Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 AACS
Basic gene info.Gene symbolAACS
Gene nameacetoacetyl-CoA synthetase
SynonymsACSF1|SUR-5
CytomapUCSC genome browser: 12q24.31
Genomic locationchr12 :125549924-125627871
Type of geneprotein-coding
RefGenesNM_023928.3,
Ensembl idENSG00000081760
Descriptionacetoacetate-CoA ligaseacyl-CoA synthetase family member 1homolog of C. elegans supressor of ras 5 (sur-5)protein sur-5 homolog
Modification date20141207
dbXrefs MIM : 614364
HGNC : HGNC
Ensembl : ENSG00000081760
HPRD : 12391
Vega : OTTHUMG00000168550
ProteinUniProt: Q86V21
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_AACS
BioGPS: 65985
Gene Expression Atlas: ENSG00000081760
The Human Protein Atlas: ENSG00000081760
PathwayNCI Pathway Interaction Database: AACS
KEGG: AACS
REACTOME: AACS
ConsensusPathDB
Pathway Commons: AACS
MetabolismMetaCyc: AACS
HUMANCyc: AACS
RegulationEnsembl's Regulation: ENSG00000081760
miRBase: chr12 :125,549,924-125,627,871
TargetScan: NM_023928
cisRED: ENSG00000081760
ContextiHOP: AACS
cancer metabolism search in PubMed: AACS
UCL Cancer Institute: AACS
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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

check002.gifOthers
OMIM 614364; gene.
614364; gene.
Orphanet
DiseaseKEGG Disease: AACS
MedGen: AACS (Human Medical Genetics with Condition)
ClinVar: AACS
PhenotypeMGI: AACS (International Mouse Phenotyping Consortium)
PhenomicDB: AACS

Mutations for AACS
* 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
ovaryAACSchr12125579304125579324chr204868350648683526
ovaryAACSchr12125604718125604738NCOR2chr12124898815124898835
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 AACS related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI962214PLXND1152723129274057129274314AACS26733212125549997125550062
BF993118AACS518412125591570125591751FBN1181277154880774148807837

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 2          1    
GAIN (# sample) 2          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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=45)
Stat. for Synonymous SNVs
(# total SNVs=16)
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
chr12:125613907-125613907p.E484K3
chr12:125576062-125576062p.G188V2
chr12:125558421-125558421p.?2
chr12:125609487-125609487p.S409F2
chr12:125609498-125609498p.P413S2
chr12:125621392-125621392p.L621L2
chr12:125621257-125621257p.N576N2
chr12:125558512-125558512p.R75L1
chr12:125603198-125603198p.M336I1
chr12:125621279-125621279p.I584F1

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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
# sample 2 73 1    12 31 97 6
# mutation 2 73 1    13 31 129 6
nonsynonymous SNV 2 61 1    8 21 68 5
synonymous SNV   12      6 1  61 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
chr12:125613907p.E484K3
chr12:125612781p.P413T2
chr12:125609498p.R462R2
chr12:125561153p.I179M1
chr12:125613986p.S409F1
chr12:125591759p.F551F1
chr12:125621339p.S182T1
chr12:125609554p.V566V1
chr12:125570932p.D194N1
chr12:125618566p.L431L1

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 AACS 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 AACS

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

AACS,AKR1D1,B3GAT1,C6orf223,FCN2,FKBP5,GGT1,
GSTM5,GUSB,IDI1,LDHD,LOC91948,LST-3TM12,MYOM2,
PNLIPRP3,RNASE11,RNASE12,SERHL2,SERHL,SLCO1B1,SULT1C3
AACS,ADAM2,ALOX15B,B3GAT1,CPB2,DHCR7,DHRS2,
FDFT1,G6PD,HIST1H4H,HPGD,IVD,PNLIPRP3,PPEF1,
MSMO1,SERHL2,SERHL,SLC15A1,SRD5A1,TARP,UGT2B28

AACS,ALDH2,ATP5B,CES3,CKAP4,CS,DDX54,
ERP29,GAPDH,GCN1L1,GMPPB,LSS,MLEC,MMAB,
MVK,PFKL,POLR3B,SCARB1,SRSF9,SH3BP1,SUOX
AACS,BEND3,C10orf95,CEP85,EPHB2,EPHB3,NXPE1,
GAL3ST2,GPR56,KIAA1244,MET,PDZD8,PTGDR,RCC2,
RNF43,RTN4R,SAMD5,SH3BP4,SLC29A2,TMEM63A,TNFRSF11A
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 AACS


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