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 ZFP36
Basic gene info.Gene symbolZFP36
Gene nameZFP36 ring finger protein
SynonymsG0S24|GOS24|NUP475|RNF162A|TIS11|TTP|zfp-36
CytomapUCSC genome browser: 19q13.1
Genomic locationchr19 :39897486-39900045
Type of geneprotein-coding
RefGenesNM_003407.3,
Ensembl idENSG00000128016
DescriptionG0/G1 switch regulatory protein 24growth factor-inducible nuclear protein NUP475tristetraprolintristetraprolinezinc finger protein 36 homologzinc finger protein 36, C3H type, homologzinc finger protein, C3H type, 36 homolog
Modification date20141207
dbXrefs MIM : 190700
HGNC : HGNC
Ensembl : ENSG00000128016
HPRD : 01835
Vega : OTTHUMG00000182970
ProteinUniProt: P26651
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ZFP36
BioGPS: 7538
Gene Expression Atlas: ENSG00000128016
The Human Protein Atlas: ENSG00000128016
PathwayNCI Pathway Interaction Database: ZFP36
KEGG: ZFP36
REACTOME: ZFP36
ConsensusPathDB
Pathway Commons: ZFP36
MetabolismMetaCyc: ZFP36
HUMANCyc: ZFP36
RegulationEnsembl's Regulation: ENSG00000128016
miRBase: chr19 :39,897,486-39,900,045
TargetScan: NM_003407
cisRED: ENSG00000128016
ContextiHOP: ZFP36
cancer metabolism search in PubMed: ZFP36
UCL Cancer Institute: ZFP36
Assigned class in ccmGDBB - This gene belongs to cancer gene.

Top
Phenotypic Information for ZFP36(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ZFP36
Familial Cancer Database: ZFP36
* 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_MRNA
REACTOME_METABOLISM_OF_RNA

check002.gifOthers
OMIM 190700; gene.
Orphanet
DiseaseKEGG Disease: ZFP36
MedGen: ZFP36 (Human Medical Genetics with Condition)
ClinVar: ZFP36
PhenotypeMGI: ZFP36 (International Mouse Phenotyping Consortium)
PhenomicDB: ZFP36

Mutations for ZFP36
* 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
ovaryZFP36chr193989831939898339ZFP36chr193989837839898398
pancreasZFP36chr193989940139899421chr193990189139901911
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 ZFP36 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI927524FUT511161958946915894806ZFP36113357193989879739899042
BF930057ZFP3624332193989950939899819YY1AP13295491155629534155629754
AM287184MYC114328128749879128751310ZFP3614311646193989826039898475
BF853292ATP1A111021116943296116943397ZFP3699202193989881239898915
BF511918PAK41868193966999639670046ZFP3662197193989864339898778
BF094229SLC12A8231843124990872124991033ZFP36175356193989952839899709
BM990034PSMB7182249127115749127115955ZFP36222621193989960339900002

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=3

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=23)
Stat. for Synonymous SNVs
(# total SNVs=8)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
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
chr19:39899162-39899162p.L268L1
chr19:39898488-39898488p.D44Y1
chr19:39898893-39898893p.P179S1
chr19:39899202-39899202p.D282N1
chr19:39898530-39898530p.S58T1
chr19:39898902-39898902p.R182C1
chr19:39897557-39897557p.A5S1
chr19:39899223-39899223p.S289C1
chr19:39898539-39898539p.L61I1
chr19:39898924-39898924p.G189D1

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
# sample1 11  4  1 5111 1111
# mutation1 11  4  1 5111 1112
nonsynonymous SNV1 11  3    3 1  1111
synonymous SNV      1  1 21 1    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
chr19:39898698p.D177Y1
chr19:39899334p.L178L1
chr19:39898771p.G195C1
chr19:39898385p.G195D1
chr19:39898789p.S15S1
chr19:39898388p.S198C1
chr19:39898869p.L16L1
chr19:39898403p.F238L1
chr19:39898874p.P21P1
chr19:39898420p.L274L1

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 ZFP36 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 ZFP36

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

CYR61,EGR1,EVC,GAS7,GEM,GLI2,GPR124,
ITPRIP,JUN,LRP1,MFAP4,PEAR1,PHLDB1,PODN,
RHOJ,TGFB3,TSHZ3,YAP1,ZFP36,ZFP36L1,ZFP36L2
ATF3,BCL10,CHIC2,CXCL2,DUSP1,DUSP5,EGR1,
FOS,ID2,LPAR6,NFKBIZ,NR4A2,PTGS2,RAB2B,
SERTAD2,TBPL1,TMEM170A,TNFSF10,TUBD1,TUBE1,ZFP36L1

ATXN1,BICC1,BMPR2,ELK3,FAM26E,FILIP1L,GEM,
HIVEP2,ISLR,PPP1R18,KLF7,LCA5,LRRC32,LTBP1,
MFRP,RUNX1,SULF1,TSHZ3,ZFP36L1,ZNF362,ZNF532
CHST3,DLG2,DZIP1,EFS,HSPA12A,IPW,MPPED2,
NCAM1,NLGN2,NLGN3,NPR2,PEG3,PLXNB3,PRIMA1,
SCN2B,SLC4A3,TCF7L1,TRO,WASF1,WHAMMP2,ZFP36L1
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 ZFP36


There's no related Drug.
Top
Cross referenced IDs for ZFP36
* 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