Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 EIF1AX
Basic gene info.Gene symbolEIF1AX
Gene nameeukaryotic translation initiation factor 1A, X-linked
SynonymsEIF1A|EIF1AP1|EIF4C|eIF-1A|eIF-4C
CytomapUCSC genome browser: Xp22.12
Genomic locationchrX :20142635-20159966
Type of geneprotein-coding
RefGenesNM_001412.3,
Ensembl idENSG00000173674
DescriptionPutative eukaryotic translation initiation factor 1AeIF-1A X isoformeukaryotic translation initiation factor 1A, X chromosomeeukaryotic translation initiation factor 1A, X-chromosomaleukaryotic translation initiation factor 4C
Modification date20141207
dbXrefs MIM : 300186
HGNC : HGNC
Ensembl : ENSG00000173674
HPRD : 02174
Vega : OTTHUMG00000022704
ProteinUniProt: P47813
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_EIF1AX
BioGPS: 1964
Gene Expression Atlas: ENSG00000173674
The Human Protein Atlas: ENSG00000173674
PathwayNCI Pathway Interaction Database: EIF1AX
KEGG: EIF1AX
REACTOME: EIF1AX
ConsensusPathDB
Pathway Commons: EIF1AX
MetabolismMetaCyc: EIF1AX
HUMANCyc: EIF1AX
RegulationEnsembl's Regulation: ENSG00000173674
miRBase: chrX :20,142,635-20,159,966
TargetScan: NM_001412
cisRED: ENSG00000173674
ContextiHOP: EIF1AX
cancer metabolism search in PubMed: EIF1AX
UCL Cancer Institute: EIF1AX
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for EIF1AX(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: EIF1AX
Familial Cancer Database: EIF1AX
* 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 THCA 6,

Therapeutic Vulnerabilities in Cancer7

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,
6 http://www.sciencedirect.com/science/article/pii/S0092867414012380,
7Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_PROTEINS

check002.gifOthers
OMIM 300186; gene.
Orphanet
DiseaseKEGG Disease: EIF1AX
MedGen: EIF1AX (Human Medical Genetics with Condition)
ClinVar: EIF1AX
PhenotypeMGI: EIF1AX (International Mouse Phenotyping Consortium)
PhenomicDB: EIF1AX

Mutations for EIF1AX
* 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 EIF1AX related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BQ436116GLIS212411643881334388373EIF1AX242836X2014430020144883

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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=22)
Stat. for Synonymous SNVs
(# total SNVs=4)
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
chr23:20156719-20156719p.R13H3
chr23:20156742-20156742p.?2
chr23:20150342-20150342p.E99*2
chr23:20156713-20156713p.G15D2
chr23:20159755-20159755p.P2S2
chr23:20156729-20156729p.K10E2
chr23:20148634-20148634p.D143D2
chr23:20152120-20152120p.W70C2
chr23:20156731-20156731p.G9D2
chr23:20156686-20156686p.R24T1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 1  1    1 3    2145
# mutation 1  1    1 3    2144
nonsynonymous SNV 1       1 3    2144
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
chrX:20156719p.R13H3
chrX:20156735p.W70C1
chrX:20152120p.W70L1
chrX:20156737p.I61L1
chrX:20152121p.G54D1
chrX:20159755p.R14W1
chrX:20153879p.R12G1
chrX:20153899p.K10E1
chrX:20156717p.G9D1
chrX:20148634p.G9R1

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 EIF1AX 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 EIF1AX

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

API5,CTPS2,CXorf23,DDX3X,EIF1AX,EIF2S3,KLHL15,
LIN7C,LRRC58,MBTPS2,MED14,PCNP,POLA1,RLIM,
STAG2,SYAP1,TCEANC,THAP5,TRAPPC2,TXLNG,USP9X
BRMS1L,C11orf58,MZT1,C5orf22,CCDC91,COX11,EIF1AX,
MOB4,NDFIP2,PCNP,RCHY1,RWDD4,SCOC,SMNDC1,
SYPL1,TAF9B,UBE2D3,VAPA,VTA1,YAF2,ZNF639

APOO,ARSE,CTPS2,EIF1AX,EIF2S3,FAM104B,FUNDC1,
GEMIN8,HDHD1,MED14,JPX,PNPLA4,PRDX4,PRPS2,
RAB9A,RBBP7,RPS4X,SYAP1,TRAPPC2,UXT,VBP1
BTF3,TMEM230,CWC15,DPH5,EEF1A1P9,EIF1AX,EIF3E,
FAM200A,FUNDC1,GGPS1,METTL9,CMC4,OLA1,ORC5,
RPL14,RPL7,RPL7A,RPS4X,RSL1D1,TATDN1,ZFAND1
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 EIF1AX


There's no related Drug.
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Cross referenced IDs for EIF1AX
* 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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