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 ACSL5
Basic gene info.Gene symbolACSL5
Gene nameacyl-CoA synthetase long-chain family member 5
SynonymsACS2|ACS5|FACL5
CytomapUCSC genome browser: 10q25.1-q25.2
Genomic locationchr10 :114135022-114188138
Type of geneprotein-coding
RefGenesNM_016234.3,
NM_203379.1,NM_203380.1,
Ensembl idENSG00000197142
DescriptionFACL5 for fatty acid coenzyme A ligase 5LACS 5fatty acid coenzyme A ligase 5fatty-acid-Coenzyme A ligase, long-chain 5long-chain acyl-CoA synthetase 5long-chain fatty acid coenzyme A ligase 5long-chain-fatty-acid--CoA ligase 5
Modification date20141207
dbXrefs MIM : 605677
HGNC : HGNC
Ensembl : ENSG00000197142
HPRD : 16139
Vega : OTTHUMG00000019060
ProteinUniProt: Q9ULC5
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ACSL5
BioGPS: 51703
Gene Expression Atlas: ENSG00000197142
The Human Protein Atlas: ENSG00000197142
PathwayNCI Pathway Interaction Database: ACSL5
KEGG: ACSL5
REACTOME: ACSL5
ConsensusPathDB
Pathway Commons: ACSL5
MetabolismMetaCyc: ACSL5
HUMANCyc: ACSL5
RegulationEnsembl's Regulation: ENSG00000197142
miRBase: chr10 :114,135,022-114,188,138
TargetScan: NM_016234
cisRED: ENSG00000197142
ContextiHOP: ACSL5
cancer metabolism search in PubMed: ACSL5
UCL Cancer Institute: ACSL5
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of ACSL5 in cancer cell metabolism1. Mashima T, Oh-hara T, Sato S, Mochizuki M, Sugimoto Y, et al. (2005) p53-defective tumors with a functional apoptosome-mediated pathway: a new therapeutic target. J Natl Cancer Inst 97: 765-777. doi: 10.1093/jnci/dji133. go to article
2. Mashima T, Sato S, Okabe S, Miyata S, Matsuura M, et al. (2009) Acyl-CoA synthetase as a cancer survival factor: its inhibition enhances the efficacy of etoposide. Cancer Sci 100: 1556-1562. doi: 10.1111/j.1349-7006.2009.01203.x. go to article
3. Gaisa NT, Reinartz A, Schneider U, Klaus C, Heidenreich A, et al. (2013) Levels of acyl-coenzyme A synthetase 5 in urothelial cells and corresponding neoplasias reflect cellular differentiation. Histol Histopathol 28: 353-364. go to article
4. Klaus C, Jeon MK, Kaemmerer E, Gassler N (2013) Intestinal acyl-CoA synthetase 5: activation of long chain fatty acids and behind. World J Gastroenterol 19: 7369-7373. doi: 10.3748/wjg.v19.i42.7369. pmid: 3831218. go to article

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Phenotypic Information for ACSL5(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ACSL5
Familial Cancer Database: ACSL5
* 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_FATTY_ACID_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM 605677; gene.
Orphanet
DiseaseKEGG Disease: ACSL5
MedGen: ACSL5 (Human Medical Genetics with Condition)
ClinVar: ACSL5
PhenotypeMGI: ACSL5 (International Mouse Phenotyping Consortium)
PhenomicDB: ACSL5

Mutations for ACSL5
* 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
ovaryACSL5chr10114176034114176054chr10114032681114032701
pancreasACSL5chr10114157774114157794ACSL5chr10114158113114158133
pancreasACSL5chr10114169906114169926chr114235368742353707
soft_tissueACSL5chr10114187973114187973TCF7L2chr10114730723114730723
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 ACSL5 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AA573864ITLN11751160846463160846537ACSL57646810114171678114177666
AI302586EIF3H83248117657074117658757ACSL531942810114177613114181373

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   1    1        
GAIN (# sample)        1        
LOSS (# sample)   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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=40)
Stat. for Synonymous SNVs
(# total SNVs=7)
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
chr10:114177625-114177625p.R470C4
chr10:114164518-114164518p.S185L3
chr10:114181350-114181350p.?2
chr10:114154853-114154853p.G106E2
chr10:114176725-114176725p.K444R2
chr10:114176774-114176774p.K460N2
chr10:114181725-114181725p.A526T2
chr10:114136201-114136201p.S45L2
chr10:114177614-114177614p.G466D2
chr10:114181785-114181785p.E546K2

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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 12  3 2  22   192 4
# mutation11 12  4 2  22   253 7
nonsynonymous SNV11 10  4 2  2    193 7
synonymous SNV   2        2   6   
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
chr10:114177625p.R470S,ACSL53
chr10:114176774p.K460N,ACSL52
chr10:114181725p.A526T,ACSL52
chr10:114154681p.N49H1
chr10:114176725p.A247T,ACSL51
chr10:114168252p.K444R,ACSL51
chr10:114182125p.S636L,ACSL51
chr10:114170364p.P69P,ACSL51
chr10:114186546p.T259I,ACSL51
chr10:114154743p.I447I,ACSL51

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 ACSL5 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 ACSL5

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

ACSL5,APOL3,CASP1,CASP4,CCR5,CD53,CD74,
CIITA,CXCR6,GBP2,GBP5,HLA-DMA,HLA-DMB,HLA-DPA1,
HLA-DRA,IL18BP,IRF1,LCP2,LOC400759,SNX20,TNFRSF1B
ACSL5,APOL3,B2M,C7,CNR1,CPNE8,DENND3,
ELTD1,FCHSD2,FLI1,GIMAP2,GIMAP4,GIMAP6,IL15RA,
IL1R1,KCTD12,NOD1,PIP4K2A,SHE,SLFN11,STEAP4

ACSL5,ADD3,ATP10B,C10orf99,KIAA0226L,CDX2,CFTR,
CTTNBP2,DAPK2,EPB41L4B,EPHB2,ETS2,GPR160,GUCY2GP,
HUNK,NAALADL2,NEBL,RNF43,SGK2,TSPAN6,VAV3
ABHD12,ACSL5,ANKS4B,BTNL8,C1orf115,CXADR,DAPK2,
DCAF11,GDPD2,HADHA,LASP1,LOC151534,MEP1A,MGAT4A,
PBLD,SCIN,SLC9A3R1,SNX24,TMBIM6,TMEM82,USH1C
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 ACSL5


There's no related Drug.
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Cross referenced IDs for ACSL5
* 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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