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 ACY1
Basic gene info.Gene symbolACY1
Gene nameaminoacylase 1
SynonymsACY-1|ACY1D|HEL-S-5
CytomapUCSC genome browser: 3p21.1
Genomic locationchr3 :52017299-52023218
Type of geneprotein-coding
RefGenesNM_000666.2,
NM_001198895.1,NM_001198896.1,NM_001198897.1,NM_001198898.1,
Ensembl idENSG00000243989
DescriptionN-acyl-L-amino-acid amidohydrolaseacylaseaminoacylase-1epididymis secretory protein Li 5
Modification date20141207
dbXrefs MIM : 104620
HGNC : HGNC
Ensembl : ENSG00000114786
Ensembl : ENSG00000243989
HPRD : 00092
Vega : OTTHUMG00000157815
Vega : OTTHUMG00000166447
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ACY1
BioGPS: 95
Gene Expression Atlas: ENSG00000243989
The Human Protein Atlas: ENSG00000243989
PathwayNCI Pathway Interaction Database: ACY1
KEGG: ACY1
REACTOME: ACY1
ConsensusPathDB
Pathway Commons: ACY1
MetabolismMetaCyc: ACY1
HUMANCyc: ACY1
RegulationEnsembl's Regulation: ENSG00000243989
miRBase: chr3 :52,017,299-52,023,218
TargetScan: NM_000666
cisRED: ENSG00000243989
ContextiHOP: ACY1
cancer metabolism search in PubMed: ACY1
UCL Cancer Institute: ACY1
Assigned class in ccmGDBC

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Phenotypic Information for ACY1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ACY1
Familial Cancer Database: ACY1
* 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_ARGININE_AND_PROLINE_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ACY1
MedGen: ACY1 (Human Medical Genetics with Condition)
ClinVar: ACY1
PhenotypeMGI: ACY1 (International Mouse Phenotyping Consortium)
PhenomicDB: ACY1

Mutations for ACY1
* 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 ACY1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI783613ACY1219035202314052023209MC1R87334168998705989987308
BM924335SERINC21659813190693931907521ACY159963935202062052020660

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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=23)
Stat. for Synonymous SNVs
(# total SNVs=9)
Stat. for Deletions
(# total SNVs=1)
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
chr3:52019910-52019910p.E103Q2
chr3:52019951-52019951p.C116C2
chr3:52018132-52018132p.Q18*2
chr3:52022553-52022553p.P312L1
chr3:52023049-52023049p.L395L1
chr3:52021212-52021212p.R236T1
chr3:52022593-52022593p.A325A1
chr3:52023054-52023054p.A399fs*>101
chr3:52021316-52021316p.?1
chr3:52018098-52018098p.P6P1

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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
# sample11 71 1  1 13    316
# mutation11 71 1  1 13    315
nonsynonymous SNV11 6  1    11    313
synonymous SNV   11    1  2      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
chr3:52019910p.E68Q,ACY12
chr3:52019951p.C81C,ACY12
chr3:52022801p.E161K,ACY11
chr3:52020670p.R164T,ACY11
chr3:52022838p.K172K,ACY11
chr3:52021073p.N191D,ACY11
chr3:52022998p.S200I,ACY11
chr3:52021202p.L218L,ACY11
chr3:52023005p.T36I,ACY11
chr3:52019429p.L231I,ACY11

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 ACY1 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 ACY1

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

ABHD14B,ACAA1,ACY1,APEH,ELP6,CCDC51,CYB561D2,
DCXR,DHRS4,ENDOG,GAMT,GSTZ1,LENG9,LOC440957,
MRPL41,NPRL2,SDSL,TEX264,TMEM115,TUSC2,UQCRC1
ACAA1,ACY1,BCAT2,RBFA,CLPP,DCXR,DDT,
DHODH,HSD17B10,ILVBL,MPST,NPRL3,OPLAH,PLEKHJ1,
POLD2,PRDX2,RAC3,SLC25A10,SLC25A6,TECR,TUFM

ACAA1,ACY1,APEH,ATP5J,TMEM253,CBLC,CCDC51,
COX5A,CYB561D2,GALE,GLYCTK,JAGN1,MMAB,PPP1R14D,
SPCS1,TEX264,TMEM141,TSPO,TST,UQCRC1,WIBG
ACY1,ALPI,APOBEC1,APOM,AQP11,FUOM,TMEM253,
CBR1,DGAT1,DHRS7,GOLT1A,HNF4G,KRT14,LRRC28,
MS4A8,OIT3,PCK2,PLA2G12B,PRAP1,TM4SF5,TMEM120A
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 ACY1
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
DB00128aminoacylase 1approved; nutraceuticalL-Aspartic Acid


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Cross referenced IDs for ACY1
* 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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