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 ELOVL1
Basic gene info.Gene symbolELOVL1
Gene nameELOVL fatty acid elongase 1
SynonymsSsc1
CytomapUCSC genome browser: 1p34.2
Genomic locationchr1 :43829067-43833745
Type of geneprotein-coding
RefGenesNM_001256399.1,
NM_001256401.1,NM_001256402.1,NM_022821.3,NR_046117.1,
Ensembl idENSG00000066322
Description3-keto acyl-CoA synthase ELOVL1ELOVL FA elongase 1elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1elongation of very long chain fatty acids protein 1very-long-chain 3-oxoacyl-CoA synthase 1
Modification date20141207
dbXrefs MIM : 611813
HGNC : HGNC
Ensembl : ENSG00000066322
HPRD : 10935
Vega : OTTHUMG00000007422
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ELOVL1
BioGPS: 64834
Gene Expression Atlas: ENSG00000066322
The Human Protein Atlas: ENSG00000066322
PathwayNCI Pathway Interaction Database: ELOVL1
KEGG: ELOVL1
REACTOME: ELOVL1
ConsensusPathDB
Pathway Commons: ELOVL1
MetabolismMetaCyc: ELOVL1
HUMANCyc: ELOVL1
RegulationEnsembl's Regulation: ENSG00000066322
miRBase: chr1 :43,829,067-43,833,745
TargetScan: NM_001256399
cisRED: ENSG00000066322
ContextiHOP: ELOVL1
cancer metabolism search in PubMed: ELOVL1
UCL Cancer Institute: ELOVL1
Assigned class in ccmGDBC

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Phenotypic Information for ELOVL1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ELOVL1
Familial Cancer Database: ELOVL1
* 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_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ELOVL1
MedGen: ELOVL1 (Human Medical Genetics with Condition)
ClinVar: ELOVL1
PhenotypeMGI: ELOVL1 (International Mouse Phenotyping Consortium)
PhenomicDB: ELOVL1

Mutations for ELOVL1
* 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 ELOVL1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BP218140ELOVL1131814383088443833678NFASC3095831204986628204986903
DA345121LOC1005074121223?115652115873ELOVL122347314383092143833649
DA570042ELOVL1160414382944543830315ELOVL158680514383218443832405

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=17)
Stat. for Synonymous SNVs
(# total SNVs=2)
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
chr1:43829648-43829648p.R260Q5
chr1:43831047-43831047p.D16G2
chr1:43830951-43830951p.R48H2
chr1:43831042-43831042p.R18W1
chr1:43830302-43830302p.R131Q1
chr1:43829675-43829675p.W251L1
chr1:43830459-43830459p.R109W1
chr1:43831048-43831048p.?1
chr1:43829727-43829727p.H234Y1
chr1:43830608-43830608p.E103D1

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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   3  2 1    1  4113
# mutation   3  2 1    1  4113
nonsynonymous SNV   3  1         1112
synonymous SNV      1 1    1  3  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
chr1:43829798p.M174T,ELOVL11
chr1:43830980p.M174V,ELOVL11
chr1:43830011p.M151V,ELOVL11
chr1:43831042p.S119S,ELOVL11
chr1:43830012p.F116F,ELOVL11
chr1:43830081p.D107D,ELOVL11
chr1:43830256p.E22D,ELOVL11
chr1:43830265p.F80F,ELOVL11
chr1:43830292p.R59C,ELOVL11
chr1:43830608p.R48H,ELOVL11

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 ELOVL1 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 ELOVL1

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

ATP6V0B,B4GALT2,CDC20,DPH2,EBNA1BP2,EIF2B3,ELOVL1,
ERI3,GNL2,HECTD3,IPO13,MED8,MRPL37,PRDX1,
PSMB2,RHBDL2,TRAPPC3,TXNDC12,UQCRH,UQCRHL,YBX1
ANXA2,ANXA2P2,BCAP31,CAPNS1,CD151,CLPTM1L,ELOVL1,
FTH1,GPX1,MAPK3,MED8,MGC72080,MSRA,NME4,
NUDT5,PGAM1,PRDX4,TMEM189,TMEM214,UBE2L3,VKORC1

AGPAT9,BEAN,ADIRF,CA6,CAP1,CDA,CKLF,
ELOVL1,GAS6-AS2,GJB3,KLK6,KLK8,LRRC42,MED8,
PAPL,RER1,S100A11,SLC2A1,TM4SF1,TMEM53,TRAPPC3
APEX2,ATP6V0D1,CALML4,CFL1,CIB1,CLDN7,DOK4,
EIF6,ELOVL1,EPCAM,HN1,HTATIP2,MAPK3,MYL12A,
OSTF1,PKIB,POLD4,PPP1R14D,TMEM45B,TMEM53,TSPAN1
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 ELOVL1


There's no related Drug.
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Cross referenced IDs for ELOVL1
* 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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