AI467862PRKCSH10150191156164311561783ENC114649457393121073931558
CN412416NDUFA712131983814038386227PRKCSH210566191155624811558406
AA282178PRKCSH6135191156165411561783PURB13133274491908844919289
DB266941LOC1005074121151?112029112179PRKCSH152585191154645211548781
BI001011NFE2L123159174613339246133531PRKCSH156469191155321511557922
AA968638DYSF118627191370871913893PRKCSH178444191155621211558280
AU120749PRKCSH1512191155839111560138PRKCSH511615191154722011547325
BF742989PRKCSH30107191155621211556289MEF2A9330815100250918100252761
BE773523PRKCSH162191155709811557160GANAB55159116240730762407411

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
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.

Top
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

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=44)
Stat. for Synonymous SNVs
(# total SNVs=13)
Stat. for Deletions
(# total SNVs=5)
Stat. for Insertions
(# total SNVs=1)

Top
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
chr19:11558370-11558370p.E322E4
chr19:11558341-11558343p.E313delE3
chr19:11556233-11556233p.E210K2
chr19:11548778-11548778p.N93S2
chr19:11559362-11559362p.E395K2
chr19:11559794-11559794p.T444I2
chr19:11558265-11558265p.T287T2
chr19:11558373-11558373p.E323E1
chr19:11548923-11548923p.V110I1
chr19:11556203-11556203p.?1

Top
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
# sample11152   1  341 324 5
# mutation11152   1  341 324 8
nonsynonymous SNV11 32   1  11  213 7
synonymous SNV  12       231 111 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])

Top
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
chr19:11558373p.E323E,PRKCSH2
chr19:11558317p.Y413Y,PRKCSH1
chr19:11559765p.G73D,PRKCSH1
chr19:11547298p.E414E,PRKCSH1
chr19:11558330p.V92A,PRKCSH1
chr19:11559788p.R423H,PRKCSH1
chr19:11548718p.N114N,PRKCSH1
chr19:11559895p.L424I,PRKCSH1
chr19:11548775p.R135H,PRKCSH1
chr19:11558391p.S431S,PRKCSH1

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 PRKCSH 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]

Top
Gene Expression for PRKCSH

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))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
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

C19orf43,C19orf52,CCDC124,CDC37,COPE,ECSIT,EIF3G,
ELOF1,FARSA,FKBP8,MRPL4,PIN1,PPAN,PRKCSH,
QTRT1,RAD23A,STX10,TMED1,TMEM161A,YIPF2,ZNF653
C9orf114,DDX49,DDX54,EHMT2,FARSA,GTF2F1,HMG20B,
LRRC45,MAN1B1,PES1,PRKCSH,RBM10,RPUSD1,RRP1,
RUVBL2,TCF25,TRIM28,TSC22D4,NELFA,XAB2,XRCC1

AKAP8L,BAG6,EIF3G,FKBP8,FOXA2,FOXP4,GLTSCR2,
LRP5,MED25,PRKCSH,RAB11B,RNF44,SAFB2,SAFB,
SART1,SF3A2,SUGP1,SMARCA4,UBXN1,UPF1,XAB2
ABHD15,AGPAT3,ATG9A,BAG6,CLPTM1,EPN1,GIT1,
INSR,KIAA0195,LRP5,MAP3K11,OS9,P4HA2,POMT1,
PRKCSH,PTPRF,RFX1,SORL1,ZNF592,ZNF687,ZNF768
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

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for PRKCSH


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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas