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 EIF5A2
Basic gene info.Gene symbolEIF5A2
Gene nameeukaryotic translation initiation factor 5A2
SynonymsEIF-5A2|eIF5AII
CytomapUCSC genome browser: 3q26.2
Genomic locationchr3 :170606203-170626426
Type of geneprotein-coding
RefGenesNM_020390.5,
Ensembl idENSG00000163577
DescriptioneIF-5A-2eukaryotic initiation factor 5Aeukaryotic translation initiation factor 5A-2
Modification date20141207
dbXrefs MIM : 605782
HGNC : HGNC
Ensembl : ENSG00000163577
HPRD : 10426
Vega : OTTHUMG00000158958
ProteinUniProt: Q9GZV4
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EIF5A2
BioGPS: 56648
Gene Expression Atlas: ENSG00000163577
The Human Protein Atlas: ENSG00000163577
PathwayNCI Pathway Interaction Database: EIF5A2
KEGG: EIF5A2
REACTOME: EIF5A2
ConsensusPathDB
Pathway Commons: EIF5A2
MetabolismMetaCyc: EIF5A2
HUMANCyc: EIF5A2
RegulationEnsembl's Regulation: ENSG00000163577
miRBase: chr3 :170,606,203-170,626,426
TargetScan: NM_020390
cisRED: ENSG00000163577
ContextiHOP: EIF5A2
cancer metabolism search in PubMed: EIF5A2
UCL Cancer Institute: EIF5A2
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of EIF5A2 in cancer cell metabolism1. Zhu W, Cai MY, Tong ZT, Dong SS, Mai SJ, et al. (2012) Overexpression of EIF5A2 promotes colorectal carcinoma cell aggressiveness by upregulating MTA1 through C-myc to induce epithelial-mesenchymaltransition. Gut 61: 562-575. doi: 10.1136/gutjnl-2011-300207. go to article
2. Wei JH, Cao JZ, Zhang D, Liao B, Zhong WM, et al. (2014) EIF5A2 predicts outcome in localised invasive bladder cancer and promotes bladder cancer cell aggressiveness in vitro and in vivo. Br J Cancer 110: 1767-1777. doi: 10.1038/bjc.2014.52. pmid: 3974079. go to article
3. Li Y, Fu L, Li JB, Qin Y, Zeng TT, et al. (2014) Increased expression of EIF5A2, via hypoxia or gene amplification, contributes to metastasis and angiogenesis of esophageal squamous cell carcinoma. Gastroenterology 146: 1701-1713 e1709. doi: 10.1053/j.gastro.2014.02.029. go to article

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Phenotypic Information for EIF5A2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EIF5A2
Familial Cancer Database: EIF5A2
* 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 605782; gene.
Orphanet
DiseaseKEGG Disease: EIF5A2
MedGen: EIF5A2 (Human Medical Genetics with Condition)
ClinVar: EIF5A2
PhenotypeMGI: EIF5A2 (International Mouse Phenotyping Consortium)
PhenomicDB: EIF5A2

Mutations for EIF5A2
* 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 EIF5A2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AF262027EIF5A2114313170610215170625632RAD23B142822169110093684110094473

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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=13)
Stat. for Synonymous SNVs
(# total SNVs=2)
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
chr3:170612080-170612080p.?2
chr3:170624853-170624853p.T65T2
chr3:170624791-170624791p.R86I2
chr3:170612100-170612100p.N128I1
chr3:170625432-170625432p.K55R1
chr3:170612119-170612119p.E122*1
chr3:170625451-170625451p.G49R1
chr3:170612149-170612149p.L112I1
chr3:170625528-170625528p.S23*1
chr3:170612158-170612158p.R109C1

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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=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample   2  1    11   1  3
# mutation   2  1    11   1  3
nonsynonymous SNV   2  1    11   1  2
synonymous SNV                   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])

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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
chr3:170612100p.L112I1
chr3:170612149p.R109C1
chr3:170612158p.R86I1
chr3:170624791p.K68T1
chr3:170624845p.G66D1
chr3:170624851p.G49R1
chr3:170625451p.D11D1
chr3:170625563p.E4K1
chr3:170625586p.N128I1

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 EIF5A2 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 EIF5A2

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

CALD1,CLIC4,CSGALNACT2,DACT1,DPYSL3,DSE,EIF5A2,
FAP,FERMT2,FNDC3B,FSTL1,IKBIP,ITGB1,LATS2,
LOX,PKD2,PLS3,RECK,SEC23A,TIMP2,TRPC1
BNIP2,CCDC82,CLIC2,CLIC4,CPNE8,EIF5A2,EVI5,
KCTD12,LRCH2,LRRC8C,MYCT1,BBIP1,PTPN12,RAB8B,
RAP1B,RBMS1,SEPT7,SGMS1,SGTB,SHE,TMX3

ADO,ADIRF,C19orf38,CA6,CCK,DNM1,EIF5A2,
HGFAC,INSIG2,KIAA0895,MAP1LC3B2,NDFIP1,NRBF2,PAK7,
PRRG1,SAR1A,SOHLH1,TCHH,TEX19,ZNF735,ZNF83
BLVRA,FAM229B,EIF5A2,FAM195B,FEZ1,GNB4,GUCY1B3,
HDGFRP3,LOC399959,LOC644538,MRAS,SLC9B2,NME4,RAB23,
RAB31,IFT22,RHOQ,RND2,SNCA,SPG20,ZNF25
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 EIF5A2


There's no related Drug.
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Cross referenced IDs for EIF5A2
* 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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