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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ACSL1 |
Basic gene info. | Gene symbol | ACSL1 |
Gene name | acyl-CoA synthetase long-chain family member 1 | |
Synonyms | ACS1|FACL1|FACL2|LACS|LACS1|LACS2 | |
Cytomap | UCSC genome browser: 4q35.1 | |
Genomic location | chr4 :185676748-185747215 | |
Type of gene | protein-coding | |
RefGenes | NM_001286708.1, NM_001286710.1,NM_001286711.1,NM_001286712.1,NM_001995.3, | |
Ensembl id | ENSG00000151726 | |
Description | LACS 1LACS 2acyl-CoA synthetase 1fatty-acid-Coenzyme A ligase, long-chain 1fatty-acid-Coenzyme A ligase, long-chain 2lignoceroyl-CoA synthaselong-chain acyl-CoA synthetase 1long-chain acyl-CoA synthetase 2long-chain fatty acid-CoA ligase 2long-ch | |
Modification date | 20141207 | |
dbXrefs | MIM : 152425 | |
HGNC : HGNC | ||
Ensembl : ENSG00000151726 | ||
HPRD : 01068 | ||
Vega : OTTHUMG00000160547 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ACSL1 | |
BioGPS: 2180 | ||
Gene Expression Atlas: ENSG00000151726 | ||
The Human Protein Atlas: ENSG00000151726 | ||
Pathway | NCI Pathway Interaction Database: ACSL1 | |
KEGG: ACSL1 | ||
REACTOME: ACSL1 | ||
ConsensusPathDB | ||
Pathway Commons: ACSL1 | ||
Metabolism | MetaCyc: ACSL1 | |
HUMANCyc: ACSL1 | ||
Regulation | Ensembl's Regulation: ENSG00000151726 | |
miRBase: chr4 :185,676,748-185,747,215 | ||
TargetScan: NM_001286708 | ||
cisRED: ENSG00000151726 | ||
Context | iHOP: ACSL1 | |
cancer metabolism search in PubMed: ACSL1 | ||
UCL Cancer Institute: ACSL1 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for ACSL1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: ACSL1 |
Familial Cancer Database: ACSL1 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
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/ |
Metabolic Pathway Description | |
KEGG_FATTY_ACID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: ACSL1 |
MedGen: ACSL1 (Human Medical Genetics with Condition) | |
ClinVar: ACSL1 | |
Phenotype | MGI: ACSL1 (International Mouse Phenotyping Consortium) |
PhenomicDB: ACSL1 |
Mutations for ACSL1 |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ACSL1 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
BI020982 | MPO | 12 | 178 | 17 | 56355667 | 56355832 | ACSL1 | 171 | 480 | 4 | 185677924 | 185678233 |
Other DBs for Structural Variants |
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Copy 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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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=72) | (# total SNVs=20) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 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 position | Mutation(aa) | Unique sampleID count |
chr4:185724638-185724638 | p.R11* | 4 |
chr4:185697670-185697670 | p.G242W | 2 |
chr4:185687863-185687863 | p.F392F | 2 |
chr4:185678418-185678418 | p.V653G | 2 |
chr4:185684329-185684329 | p.E505K | 2 |
chr4:185681557-185681557 | p.R579Q | 2 |
chr4:185684398-185684398 | p.A482S | 2 |
chr4:185695007-185695007 | p.R260Q | 2 |
chr4:185681580-185681580 | p.E571D | 1 |
chr4:185689562-185689562 | p.G346R | 1 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   | 1 | 1 | 9 | 1 |   | 1 |   | 4 | 1 |   | 14 | 3 | 1 |   |   | 8 | 2 |   | 9 |
# mutation |   | 1 | 1 | 11 | 1 |   | 1 |   | 4 | 1 |   | 15 | 3 | 1 |   |   | 8 | 2 |   | 14 |
nonsynonymous SNV |   |   | 1 | 7 | 1 |   | 1 |   | 3 | 1 |   | 11 | 2 | 1 |   |   | 3 | 2 |   | 12 |
synonymous SNV |   | 1 |   | 4 |   |   |   |   | 1 |   |   | 4 | 1 |   |   |   | 5 |   |   | 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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Top 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 Position | Mutation(aa) | Unique sampleID count |
chr4:185705138 | p.G208W,ACSL1 | 2 |
chr4:185697670 | p.G106G,ACSL1 | 2 |
chr4:185687118 | p.W441C,ACSL1 | 1 |
chr4:185724474 | p.S264S,ACSL1 | 1 |
chr4:185691410 | p.L82F,ACSL1 | 1 |
chr4:185678821 | p.V605V,ACSL1 | 1 |
chr4:185681621 | p.M604V,ACSL1 | 1 |
chr4:185698093 | p.A415S,ACSL1 | 1 |
chr4:185687120 | p.S264P,ACSL1 | 1 |
chr4:185724531 | p.D79N,ACSL1 | 1 |
Other DBs for Point Mutations |
Copy Number for ACSL1 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 ACSL1 |
Gene 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. |
Differential 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-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 |
AADAT,ACSL1,AKR1B15,AKR1D1,ATP13A4,C6orf223,CLDN8, FCN2,FKBP5,GRAMD2,IDI1,LST-3TM12,MYOM2,NAMPT, PNLIPRP3,RLN3,RNASE12,SC5D,SLC41A2,SPINK8,SRD5A1 | ABCD2,ACACB,ACOT1,ACOT2,ACSL1,ACSS2,BOK, CIDEC,DGAT1,FAH,GBE1,GPAM,GYG2,HEPACAM, HEPN1,LGALS12,LPL,MARC1,MTHFD1,PDE3B,PECR | ||||
ACSL1,ALPL,C5AR1,CD163,CD209,EBF2,F13A1, FCGR2A,FCN1,FPR1,GFPT2,GNS,HEG1,HRH2, LILRA6,LOX,NLRC4,NRP1,PCDHGA12,RASGRP4,SLC1A3 | ACSL1,C6orf223,CACNA1E,DGAT2,DZIP1L,FASN,FCN2, GPAM,GYS2,HTR5A,LGALS12,LPL,MRAP,PLIN5, PLXNA4,SAA1,SAA2,SCD,SH3RF3,SPINK13,THRSP |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for ACSL1 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00131 | acyl-CoA synthetase long-chain family member 1 | approved; nutraceutical | Adenosine monophosphate | ||
DB00171 | acyl-CoA synthetase long-chain family member 1 | approved; nutraceutical | Adenosine triphosphate | ||
DB00367 | acyl-CoA synthetase long-chain family member 1 | approved; investigational | Levonorgestrel |
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Cross referenced IDs for ACSL1 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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