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 SLC27A1
Basic gene info.Gene symbolSLC27A1
Gene namesolute carrier family 27 (fatty acid transporter), member 1
SynonymsACSVL5|FATP|FATP1
CytomapUCSC genome browser: 19p13.11
Genomic locationchr19 :17581299-17616977
Type of geneprotein-coding
RefGenesNM_198580.1,
Ensembl idENSG00000130304
DescriptionFATP-1fatty acid transport protein 1long-chain fatty acid transport protein 1solute carrier family 27 member 1
Modification date20141207
dbXrefs MIM : 600691
HGNC : HGNC
Ensembl : ENSG00000130304
HPRD : 11863
Vega : OTTHUMG00000182878
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC27A1
BioGPS: 376497
Gene Expression Atlas: ENSG00000130304
The Human Protein Atlas: ENSG00000130304
PathwayNCI Pathway Interaction Database: SLC27A1
KEGG: SLC27A1
REACTOME: SLC27A1
ConsensusPathDB
Pathway Commons: SLC27A1
MetabolismMetaCyc: SLC27A1
HUMANCyc: SLC27A1
RegulationEnsembl's Regulation: ENSG00000130304
miRBase: chr19 :17,581,299-17,616,977
TargetScan: NM_198580
cisRED: ENSG00000130304
ContextiHOP: SLC27A1
cancer metabolism search in PubMed: SLC27A1
UCL Cancer Institute: SLC27A1
Assigned class in ccmGDBC

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Phenotypic Information for SLC27A1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SLC27A1
Familial Cancer Database: SLC27A1
* 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_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: SLC27A1
MedGen: SLC27A1 (Human Medical Genetics with Condition)
ClinVar: SLC27A1
PhenotypeMGI: SLC27A1 (International Mouse Phenotyping Consortium)
PhenomicDB: SLC27A1

Mutations for SLC27A1
* 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 SLC27A1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BI009992ZDHHC244273116631011266310383SLC27A1266389191761561617615741

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 # sample1         1      
GAIN (# sample)1         1      
LOSS (# sample)                 
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=47)
Stat. for Synonymous SNVs
(# total SNVs=17)
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
chr19:17612144-17612144p.A567T4
chr19:17597398-17597398p.R65H2
chr19:17615314-17615314p.R612C2
chr19:17608117-17608117p.R350R2
chr19:17611525-17611525p.D492E2
chr19:17611304-17611304p.G445E1
chr19:17597991-17597991p.E191K1
chr19:17599708-17599708p.A282A1
chr19:17611587-17611587p.R513H1
chr19:17608192-17608192p.T375T1

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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
# sample12 71 3 21 52   46 14
# mutation22 61 3 21 52   46 16
nonsynonymous SNV 1 31 1 21 31   24 10
synonymous SNV21 3  2    21   22 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
chr19:17611658p.V537M2
chr19:17615413p.A645T2
chr19:17615280p.R381C1
chr19:17599848p.R530C1
chr19:17611152p.F141F1
chr19:17611618p.I383I1
chr19:17597588p.A156A1
chr19:17615314p.F386F1
chr19:17608070p.A551E1
chr19:17611178p.R164H1

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 SLC27A1 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 SLC27A1

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

ABTB1,ACBD4,C16orf86,C21orf2,CCDC130,CCDC159,CIRBP,
CRTC1,MVB12A,GLTSCR2,LOC284440,PHF1,POLL,QTRT1,
RAB11B,SIX5,SLC27A1,SSBP4,TNFSF12,UBXN6,ZDHHC1
BTBD2,VPS51___IFT46,C12orf10,BRAT1,NELFB,CPSF3L,FUZ,
MRPS2,NFKBIL1,PEX14,POLL,PRKCSH,QTRT1,RFNG,
RFXANK,SIX5,SLC27A1,SPNS1,SPSB3,TMEM161A,XAB2

ARHGEF1,CCDC114,CHPF,DBN1,ITGA10,LMF1,LOC100127888,
LOC284440,LZTS2,MC1R,PHF1,PIAS3,POLR3GL,PRX,
SHB,SHC2,SHF,SLC27A1,STXBP1,TLR5,VAT1
ADAMTS10,C2CD2,C2orf81,EPOR,GPRC5B,HDAC7,IFFO1,
IQSEC1,KCND1,LEPRE1,LOXL3,LRRC2,MAN1C1,MAP3K12,
MXRA8,NCKAP5L,OLFML1,PTPRS,RNF112,SIX5,SLC27A1
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 SLC27A1


There's no related Drug.
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Cross referenced IDs for SLC27A1
* 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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