Cancer Cell Metabolism Gene Database

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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 EIF5A
Basic gene info.Gene symbolEIF5A
Gene nameeukaryotic translation initiation factor 5A
SynonymsEIF-5A|EIF5A1|eIF5AI
CytomapUCSC genome browser: 17p13-p12
Genomic locationchr17 :7210855-7215782
Type of geneprotein-coding
RefGenesNM_001143760.1,
NM_001143761.1,NM_001143762.1,NM_001970.4,
Ensembl idENSG00000132507
DescriptioneIF-4DeIF-5A-1eIF-5A1eukaryotic initiation factor 5Aeukaryotic translation initiation factor 5A-1rev-binding factor
Modification date20141207
dbXrefs MIM : 600187
HGNC : HGNC
Ensembl : ENSG00000132507
HPRD : 02555
Vega : OTTHUMG00000102197
ProteinUniProt: P63241
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EIF5A
BioGPS: 1984
Gene Expression Atlas: ENSG00000132507
The Human Protein Atlas: ENSG00000132507
PathwayNCI Pathway Interaction Database: EIF5A
KEGG: EIF5A
REACTOME: EIF5A
ConsensusPathDB
Pathway Commons: EIF5A
MetabolismMetaCyc: EIF5A
HUMANCyc: EIF5A
RegulationEnsembl's Regulation: ENSG00000132507
miRBase: chr17 :7,210,855-7,215,782
TargetScan: NM_001143760
cisRED: ENSG00000132507
ContextiHOP: EIF5A
cancer metabolism search in PubMed: EIF5A
UCL Cancer Institute: EIF5A
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of EIF5A in cancer cell metabolism1. Memin E, Hoque M, Jain MR, Heller DS, Li H, et al. (2014) Blocking eIF5A modification in cervical cancer cells alters the expression of cancer-related genes and suppresses cell proliferation. Cancer Res 74: 552-562. doi: 10.1158/0008-5472.CAN-13-0474. go to article
2. Xu G, Yu H, Shi X, Sun L, Zhou Q, et al. (2014) Cisplatin sensitivity is enhanced in non-small cell lung cancer cells by regulating epithelial-mesenchymal transition through inhibition of eukaryotic translation initiation factor 5A2. BMC Pulm Med 14: 174. doi: 10.1186/1471-2466-14-174. pmid: 4232729. go to article
3. Mittal N, Morada M, Tripathi P, Gowri VS, Mandal S, et al. (2014) Cryptosporidium parvum has an active hypusine biosynthesis pathway. Mol Biochem Parasitol 195: 14-22. doi: 10.1016/j.molbiopara.2014.05.005. pmid: 4176827. go to article
4. Dyshlovoy SA, Venz S, Shubina LK, Fedorov SN, Walther R, et al. (2014) Activity of aaptamine and two derivatives, demethyloxyaaptamine and isoaaptamine, in cisplatin-resistant germ cell cancer. J Proteomics 96: 223-239. doi: 10.1016/j.jprot.2013.11.009. go to article

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Phenotypic Information for EIF5A(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EIF5A
Familial Cancer Database: EIF5A
* 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 600187; gene.
Orphanet
DiseaseKEGG Disease: EIF5A
MedGen: EIF5A (Human Medical Genetics with Condition)
ClinVar: EIF5A
PhenotypeMGI: EIF5A (International Mouse Phenotyping Consortium)
PhenomicDB: EIF5A

Mutations for EIF5A
* 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
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- For Intra-chromosomal Variations
There's no intra-chromosomal structural variation.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryEIF5Achr1772154197215439NBEAchr133598764335987663
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 EIF5A related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CN372949FKBP42511229043022904351EIF5A492951772110447214369
BF883338TCOF1121705149776379149778618EIF5A1664021772131037213339
CN336887EIF5A12391772149107215318SGSM3233344224080041640800628
AW954202EIF5A1561772153467215401HSF1571968145538241145538380
BG255468EIF5A13631772109287214368RALY361398203260267932602717
BM720324EIF5A92081772154347215633ADAR2094431154555010154555244
CN340509EIF5A5801772129347213009DNAJC2481572113139141431436658

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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=18)
Stat. for Synonymous SNVs
(# total SNVs=1)
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
chr17:7213030-7213030p.R26C4
chr17:7213034-7213034p.K27T2
chr17:7212956-7212956p.M1R2
chr17:7212975-7212975p.F7F2
chr17:7214949-7214949p.M152T1
chr17:7213002-7213002p.A16A1
chr17:7214697-7214697p.S100*1
chr17:7214700-7214700p.L101R1
chr17:7213031-7213031p.R26H1
chr17:7214735-7214735p.R113C1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample  13    1  1    25 6
# mutation  13    1  1    25 7
nonsynonymous SNV  13    1  1     4 6
synonymous SNV                21 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
chr17:7212975p.F37F,EIF5A2
chr17:7214700p.A46A,EIF5A1
chr17:7212989p.R56C,EIF5A1
chr17:7214735p.S76L,EIF5A1
chr17:7213002p.G79C,EIF5A1
chr17:7214927p.G82S,EIF5A1
chr17:7213030p.G82D,EIF5A1
chr17:7214941p.P104L,EIF5A1
chr17:7213091p.I122I,EIF5A1
chr17:7214942p.S130P,EIF5A1

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 EIF5A 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 EIF5A

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 EIF5A


There's no related Drug.
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Cross referenced IDs for EIF5A
* 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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