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 ELOVL6
Basic gene info.Gene symbolELOVL6
Gene nameELOVL fatty acid elongase 6
SynonymsFACE|FAE|LCE
CytomapUCSC genome browser: 4q25
Genomic locationchr4 :110970228-111119771
Type of geneprotein-coding
RefGenesNM_001130721.1,
NM_024090.2,
Ensembl idENSG00000170522
Description3-keto acyl-CoA synthase ELOVL6ELOVL FA elongase 6ELOVL family member 6, elongation of long chain fatty acids (FEN1/Elo2, SUR4/Elo3-like, yeast)elongation of very long chain fatty acids protein 6fatty acid elongase 2fatty acyl-CoA elongasehELO2long
Modification date20141207
dbXrefs MIM : 611546
HGNC : HGNC
Ensembl : ENSG00000170522
HPRD : 13269
Vega : OTTHUMG00000132547
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ELOVL6
BioGPS: 79071
Gene Expression Atlas: ENSG00000170522
The Human Protein Atlas: ENSG00000170522
PathwayNCI Pathway Interaction Database: ELOVL6
KEGG: ELOVL6
REACTOME: ELOVL6
ConsensusPathDB
Pathway Commons: ELOVL6
MetabolismMetaCyc: ELOVL6
HUMANCyc: ELOVL6
RegulationEnsembl's Regulation: ENSG00000170522
miRBase: chr4 :110,970,228-111,119,771
TargetScan: NM_001130721
cisRED: ENSG00000170522
ContextiHOP: ELOVL6
cancer metabolism search in PubMed: ELOVL6
UCL Cancer Institute: ELOVL6
Assigned class in ccmGDBC

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Phenotypic Information for ELOVL6(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ELOVL6
Familial Cancer Database: ELOVL6
* 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: ELOVL6
MedGen: ELOVL6 (Human Medical Genetics with Condition)
ClinVar: ELOVL6
PhenotypeMGI: ELOVL6 (International Mouse Phenotyping Consortium)
PhenomicDB: ELOVL6

Mutations for ELOVL6
* 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

- Statistics for Tissue and Mutation typeTop
- For Inter-chromosomal Variations
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- For Intra-chromosomal Variations
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryELOVL6chr4111021528111021728ELOVL6chr4111008400111008600
pancreasELOVL6chr4110976553110976573chr103195757331957593
pancreasELOVL6chr4110999600110999620ELOVL6chr4111000667111000687
pancreasELOVL6chr4110999600110999620ELOVL6chr4111000672111000692
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ELOVL6 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

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check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample   1             
GAIN (# sample)   1             
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

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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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=24)
Stat. for Synonymous SNVs
(# total SNVs=3)
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
chr4:111026726-111026726p.L50V2
chr4:111119394-111119394p.?2
chr4:111119479-111119479p.V5L1
chr4:110972602-110972602p.Q230H1
chr4:110972803-110972803p.G163G1
chr4:110980907-110980907p.I75I1
chr4:110972631-110972631p.Q221*1
chr4:110972820-110972820p.D158N1
chr4:111026713-111026713p.R54P1
chr4:110972636-110972636p.W219*1

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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
# sample1314  2  1 211 14  5
# mutation1314  2  1 211 14  5
nonsynonymous SNV13 4  1  1 211  2  3
synonymous SNV  1   1        12  2
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
chr4:110972668p.A175D,ELOVL61
chr4:110980893p.F13F,ELOVL61
chr4:110972698p.V173V,ELOVL61
chr4:110980902p.V5L,ELOVL61
chr4:110972768p.G163G,ELOVL61
chr4:111026713p.V117L,ELOVL61
chr4:110972773p.F111L,ELOVL61
chr4:111026722p.S109R,ELOVL61
chr4:110972803p.S97S,ELOVL61
chr4:111026731p.Q96K,ELOVL61

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 ELOVL6 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 ELOVL6

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

ABCE1,ARHGAP11A,BUB1B,KNSTRN,CENPE,CISD2,DARS2,
EIF4E,ELOVL6,GABRA5,H2AFZ,KPNA2,KRT34,LIN54,
MAD2L1,METAP1,MRPL19,NAA15,NEIL3,PAICS,PNPT1
ACLY,ANO3,C8orf34,CDKN2C,CPA2,DLAT,ECHDC1,
ELOVL6,FADS1,RMDN3,FLJ43390,GPR50,LOC285370,ME1,
MMP17,NKX2-4,OLFM2,SCD,SEL1L2,SPZ1,TMEM132B

GDPGP1,CDS1,DHCR24,ELOVL6,F2RL1,FDFT1,FDPS,
HK2,HMGCR,HMGCS1,LIMA1,LPIN1,PAPSS2,PNP,
RBM47,RDH11,RNF145,MSMO1,SFXN1,SIAE,SLC37A1
ANKRD22,C4BPB,DNAJB11,EIF2B2,EIF4A1,EIF5AL1,ELOVL6,
ERI1,FGFBP1,GGCT,HM13,MANF,MMP1,NME1,
PDIA6,RPN1,SDF2L1,SLC6A14,TIMM17A,TMED9,UBXN8
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 ELOVL6


There's no related Drug.
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Cross referenced IDs for ELOVL6
* 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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