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 ECI2
Basic gene info.Gene symbolECI2
Gene nameenoyl-CoA delta isomerase 2
SynonymsACBD2|DRS-1|DRS1|HCA88|PECI|dJ1013A10.3
CytomapUCSC genome browser: 6p24.3
Genomic locationchr6 :4115926-4135831
Type of geneprotein-coding
RefGenesNM_001166010.1,
NM_006117.2,NM_206836.2,NR_028588.1,
Ensembl idENSG00000198721
DescriptionD3,D2-enoyl-CoA isomeraseDBI-related protein 1acyl-Coenzyme A binding domain containing 2delta(3),delta(2)-enoyl-CoA isomerasediazepam-binding inhibitor-related protein 1dodecenoyl-CoA isomeraseenoyl-CoA delta isomerase 2, mitochondrialhepatocellul
Modification date20141211
dbXrefs MIM : 608024
HGNC : HGNC
Ensembl : ENSG00000198721
HPRD : 16269
Vega : OTTHUMG00000014158
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ECI2
BioGPS: 10455
Gene Expression Atlas: ENSG00000198721
The Human Protein Atlas: ENSG00000198721
PathwayNCI Pathway Interaction Database: ECI2
KEGG: ECI2
REACTOME: ECI2
ConsensusPathDB
Pathway Commons: ECI2
MetabolismMetaCyc: ECI2
HUMANCyc: ECI2
RegulationEnsembl's Regulation: ENSG00000198721
miRBase: chr6 :4,115,926-4,135,831
TargetScan: NM_001166010
cisRED: ENSG00000198721
ContextiHOP: ECI2
cancer metabolism search in PubMed: ECI2
UCL Cancer Institute: ECI2
Assigned class in ccmGDBC

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Phenotypic Information for ECI2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ECI2
Familial Cancer Database: ECI2
* 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
KEGG_FATTY_ACID_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ECI2
MedGen: ECI2 (Human Medical Genetics with Condition)
ClinVar: ECI2
PhenotypeMGI: ECI2 (International Mouse Phenotyping Consortium)
PhenomicDB: ECI2

Mutations for ECI2
* 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 ECI2 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
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=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=21)
Stat. for Synonymous SNVs
(# total SNVs=7)
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
chr6:4116192-4116192p.E337E2
chr6:4128046-4128046p.R144H2
chr6:4133844-4133844p.K21I2
chr6:4117549-4117549p.P311L2
chr6:4130803-4130803p.?2
chr6:4116182-4116182p.L341F2
chr6:4131014-4131014p.G70V1
chr6:4117641-4117641p.E280D1
chr6:4128027-4128027p.S150R1
chr6:4131020-4131020p.A68D1

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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
# sample3  2  1 31 22 1 22 4
# mutation3  2  1 31 32 1 22 4
nonsynonymous SNV2  1  1 3  11 1 21 2
synonymous SNV1  1     1 21    1 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
chr6:4117641p.S18Y1
chr6:4131004p.P249T,ECI21
chr6:4117677p.M3V1
chr6:4131009p.A229A,ECI21
chr6:4119470p.V221I,ECI21
chr6:4131020p.S220S,ECI21
chr6:4125502p.A210A,ECI21
chr6:4131033p.Y165D,ECI21
chr6:4125528p.I155V,ECI21
chr6:4131046p.A148S,ECI21

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 ECI2 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 ECI2

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

ACOT4,C6orf201,CHRNA2,COQ6,DCXR,DHRS4,FAH,
FARS2,GSTZ1,HSD17B8,IFT46,LDHD,MMAB,ECI2,
PHYHD1,SPDEF,SUOX,TMEM62,TP53TG1,TTC36,YIPF1
ACADM,AIFM1,MPC2,IDI2-AS1,GUCD1,CECR2,COQ6,
CPT2,CRADD,CRAT,DNAJA4,ETFA,MTFR1L,GRPEL1,
LDHD,NDUFAF1,NDUFV2,PCCB,ECI2,SAR1B,SIX1

C17orf82,FAM217A,C6orf201,CA6,CACNG6,CCDC42B,CCK,
GAS6-AS2,HGFAC,HMGN3,MTUS2,PAK7,ECI2,SLC50A1,
SLIT1,SOHLH1,SPDYC,TCHH,TEX19,TRNP1,ZNF735
AKR1C3,ARHGAP18,AUH,BDH2,C2orf47,CAT,CMBL,
FGGY,GPR160,HADH,HRSP12,HSDL2,IMP3,MRPS18B,
ECI2,PHYH,PPP1CC,SAMM50,SUCLG1,TMEM19,TP53TG1
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 ECI2
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB08231enoyl-CoA delta isomerase 2experimentalMYRISTIC ACID


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Cross referenced IDs for ECI2
* 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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