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 ACACA
Basic gene info.Gene symbolACACA
Gene nameacetyl-CoA carboxylase alpha
SynonymsACAC|ACACAD|ACC|ACC1|ACCA
CytomapUCSC genome browser: 17q21
Genomic locationchr17 :35441926-35766902
Type of geneprotein-coding
RefGenesNM_198834.2,
NM_198836.2,NM_198837.1,NM_198838.1,NM_198839.2,
NM_000664.3,NM_198835.1,
Ensembl idENSG00000132142
DescriptionACC-alphaacetyl-CoA carboxylase 1acetyl-Coenzyme A carboxylase alpha
Modification date20141207
dbXrefs MIM : 200350
HGNC : HGNC
Ensembl : ENSG00000278540
HPRD : 01938
Vega : OTTHUMG00000188463
ProteinUniProt: Q13085
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ACACA
BioGPS: 31
Gene Expression Atlas: ENSG00000132142
The Human Protein Atlas: ENSG00000132142
PathwayNCI Pathway Interaction Database: ACACA
KEGG: ACACA
REACTOME: ACACA
ConsensusPathDB
Pathway Commons: ACACA
MetabolismMetaCyc: ACACA
HUMANCyc: ACACA
RegulationEnsembl's Regulation: ENSG00000132142
miRBase: chr17 :35,441,926-35,766,902
TargetScan: NM_198834
cisRED: ENSG00000132142
ContextiHOP: ACACA
cancer metabolism search in PubMed: ACACA
UCL Cancer Institute: ACACA
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of ACACA in cancer cell metabolism1. Moreno-Navarrete JM, Moreno M, Vidal M, Ortega F, Serrano M, et al. (2015) Deleted in breast cancer 1 plays a functional role in adipocyte differentiation. Am J Physiol Endocrinol Metab 308: E554-561. doi: 10.1152/ajpendo.00286.2014. go to article
2. Volden PA, Wonder EL, Skor MN, Carmean CM, Patel FN, et al. (2013) Chronic social isolation is associated with metabolic gene expression changes specific to mammary adipose tissue. Cancer Prev Res (Phila) 6: 634-645. doi: 10.1158/1940-6207.CAPR-12-0458. pmid: 3881320 go to article
3. Corominas-Faja B, Cuyas E, Gumuzio J, Bosch-Barrera J, Leis O, et al. (2014) Chemical inhibition of acetyl-CoA carboxylase suppresses self-renewal growth of cancer stem cells. Oncotarget 5: 8306-8316. pmid: 4226684 go to article
4. Leyssens C, Marien E, Verlinden L, Derua R, Waelkens E, et al. (2015) Remodeling of phospholipid composition in colon cancer cells by 1alpha,25(OH)2D3 and its analogs. J Steroid Biochem Mol Biol 148: 172-178. doi: 10.1016/j.jsbmb.2015.01.018. go to article
5. Vazquez-Martin A, Corominas-Faja B, Cufi S, Vellon L, Oliveras-Ferraros C, et al. (2013) The mitochondrial H(+)-ATP synthase and the lipogenic switch: new core components of metabolic reprogramming in induced pluripotent stem (iPS) cells. Cell Cycle 12: 207-218. doi: 10.4161/cc.23352. pmid: 3575450 go to article

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Phenotypic Information for ACACA(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ACACA
Familial Cancer Database: ACACA
* 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_PYRUVATE_METABOLISM
KEGG_PROPANOATE_METABOLISM
REACTOME_INTEGRATION_OF_ENERGY_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM 200350; gene.
200350; gene.
613933; phenotype.
613933; phenotype.
Orphanet
DiseaseKEGG Disease: ACACA
MedGen: ACACA (Human Medical Genetics with Condition)
ClinVar: ACACA
PhenotypeMGI: ACACA (International Mouse Phenotyping Consortium)
PhenomicDB: ACACA

