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 ACY3
Basic gene info.Gene symbolACY3
Gene nameaspartoacylase (aminocyclase) 3
SynonymsACY-3|HCBP1
CytomapUCSC genome browser: 11q13.2
Genomic locationchr11 :67410025-67418130
Type of geneprotein-coding
RefGenesNM_080658.1,
Ensembl idENSG00000132744
DescriptionHCV core-binding protein 1N-acyl-aromatic-L-amino acid amidohydrolase (carboxylate-forming)acylase IIIaminoacylase-3aspartoacylase-2hepatitis C virus core-binding protein 1
Modification date20141207
dbXrefs MIM : 614413
HGNC : HGNC
Ensembl : ENSG00000132744
HPRD : 12422
Vega : OTTHUMG00000167283
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ACY3
BioGPS: 91703
Gene Expression Atlas: ENSG00000132744
The Human Protein Atlas: ENSG00000132744
PathwayNCI Pathway Interaction Database: ACY3
KEGG: ACY3
REACTOME: ACY3
ConsensusPathDB
Pathway Commons: ACY3
MetabolismMetaCyc: ACY3
HUMANCyc: ACY3
RegulationEnsembl's Regulation: ENSG00000132744
miRBase: chr11 :67,410,025-67,418,130
TargetScan: NM_080658
cisRED: ENSG00000132744
ContextiHOP: ACY3
cancer metabolism search in PubMed: ACY3
UCL Cancer Institute: ACY3
Assigned class in ccmGDBC

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Phenotypic Information for ACY3(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ACY3
Familial Cancer Database: ACY3
* 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_ALANINE_ASPARTATE_AND_GLUTAMATE_METABOLISM
KEGG_HISTIDINE_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ACY3
MedGen: ACY3 (Human Medical Genetics with Condition)
ClinVar: ACY3
PhenotypeMGI: ACY3 (International Mouse Phenotyping Consortium)
PhenomicDB: ACY3

Mutations for ACY3
* 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 ACY3 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=20)
Stat. for Synonymous SNVs
(# total SNVs=6)
Stat. for Deletions
(# total SNVs=1)
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
chr11:67414305-67414305p.N70N2
chr11:67410335-67410335p.G274R2
chr11:67410351-67410351p.E268E2
chr11:67413290-67413290p.P102L2
chr11:67410278-67410278p.V293I2
chr11:67414288-67414288p.S76N1
chr11:67410317-67410317p.P280S1
chr11:67412339-67412339p.G212G1
chr11:67413186-67413186p.M137V1
chr11:67410319-67410319p.Y279C1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1  31 4  1 33  141 4
# mutation1  31 4  1 43  141 4
nonsynonymous SNV1  31 3    32  121 3
synonymous SNV      1  1 11   2  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
chr11:67410358p.R13H1
chr11:67413199p.R233C1
chr11:67412275p.P10S1
chr11:67413233p.G212G1
chr11:67412278p.L203L1
chr11:67413297p.M195I1
chr11:67412339p.R188L1
chr11:67413302p.L187L1
chr11:67410210p.E163K1
chr11:67412541p.P315P1

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 ACY3 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 ACY3

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

ACY3,BAG5,METTL24,CCDC80,CFHR1,COL14A1,CORIN,
CRISPLD2,DEFB135,ERN2,FMO9P,FRMD7,HTR2B,MRVI1,
NEXN,OS9,PRND,SLC9A4,TMEM211,VCAN,WDR20
ACY3,SWSAP1,KDF1,LRRC75B,C2orf72,DHRS13,ELMO3,
KRTCAP3,MANEAL,PDZK1IP1,PPAP2C,PPP1R13L,PRRG2,QPCTL,
RAB25,SAMD10,SPINT1,TMEM125,TMEM61,TRPV6,TSEN54

A4GNT,ACY3,ANXA10,BCAR4,BTBD16,CCER1,COX8C,
CPS1,CYB561,FER1L5,GABRP,GATA4,KY,LIPC,
LOC100128239,LOC731789,PDZK1,SERPINA4,SLC16A2,SULT1C2,ZNF488
ACY3,SMIM24,LINC00479,DAK,DGAT1,DHDH,RMDN3,
FOXD1,GALNT14,SLC52A1,GRAMD1B,LOC647121,MMEL1,MS4A10,
NAT8B,NLRP6,PFKFB4,SLC5A1,SLC5A2,SLC7A7,TIGD3
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 ACY3
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
DB00128aspartoacylase (aminocyclase) 3approved; nutraceuticalL-Aspartic Acid


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Cross referenced IDs for ACY3
* 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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