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 EEF1B2
Basic gene info.Gene symbolEEF1B2
Gene nameeukaryotic translation elongation factor 1 beta 2
SynonymsEEF1B|EEF1B1|EF1B
CytomapUCSC genome browser: 2q33.3
Genomic locationchr2 :207024317-207027653
Type of geneprotein-coding
RefGenesNM_001037663.1,
NM_001959.3,NM_021121.3,
Ensembl idENSG00000114942
DescriptionEF-1-betaelongation factor 1-betaeukaryotic translation elongation factor 1 beta 1
Modification date20141207
dbXrefs MIM : 600655
HGNC : HGNC
Ensembl : ENSG00000114942
HPRD : 02804
Vega : OTTHUMG00000132891
ProteinUniProt: P24534
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EEF1B2
BioGPS: 1933
Gene Expression Atlas: ENSG00000114942
The Human Protein Atlas: ENSG00000114942
PathwayNCI Pathway Interaction Database: EEF1B2
KEGG: EEF1B2
REACTOME: EEF1B2
ConsensusPathDB
Pathway Commons: EEF1B2
MetabolismMetaCyc: EEF1B2
HUMANCyc: EEF1B2
RegulationEnsembl's Regulation: ENSG00000114942
miRBase: chr2 :207,024,317-207,027,653
TargetScan: NM_001037663
cisRED: ENSG00000114942
ContextiHOP: EEF1B2
cancer metabolism search in PubMed: EEF1B2
UCL Cancer Institute: EEF1B2
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for EEF1B2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EEF1B2
Familial Cancer Database: EEF1B2
* 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 600655; gene.
Orphanet
DiseaseKEGG Disease: EEF1B2
MedGen: EEF1B2 (Human Medical Genetics with Condition)
ClinVar: EEF1B2
PhenotypeMGI: EEF1B2 (International Mouse Phenotyping Consortium)
PhenomicDB: EEF1B2

Mutations for EEF1B2
* 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 EEF1B2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BE783880BLCAP32399203615171436152082EEF1B23827472207026773207027624
DA486448EEF1B255112207024621207027239CDR1504562X139866568139866626

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=30

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=38)
Stat. for Synonymous SNVs
(# total SNVs=25)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
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
chr2:207025358-207025358p.S43G30
chr2:207025366-207025366p.P45P28
chr2:207027283-207027283p.A156A2
chr2:207027455-207027455p.K176E2
chr2:207027489-207027490p.L187fs*72
chr2:207025444-207025444p.?2
chr2:207026111-207026111p.A82V1
chr2:207027282-207027282p.A156V1
chr2:207024769-207024769p.K22N1
chr2:207026131-207026131p.G89R1

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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=28

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample21 2    22 91 255626
# mutation21 2    21 41 222426
nonsynonymous SNV21 2    11 3  111314
synonymous SNV        1  11 111112
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
chr2:207025358p.S43G,EEF1B228
chr2:207025366p.P45P,EEF1B222
chr2:207027283p.A156A,EEF1B22
chr2:207024769p.K22N,EEF1B21
chr2:207027298p.P46S,EEF1B21
chr2:207027313p.K74T,EEF1B21
chr2:207027530p.S90T,EEF1B21
chr2:207025367p.A92T,EEF1B21
chr2:207027604p.S95T,EEF1B21
chr2:207026087p.R122H,EEF1B21

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 EEF1B2 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 EEF1B2

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

EEF1B2,EEF1G,RPL10A,RPL11,RPL12,RPL17,RPL31,
RPL3,RPL37A,RPL4,RPL5,RPL6,RPL7A,RPS10,
RPS13,RPS18,RPS25,RPS27A,RPS8,RPSA,RPSAP58
EEF1B2,EEF1G,GNB2L1,NACA,RPL10,RPL10A,RPL12,
RPL14,RPL37,RPL4,RPL5,RPL6,RPLP0,RPS14,
RPS18,RPS2,RPS3A,RPS6,RPS7,RPS8,RPSAP58

EEF1B2,RPL10A,RPL15,RPL32,RPL35,RPL35A,RPL36,
RPS10,RPS11,RPS13,RPS14,RPS15A,RPS18,RPS3,
RPS3A,RPS5,RPS6,RPS7,RPSA,RPSAP58,RSL24D1
C1orf43,ATRAID,DPY30,EEF1B2,GPN1,RPL24,RPL27A,
RPS10,RPS13,RPS14,RPS18,RPS21,RPS3,RPS3A,
RPS5,RPS6,RPS7,RPS8,TMEM14B,TMEM14C,TPT1
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 EEF1B2


There's no related Drug.
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Cross referenced IDs for EEF1B2
* 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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