Mutations for ACACA
* 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
central_nervous_systemACACAchr173575563235755632ACACAchr173575882635758826
central_nervous_systemACACAchr173575564335755643ACACAchr173575880735758807
ovaryACACAchr173549200835492028ACACAchr173549227135492291
ovaryACACAchr173550773935507759GGNBP2chr173491420734914227
ovaryACACAchr173551278135512801AATFchr173540697735406997
ovaryACACAchr173553090535530925ACACAchr173553424335534263
ovaryACACAchr173553239335532413chr174504602645046046
ovaryACACAchr173565751735657537ADRBK2chr222600873926008759
ovaryACACAchr173571473235714752chr174503905845039078
pancreasACACAchr173545374035453760MRPL45chr173646186636461886
pancreasACACAchr173547689035476910ACACAchr173547879535478815
pancreasACACAchr173549972335499743ACACAchr173561711435617134
pancreasACACAchr173562836635628386ACACAchr173563100535631025
pancreasACACAchr173565431835654338STK3chr89969816999698189
pancreasACACAchr173574187535741895LOC440434chr173640175236401772
pancreasACACAchr173575223035752250ACACAchr173575878135758801
pancreasACACAchr173575548335755683ACACAchr173575869735758897
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 ACACA related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF910869RGPD511432113146685113146827ACACA137191173559193035591984
XX000005ACACA171173547945335479523STAC270150173737434837374428
BF511511DOK3253685176928911176929254ACACA362439173554005935540136
BF800878ACACA15169173576542435765578PRKDC16228584879879748798920

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 # sample12  3  4 1 1   4 2
GAIN (# sample)11  2  4 1 1   4 2
LOSS (# sample)2  1            1
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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=176)
Stat. for Synonymous SNVs
(# total SNVs=44)
Stat. for Deletions
(# total SNVs=3)
Stat. for Insertions
(# total SNVs=1)

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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
chr17:35518742-35518742p.R1673C4
chr17:35518873-35518873p.R1629Q4
chr17:35578753-35578753p.R1097Q2
chr17:35518903-35518903p.I1619S2
chr17:35482679-35482679p.Y1899C2
chr17:35641810-35641810p.Q39E2
chr17:35578754-35578754p.R1097*2
chr17:35627678-35627678p.V266V2
chr17:35609866-35609866p.Q546Q2
chr17:35640208-35640208p.F95F2

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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=4

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1341345 12 7  1671 12518123
# mutation1441365 12 7  2071 12922134
nonsynonymous SNV1031274 11 6  144  11816129
synonymous SNV41 91 1 1  631  116 5
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
chr17:35518742p.R1673C,ACACA4
chr17:35518873p.R1629Q,ACACA3
chr17:35641791p.I1767V,ACACA2
chr17:35631165p.A45V,ACACA2
chr17:35597475p.R918Q,ACACA2
chr17:35454849p.R1460H,ACACA2
chr17:35487138p.L2117L,ACACA2
chr17:35591977p.N214K,ACACA2
chr17:35468504p.R2081L,ACACA2
chr17:35640208p.E958D,ACACA2

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 ACACA 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 ACACA

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.
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check002.gifProtein Expression Plot (RPPA)
*RPPA protein expression data were extracted from TCPA (The Cancer Proteome Atlas). Normalized data based on replicated based normalization (RBN) was used to draw following figures.

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

ACACA,ACLY,ALCAM,APOOL,AR,ATP7A,CLOCK,
CPD,DDX52,FASN,HTT,IDE,KLHL11,LMBRD2,
NF1,PRKAR2A,PXMP4,SCD,STT3B,SYNRG,TADA2A
AACS,ACACA,BCKDHB,CSPG5,EYS,FADS1,FADS2,
FASN,HIBCH,IDH1,LONP2,LSS,MCCC1,ME1,
PNPLA3,SC5D,SCD,SCP2,SUOX,TBC1D24,TMEM132B

AATF,ACACA,C17orf96,CCNE1,CDK12,CWC25,DDX52,
FASN,FXYD2,KCNA10,MED1,MED24,MLLT6,MRPL45,
PIP4K2B,RGSL1,RPL19,SNAR-A2,SOCS7,STARD3,SYNRG
ACACA,ATXN2,PRRC2A,BAZ1B,CDK5RAP2,CKAP5,DAG1,
HERC1,HUWE1,ILF3,IPO9,MDC1,PBRM1,POLR1A,
PRKDC,TCHP,TCOF1,TP53BP1,TTLL5,UBAP2L,URB1
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 ACACA
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB Q13085; -.
ChemistryChEMBL CHEMBL3351; -.
ChemistryGuidetoPHARMACOLOGY 1263; -.
ChemistryBindingDB Q13085; -.
ChemistryChEMBL CHEMBL3351; -.
ChemistryGuidetoPHARMACOLOGY 1263; -.
Organism-specific databasesPharmGKB PA24421; -.
Organism-specific databasesPharmGKB PA24421; -.
Organism-specific databasesCTD 31; -.
Organism-specific databasesCTD 31; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00121acetyl-CoA carboxylase alphaapproved; nutraceuticalBiotin
DB01132acetyl-CoA carboxylase alphaapproved; investigationalPioglitazone


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Cross referenced IDs for ACACA
* 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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