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 CCT5
Basic gene info.Gene symbolCCT5
Gene namechaperonin containing TCP1, subunit 5 (epsilon)
SynonymsCCT-epsilon|CCTE|HEL-S-69|TCP-1-epsilon
CytomapUCSC genome browser: 5p15.2
Genomic locationchr5 :10250281-10266501
Type of geneprotein-coding
RefGenesNM_012073.3,
Ensembl idENSG00000150753
DescriptionT-complex protein 1 subunit epsilonT-complex protein 1, epsilon subunitepididymis secretory protein Li 69
Modification date20141222
dbXrefs MIM : 610150
HGNC : HGNC
Ensembl : ENSG00000150753
HPRD : 06468
Vega : OTTHUMG00000131042
ProteinUniProt: P48643
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CCT5
BioGPS: 22948
Gene Expression Atlas: ENSG00000150753
The Human Protein Atlas: ENSG00000150753
PathwayNCI Pathway Interaction Database: CCT5
KEGG: CCT5
REACTOME: CCT5
ConsensusPathDB
Pathway Commons: CCT5
MetabolismMetaCyc: CCT5
HUMANCyc: CCT5
RegulationEnsembl's Regulation: ENSG00000150753
miRBase: chr5 :10,250,281-10,266,501
TargetScan: NM_012073
cisRED: ENSG00000150753
ContextiHOP: CCT5
cancer metabolism search in PubMed: CCT5
UCL Cancer Institute: CCT5
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for CCT5(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: CCT5
Familial Cancer Database: CCT5
* 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 256840; phenotype.
610150; gene.
Orphanet 139578; Hereditary sensory and autonomic neuropathy with spastic paraplegia.
DiseaseKEGG Disease: CCT5
MedGen: CCT5 (Human Medical Genetics with Condition)
ClinVar: CCT5
PhenotypeMGI: CCT5 (International Mouse Phenotyping Consortium)
PhenomicDB: CCT5

Mutations for CCT5
* 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 CCT5 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AW105324SEC61A111933127790242127790434CCT519031551026266210263302
BU160000CCT51510751026259210262684CCT510871751026266010265125
BE078213CCT5935051025606610258363CCT535147851025855010260932

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=40)
Stat. for Synonymous SNVs
(# total SNVs=15)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.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
chr5:10262702-10262702p.A430V3
chr5:10263331-10263331p.M468R2
chr5:10263358-10263358p.V477D2
chr5:10262705-10262705p.L431Q2
chr5:10261684-10261684p.A336T2
chr5:10258621-10258621p.E283*1
chr5:10254889-10254889p.L90L1
chr5:10261739-10261739p.G354D1
chr5:10256204-10256204p.V157F1
chr5:10262693-10262693p.I427T1

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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=4

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample41 121 4 11 423 165 7
# mutation41 91 4 11 823 165 10
nonsynonymous SNV31 61 3  1 513  54 6
synonymous SNV1  3  1 1  31  111 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
chr5:10261684p.A336T3
chr5:10262702p.L431Q2
chr5:10262705p.A430V2
chr5:10260965p.A8T1
chr5:10254942p.K150N1
chr5:10262642p.I341I1
chr5:10256236p.L431V1
chr5:10263288p.D10H1
chr5:10254948p.T162T1
chr5:10262652p.T349I1

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 CCT5 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 CCT5

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

BIRC5,BRIX1,CCNB1,CCNB2,CCT5,CDC25A,CLPTM1L,
EPR1,FANCB,KIF20A,KIF2C,KIF4A,MRPL36,NSUN2,
ORC1,PAPD7,PLK1,SKP2,TARS,TPX2,TRIP13
AHSA1,HYPK,C1QBP,CCT5,CCT6A,CCT7,CDC123,
CIAPIN1,DCTN2,DNAJC7,EIF5A,EIF5AL1,GARS,HSPA8,
MRPL24,NME1,RAN,SEC13,TARS,TXNL4A,YARS

BRIX1,CMSS1,CCNB1,CCT2,CCT5,CIRH1A,FAM173B,
FASTKD3,MED10,MRPL36,MRPS30,NDUFS6,NSUN2,NUP37,
PAIP1,PDCD6,RAD1,SUB1,TARS,TRIP13,WDR70
CCT5,CCT6A,CCT8,CDC6,DNAJC9,EIF4A1,EIF4A3,
GGCT,GINS2,HNRNPF,LRRC59,PCNA,POLE2,PSME3,
RANBP1,RPN1,TRA2B,TXNL4A,UBE2T,UMPS,VRK1
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 CCT5


There's no related Drug.
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Cross referenced IDs for CCT5
* 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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