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 ACAD8
Basic gene info.Gene symbolACAD8
Gene nameacyl-CoA dehydrogenase family, member 8
SynonymsACAD-8|ARC42
CytomapUCSC genome browser: 11q25
Genomic locationchr11 :134123433-134135746
Type of geneprotein-coding
RefGenesNM_014384.2,
Ensembl idENSG00000151498
Descriptionactivator-recruited cofactor 42 kDa componentacyl-Coenzyme A dehydrogenase family, member 8isobutyryl-CoA dehydrogenase, mitochondrial
Modification date20141207
dbXrefs MIM : 604773
HGNC : HGNC
Ensembl : ENSG00000151498
HPRD : 11985
Vega : OTTHUMG00000167177
ProteinUniProt: Q9UKU7
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ACAD8
BioGPS: 27034
Gene Expression Atlas: ENSG00000151498
The Human Protein Atlas: ENSG00000151498
PathwayNCI Pathway Interaction Database: ACAD8
KEGG: ACAD8
REACTOME: ACAD8
ConsensusPathDB
Pathway Commons: ACAD8
MetabolismMetaCyc: ACAD8
HUMANCyc: ACAD8
RegulationEnsembl's Regulation: ENSG00000151498
miRBase: chr11 :134,123,433-134,135,746
TargetScan: NM_014384
cisRED: ENSG00000151498
ContextiHOP: ACAD8
cancer metabolism search in PubMed: ACAD8
UCL Cancer Institute: ACAD8
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for ACAD8(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ACAD8
Familial Cancer Database: ACAD8
* 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_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM 604773; gene.
611283; phenotype.
Orphanet 79159; Isobutyryl-CoA dehydrogenase deficiency.
DiseaseKEGG Disease: ACAD8
MedGen: ACAD8 (Human Medical Genetics with Condition)
ClinVar: ACAD8
PhenotypeMGI: ACAD8 (International Mouse Phenotyping Consortium)
PhenomicDB: ACAD8

Mutations for ACAD8
* 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 ACAD8 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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=33)
Stat. for Synonymous SNVs
(# total SNVs=13)
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
chr11:134131719-134131719p.E343K2
chr11:134131190-134131190p.A288V2
chr11:134131775-134131775p.E361E2
chr11:134130962-134130962p.R244*2
chr11:134128471-134128471p.P148L2
chr11:134127029-134127029p.F86F2
chr11:134131678-134131678p.A329V2
chr11:134126459-134126459p.E43K1
chr11:134131186-134131186p.A287T1
chr11:134127114-134127115p.G115I1

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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
# sample11 52 3 2  411  14 8
# mutation11 42 3 2  411  14 8
nonsynonymous SNV11 22 3 1  311  14 5
synonymous SNV   2    1  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])

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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
chr11:134127029p.F86F2
chr11:134127059p.G96G2
chr11:134126504p.R58R1
chr11:134131749p.T207A1
chr11:134128472p.M353V1
chr11:134131231p.A65V1
chr11:134126526p.P210L1
chr11:134131756p.K355M1
chr11:134128475p.K70N1
chr11:134131236p.G230V1

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 ACAD8 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 ACAD8

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

ACAA1,ACAD8,ACSM1,APLP2,AZGP1,C2CD2L,CES3,
ECHDC2,GGT3P,GJB1,GLB1L2,HINFP,MUCL1,NCAPD3,
NFRKB,SNX19,SPINK8,THYN1,TTC12,VPS11,VPS26B
ACAD8,APEH,BCKDHA,BDH1,C19orf54,COQ6,DCAF11,
DNAJA3,CLUH,LIAS,MRPS18B,MRPS25,NDUFA10,OPLAH,
PRMT7,RPAP1,SLC25A38,SLC37A4,TARS2,TRAP1,USP19

ACAD8,AP4B1,COQ9,CPT2,DLAT,EI24,FOXRED1,
GPD1L,MCCC1,NDUFA10,NDUFV1,NGLY1,OXSM,RPUSD4,
SDHD,SUCLG2,TAF6L,UQCRC2,USP28,VPS26B,ZW10
ACAD8,AP3S2,ATP6V0D2,SMIM14,CA2,CPT2,CTSV,
DTX4,ENTPD5,FBXO34,FUCA1,LRRC57,ME3,PDE6A,
RNLS,SH3BGRL2,STAP2,SUCLG2,TCEA3,VAV3,ZNF124
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 ACAD8
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
Organism-specific databasesPharmGKB PA24423; -.
Organism-specific databasesCTD 27034; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB01675acyl-CoA dehydrogenase family, member 8experimentalMethacrylyl-Coenzyme A
DB03147acyl-CoA dehydrogenase family, member 8experimentalFlavin-Adenine Dinucleotide
DB00161acyl-CoA dehydrogenase family, member 8approved; nutraceuticalL-Valine


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Cross referenced IDs for ACAD8
* 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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