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 FASN
Basic gene info.Gene symbolFASN
Gene namefatty acid synthase
SynonymsFAS|OA-519|SDR27X1
CytomapUCSC genome browser: 17q25
Genomic locationchr17 :80036213-80056106
Type of geneprotein-coding
RefGenesNM_004104.4,
Ensembl idENSG00000169710
Descriptionshort chain dehydrogenase/reductase family 27X, member 1
Modification date20141207
dbXrefs MIM : 600212
HGNC : HGNC
Ensembl : ENSG00000169710
HPRD : 02567
Vega : OTTHUMG00000178527
ProteinUniProt: P49327
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FASN
BioGPS: 2194
Gene Expression Atlas: ENSG00000169710
The Human Protein Atlas: ENSG00000169710
PathwayNCI Pathway Interaction Database: FASN
KEGG: FASN
REACTOME: FASN
ConsensusPathDB
Pathway Commons: FASN
MetabolismMetaCyc: FASN
HUMANCyc: FASN
RegulationEnsembl's Regulation: ENSG00000169710
miRBase: chr17 :80,036,213-80,056,106
TargetScan: NM_004104
cisRED: ENSG00000169710
ContextiHOP: FASN
cancer metabolism search in PubMed: FASN
UCL Cancer Institute: FASN
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of FASN in cancer cell metabolism1. Chang L, Wu P, Senthilkumar R, Tian X, Liu H, et al. (2015) Loss of fatty acid synthase suppresses the malignant phenotype of colorectal cancer cells by down-regulating energy metabolism and mTOR signaling pathway. J Cancer Res Clin Oncol. doi: 10.1007/s00432-015-2000-8. go to article
2. Patel AV, Johansson G, Colbert MC, Dasgupta B, Ratner N (2015) Fatty acid synthase is a metabolic oncogene targetable in malignant peripheral nerve sheath tumors. Neuro Oncol. doi: 10.1093/neuonc/nov076. go to article
3. Benjamin DI, Li DS, Lowe W, Heuer T, Kemble G, et al. (2015) Diacylglycerol Metabolism and Signaling Is a Driving Force Underlying FASN Inhibitor Sensitivity in Cancer Cells. ACS Chem Biol 10: 1616-1623. doi: 10.1021/acschembio.5b00240. go to article
4. Lee YJ, Choi HS, Seo MJ, Jeon HJ, Kim KJ, et al. (2015) Kaempferol suppresses lipid accumulation by inhibiting early adipogenesis in 3T3-L1 cells and zebrafish. Food Funct. doi: 10.1039/c5fo00481k. go to article
5. Loubiere C, Goiran T, Laurent K, Djabari Z, Tanti JF, et al. (2015) Metformin-induced energy deficiency leads to the inhibition of lipogenesis in prostate cancer cells. Oncotarget 6: 15652-15661. go to article

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

check002.gifOthers
OMIM 600212; gene.
600212; gene.
Orphanet
DiseaseKEGG Disease: FASN
MedGen: FASN (Human Medical Genetics with Condition)
ClinVar: FASN
PhenotypeMGI: FASN (International Mouse Phenotyping Consortium)
PhenomicDB: FASN

Mutations for FASN
* 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
There's no inter-chromosomal structural variation.
- For Intra-chromosomal Variations
There's no intra-chromosomal structural variation.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
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 FASN related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BG982750C19orf652901910116171012147FASN280416178004684480046980
BE818191FASN16164178005081380051160LAMB11553097107601021107601731
BM710952HTT5177432436273243805FASN161287178003684380036969
AF155114FBXO91171965293024752962684FASN17152716178003621480037572
AF172068FASN1352178004633580046976ESR134112186152265458152420101
AI970549LOC1005074243731229668462966916FASN71749178004091280042485
AF172069FASN1352178004633580046976ESR134112186152265458152420101
BE818234FASN4152178005081380051160LAMB11432977107601021107601731
BG982743C19orf6313101910116251012147FASN300436178004684480046980

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=121)
Stat. for Synonymous SNVs
(# total SNVs=66)
Stat. for Deletions
(# total SNVs=6)
Stat. for Insertions
(# total SNVs=2)

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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
chr17:80040808-80040808p.R1917C4
chr17:80039692-80039692p.G2064fs*102
chr17:80049433-80049433p.G386V2
chr17:80041705-80041705p.A1721T2
chr17:80046702-80046702p.M785I2
chr17:80045689-80045689p.P972L2
chr17:80040837-80040837p.R1907H2
chr17:80049217-80049217p.A458V2
chr17:80040405-80040405p.V1973L2
chr17:80047180-80047180p.F682L2

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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
# sample282171 6 44 1271111715114
# mutation282181 7 44 1271112118122
nonsynonymous SNV25214  4 33 1021111210111
synonymous SNV 3 41 3 11 25   98 11
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
chr17:80049217p.P972L2
chr17:80045689p.R429H2
chr17:80049304p.M785I2
chr17:80046702p.A458V2
chr17:80049207p.S2488S1
chr17:80038618p.L767M1
chr17:80041471p.S2236F1
chr17:80045217p.Q435R1
chr17:80046167p.S1918S1
chr17:80050833p.R49W1

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 FASN 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 FASN

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,ALDH4A1,ALOX15B,CCDC57,DCXR,ELOVL5,ETNK2,
FASN,FKBP5,GGT1,GGTLC1,GNMT,MPV17L,MVK,
SCD,SERHL2,SLC26A3,SLC26A6,SREBF1,ZBTB16,ZNF689
ACSM2A,ALDH1L1,C17orf53,IZUMO4,C20orf27,APMAP,CKB,
CYB5A,FASN,FGFRL1,GCDH,GLUL,LDHD,NDRG4,
PC,PCYT2,PMM1,SHMT1,SLC25A10,SLC25A1,TM7SF2

ACACA,ACLY,CAD,DDB1,DHCR7,DHX37,EIF4G1,
FASN,GCN1L1,HNRNPM,HTT,INCENP,KIAA0100,KPNB1,
LSS,PCNXL3,PCSK9,PDCD11,POLR1A,SCD,SOCS7
ACACA,ACSL1,ALPL,CAD,DHCR7,AGO2,FASN,
LARP1,LSS,MUC4,MUC5B,PKP4,PLXNA1,POLR1A,
PRKDC,RANGAP1,SCD,SPTBN2,TNKS1BP1,URB1,USP31
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 FASN
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryBindingDB P49327; -.
ChemistryChEMBL CHEMBL4158; -.
ChemistryBindingDB P49327; -.
ChemistryChEMBL CHEMBL4158; -.
Organism-specific databasesPharmGKB PA28006; -.
Organism-specific databasesPharmGKB PA28006; -.
Organism-specific databasesCTD 2194; -.
Organism-specific databasesCTD 2194; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB01034fatty acid synthaseapprovedCerulenin
DB01083fatty acid synthaseapproved; investigationalOrlistat
DB00363fatty acid synthaseapprovedClozapine
DB00502fatty acid synthaseapprovedHaloperidol


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Cross referenced IDs for FASN
* 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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