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 CCNC
Basic gene info.Gene symbolCCNC
Gene namecyclin C
SynonymsCycC
CytomapUCSC genome browser: 6q21
Genomic locationchr6 :99990262-100016690
Type of geneprotein-coding
RefGenesNM_001013399.1,
NM_005190.3,
Ensembl idENSG00000112237
DescriptionSRB11 homologcyclin-ChSRB11
Modification date20141207
dbXrefs MIM : 123838
HGNC : HGNC
Ensembl : ENSG00000112237
HPRD : 00456
Vega : OTTHUMG00000015268
ProteinUniProt: P24863
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CCNC
BioGPS: 892
Gene Expression Atlas: ENSG00000112237
The Human Protein Atlas: ENSG00000112237
PathwayNCI Pathway Interaction Database: CCNC
KEGG: CCNC
REACTOME: CCNC
ConsensusPathDB
Pathway Commons: CCNC
MetabolismMetaCyc: CCNC
HUMANCyc: CCNC
RegulationEnsembl's Regulation: ENSG00000112237
miRBase: chr6 :99,990,262-100,016,690
TargetScan: NM_001013399
cisRED: ENSG00000112237
ContextiHOP: CCNC
cancer metabolism search in PubMed: CCNC
UCL Cancer Institute: CCNC
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of CCNC in cancer cell metabolism1. Sinclair PB, Sorour A, Martineau M, Harrison CJ, Mitchell WA, et al. (2004) A fluorescence in situ hybridization map of 6q deletions in acute lymphocytic leukemia: identification and analysis of a candidate tumor suppressor gene. Cancer Res 64: 4089-4098. doi: 10.1158/0008-5472.CAN-03-1871. go to article
2. Miyata Y, Liu Y, Jankovic V, Sashida G, Lee JM, et al. (2010) Cyclin C regulates human hematopoietic stem/progenitor cell quiescence. Stem Cells 28: 308-317. doi: 10.1002/stem.270. pmid: 3144254. go to article
3. Li N, Fassl A, Chick J, Inuzuka H, Li X, et al. (2014) Cyclin C is a haploinsufficient tumour suppressor. Nat Cell Biol 16: 1080-1091. doi: 10.1038/ncb3046. pmid: 4235773. go to article

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

check002.gifOthers
OMIM 123838; gene.
Orphanet
DiseaseKEGG Disease: CCNC
MedGen: CCNC (Human Medical Genetics with Condition)
ClinVar: CCNC
PhenotypeMGI: CCNC (International Mouse Phenotyping Consortium)
PhenomicDB: CCNC

Mutations for CCNC
* 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 CCNC 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

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample   1  2          
GAIN (# sample)                 
LOSS (# sample)   1  2          
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)

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=0

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=0)
Stat. for Synonymous SNVs
(# total SNVs=0)
There's no ns-snv.There's no s-snv.
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

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

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
# sample11 3    1  21 1113 5
# mutation11 3    1  21 1113 6
nonsynonymous SNV11 3           112 4
synonymous SNV        1  21 1  1 2
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
chr6:100009499p.T66T2
chr6:100009250p.K11T,CCNC1
chr6:99994315p.L103I,CCNC1
chr6:100009259p.L8W,CCNC1
chr6:99994344p.T101T,CCNC1
chr6:100009269p.C5R,CCNC1
chr6:99994346p.V95V,CCNC1
chr6:100009473p.R75M1
chr6:99997389p.Y68C,CCNC1
chr6:100009477p.A74T1

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 CCNC 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 CCNC

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

AKIRIN2,AMD1,ASCC3,ASF1A,MMS22L,CCNC,COQ3,
FBXL4,HDAC2,NDUFAF4,NUS1,ORC3,RARS2,REPS1,
RNGTT,SYNCRIP,TCP1,TTK,USP45,VTA1,ZUFSP
BET1,C18orf32,CCNC,GGPS1,GOLPH3,JKAMP,MARCH5,
NUS1,RAB14,RAB18,SCOC,SERP1,SLMO2,SPTLC1,
SRP9,SSR1,TMED2,TMED7,TMEM33,TMX1,TWF1

AMD1,ATG5,C6orf57,CCNC,COX7A2,CYB5R4,GLRX3,
LSM2,LYRM2,MOB4,NUS1,PDCD10,PDCD2,PPIL1,
PSMD14,RSL24D1,SRSF3,SNRPG,SNX3,TIMM8B,WDR61
ALG5,C14orf119,CCNC,CNIH1,COMMD8,GLRX3,LAMTOR5,
HSBP1,LYPLA1,MED31,MRPL13,MRPL22,MRPL32,MRPL49,
PHF5A,SELT,SEP15,TMEM126B,TXNDC9,VPS29,WDR61
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 CCNC


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