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 EEF1A1
Basic gene info.Gene symbolEEF1A1
Gene nameeukaryotic translation elongation factor 1 alpha 1
SynonymsCCS-3|CCS3|EE1A1|EEF-1|EEF1A|EF-Tu|EF1A|GRAF-1EF|HNGC:16303|LENG7|PTI1|eEF1A-1
CytomapUCSC genome browser: 6q14.1
Genomic locationchr6 :74225472-74230755
Type of geneprotein-coding
RefGenesNM_001402.5,
NM_001403.1,
Ensembl idENSG00000156508
DescriptionCTCL tumor antigenEF-1-alpha-1EF1a-like proteincervical cancer suppressor 3elongation factor 1 alpha subunitelongation factor 1-alpha 1elongation factor Tueukaryotic elongation factor 1 A-1eukaryotic translation elongation factor 1 alpha 1-like 14
Modification date20141207
dbXrefs MIM : 130590
HGNC : HGNC
Ensembl : ENSG00000156508
HPRD : 00559
ProteinUniProt: P68104
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EEF1A1
BioGPS: 1915
Gene Expression Atlas: ENSG00000156508
The Human Protein Atlas: ENSG00000156508
PathwayNCI Pathway Interaction Database: EEF1A1
KEGG: EEF1A1
REACTOME: EEF1A1
ConsensusPathDB
Pathway Commons: EEF1A1
MetabolismMetaCyc: EEF1A1
HUMANCyc: EEF1A1
RegulationEnsembl's Regulation: ENSG00000156508
miRBase: chr6 :74,225,472-74,230,755
TargetScan: NM_001402
cisRED: ENSG00000156508
ContextiHOP: EEF1A1
cancer metabolism search in PubMed: EEF1A1
UCL Cancer Institute: EEF1A1
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of EEF1A1 in cancer cell metabolism1. Vera M, Pani B, Griffiths LA, Muchardt C, Abbott CM, et al. (2014) The translation elongation factor eEF1A1 couples transcription to translation during heat shock response. Elife 3: e03164. doi: 10.7554/eLife.03164. pmid: 4164936. go to article
2. Blanch A, Robinson F, Watson IR, Cheng LS, Irwin MS (2013) Eukaryotic translation elongation factor 1-alpha 1 inhibits p53 and p73 dependent apoptosis and chemotherapy sensitivity. PLoS One 8: e66436. doi: 10.1371/journal.pone.0066436. pmid: 3682968. go to article
3. Kido T, Lau YF (2008) The human Y-encoded testis-specific protein interacts functionally with eukaryotic translation elongation factor eEF1A, a putative oncoprotein. Int J Cancer 123: 1573-1585. doi: 10.1002/ijc.23697. go to article
4. Sanges C, Scheuermann C, Zahedi RP, Sickmann A, Lamberti A, et al. (2012) Raf kinases mediate the phosphorylation of eukaryotic translation elongation factor 1A and regulate its stability in eukaryotic cells. Cell Death Dis 3: e276. doi: 10.1038/cddis.2012.16. pmid: 3317347. go to article

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Phenotypic Information for EEF1A1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EEF1A1
Familial Cancer Database: EEF1A1
* 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 130590; gene.
Orphanet
DiseaseKEGG Disease: EEF1A1
MedGen: EEF1A1 (Human Medical Genetics with Condition)
ClinVar: EEF1A1
PhenotypeMGI: EEF1A1 (International Mouse Phenotyping Consortium)
PhenomicDB: EEF1A1

Mutations for EEF1A1
* 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 EEF1A1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DA616590HIST1H2BH146362625184226252301EEF1A146359867422967874230756
CB955682EEF1A1421067422960674230755PRH1-PRR4203625121103357811035222
AA316930EEF1A1110267422968074229781RPL4199409125651052756511496
DA091240CEP85L1676118949708118949774EEF1A16057067422883074230757
BE787198EEF1A1121967422918574229769TPM32127461154129884154145401
DB120764HIST1H2AM148462786048027860963EEF1A148556067422973874230756
BC001412LASP1101054173702632037075167EEF1A11054281467422723874230769
BC013012HCG25102855644503424471867EEF1A12856374567422723874228311
DA514269SNHG1158116262080162620858EEF1A15955067422884774230755
BG113553EEF1A12815767422915774229652IFT7415854092705633327062806
AY540750EEF1A1111267422795574228155PMS111322522190708702190742210
BF802691EEF1A11611667422888974229098SEC14L1115595177520813575210153
BC006102BTBD731473149370765993708104EEF1A1474216967422723874229761
AK057867APOLD111537121293859412941344EEF1A11531183867422724174227548
BM827989HIST1H1E827162615709226157342EEF1A127155667422916174230755
BC023536BTBD740482149370765993708104EEF1A1483217867422723874229761

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=56)		Stat. for Synonymous SNVs
(# total SNVs=10)
Stat. for Deletions
(# total SNVs=3)		Stat. for Insertions
(# total SNVs=2)

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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
chr6:74228952-74228952p.?8
chr6:74227940-74227940p.P359P3
chr6:74228474-74228474p.R240H3
chr6:74229113-74229113p.D91N3
chr6:74228163-74228163p.V315L2
chr6:74228328-74228328p.G260C2
chr6:74227933-74227933p.D362Y2
chr6:74227627-74227627p.T432I2
chr6:74228906-74228906p.E124K2
chr6:74227628-74227628p.T432A2

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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
# sample22 74 4 31 52   55 5
# mutation22 74 4 31 52   55 5
nonsynonymous SNV12 64 3 21 42   52 5
synonymous SNV1  1  1 1  1     3  
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
chr6:74228328p.E268K2
chr6:74228304p.G260C2
chr6:74229160p.M276T1
chr6:74228120p.I75T1
chr6:74229729p.T452N1
chr6:74228437p.T269T1
chr6:74227567p.E68Q1
chr6:74229182p.V451D1
chr6:74228163p.E66K1
chr6:74229730p.T432I1

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 EEF1A1 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 EEF1A1

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

EEF1A1,EEF1A1P9,EEF1B2,EEF1G,EIF3L,GNB2L1,RPL10A,
RPL11,RPL17,RPL22,RPL31,RPL3,RPL4,RPL5,
RPL6,RPS18,RPS23,RPS25,RPS3A,RPS4X,RPS8		BTF3,CCT4,EEF1A1,EEF1A1P9,NPM1,RPL15,RPL22,
RPL23A,RPL31,RPL32,RPL35A,RPL41,RPL4,RPL5,
RPL6,RPS15A,RPS27A,RPS3A,RPS4X,RPS6,RPS7

EEF1A1,EEF1A1P9,EEF1B2,RPL10A,RPL15,RPL18A,RPL36,
RPL41,RPL5,RPLP0,RPS10,RPS14,RPS18,RPS23,
RPS29,RPS3,RPS3A,RPS8,RPS9,RPSA,RPSAP58		EEF1A1,EEF1A1P9,RPL10,RPL12,RPL14,RPL15,RPL19,
RPL30,RPL32,RPL35A,RPL38,RPL41,RPL5,RPL7A,
RPS10,RPS11,RPS12,RPS13,RPS23,RPS25,RPS3
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 EEF1A1


There's no related Drug.
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Cross referenced IDs for EEF1A1
* 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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