Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 ELOVL3
Basic gene info.Gene symbolELOVL3
Gene nameELOVL fatty acid elongase 3
SynonymsCIG-30|CIG30
CytomapUCSC genome browser: 10q24.32
Genomic locationchr10 :103986142-103989344
Type of geneprotein-coding
RefGenesNM_152310.2,
Ensembl idENSG00000119915
Description3-keto acyl-CoA synthase ELOVL3ELOVL FA elongase 3cold-inducible glycoprotein of 30 kDaelongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3elongation of very long chain fatty acids protein 3very-long-chain 3-oxoacyl-CoA synt
Modification date20141207
dbXrefs MIM : 611815
HGNC : HGNC
Ensembl : ENSG00000119915
HPRD : 16858
Vega : OTTHUMG00000018951
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ELOVL3
BioGPS: 83401
Gene Expression Atlas: ENSG00000119915
The Human Protein Atlas: ENSG00000119915
PathwayNCI Pathway Interaction Database: ELOVL3
KEGG: ELOVL3
REACTOME: ELOVL3
ConsensusPathDB
Pathway Commons: ELOVL3
MetabolismMetaCyc: ELOVL3
HUMANCyc: ELOVL3
RegulationEnsembl's Regulation: ENSG00000119915
miRBase: chr10 :103,986,142-103,989,344
TargetScan: NM_152310
cisRED: ENSG00000119915
ContextiHOP: ELOVL3
cancer metabolism search in PubMed: ELOVL3
UCL Cancer Institute: ELOVL3
Assigned class in ccmGDBC

Top
Phenotypic Information for ELOVL3(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ELOVL3
Familial Cancer Database: ELOVL3
* 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: ELOVL3
MedGen: ELOVL3 (Human Medical Genetics with Condition)
ClinVar: ELOVL3
PhenotypeMGI: ELOVL3 (International Mouse Phenotyping Consortium)
PhenomicDB: ELOVL3

Mutations for ELOVL3
* 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 ELOVL3 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
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.

Top
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

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=24)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
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
chr10:103988950-103988950p.H252Y3
chr10:103988879-103988879p.G228E2
chr10:103988910-103988910p.W238C2
chr10:103986350-103986350p.F15L2
chr10:103986386-103986386p.R27S2
chr10:103988814-103988814p.Q206Q2
chr10:103988822-103988822p.Q209R1
chr10:103986408-103986408p.?1
chr10:103988226-103988226p.G96R1
chr10:103988637-103988637p.Y147*1

Top
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
# sample13 4  2    433  42 5
# mutation13 3  2    433  42 5
nonsynonymous SNV 3 1  1    123  32 3
synonymous SNV1  2  1    31   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])

Top
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
chr10:103988950p.H252Y3
chr10:103988814p.L128L2
chr10:103986386p.R27R2
chr10:103988324p.Q206Q2
chr10:103988973p.T245T1
chr10:103987432p.A75V1
chr10:103988655p.G90R1
chr10:103989006p.I259M1
chr10:103987488p.G96R1
chr10:103988684p.Q270H1

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 ELOVL3 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]

Top
Gene Expression for ELOVL3

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))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
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

AVPR1B,B3GNT5,BTBD17,C11orf86,C15orf54,C17orf104,PPP1R17,
CHRNA5,CTCFL,ELOVL3,IL1R2,KANK4,NWD2,KLHL38,
NXF2,RAVER2,SLC36A4,SOX30,TBR1,TEX15,USP1
ABHD15,ACACB,ACVR1C,ADH1A,ADH1B,ANKRD53,RHOV___CHP1,
CIDEA,ELOVL3,FGFRL1,GHR,LGALS12,MLXIPL,MARC1,
NXNL1,ORMDL3,PCK1,PECR,SLC19A3,SLC7A10,TMEM132C

ABCA3,APC2,TEX40,DNAAF3,LINC01547,CDH15,CECR6,
CNTD2,ELOVL3,ENPP7,FAM171A2,FZD2,LPCAT1,MAP3K15,
PIWIL1,PLK2,RARRES1,RIMBP3,RTN4RL2,SYCE2,VNN2
ADIPOQ,TEX26,CIDEA,DEFB132,DGAT2,ELOVL3,FABP4,
FAM26D,FCN2,G0S2,KCNIP2,LGALS12,LIPE,LOC283392,
LPL,MRAP,PLIN1,SCD,SLC7A10,THRSP,TUSC5
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

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for ELOVL3


There's no related Drug.
Top
Cross referenced IDs for ELOVL3
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas