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 FFAR1
Basic gene info.Gene symbolFFAR1
Gene namefree fatty acid receptor 1
SynonymsFFA1R|GPCR40|GPR40
CytomapUCSC genome browser: 19q13.1
Genomic locationchr19 :35842444-35843367
Type of geneprotein-coding
RefGenesNM_005303.2,
Ensembl idENSG00000126266
DescriptionG protein-coupled receptor 40G-protein coupled receptor 40
Modification date20141207
dbXrefs MIM : 603820
HGNC : HGNC
HPRD : 04822
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FFAR1
BioGPS: 2864
Gene Expression Atlas: ENSG00000126266
The Human Protein Atlas: ENSG00000126266
PathwayNCI Pathway Interaction Database: FFAR1
KEGG: FFAR1
REACTOME: FFAR1
ConsensusPathDB
Pathway Commons: FFAR1
MetabolismMetaCyc: FFAR1
HUMANCyc: FFAR1
RegulationEnsembl's Regulation: ENSG00000126266
miRBase: chr19 :35,842,444-35,843,367
TargetScan: NM_005303
cisRED: ENSG00000126266
ContextiHOP: FFAR1
cancer metabolism search in PubMed: FFAR1
UCL Cancer Institute: FFAR1
Assigned class in ccmGDBC

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Phenotypic Information for FFAR1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FFAR1
Familial Cancer Database: FFAR1
* 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_INTEGRATION_OF_ENERGY_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: FFAR1
MedGen: FFAR1 (Human Medical Genetics with Condition)
ClinVar: FFAR1
PhenotypeMGI: FFAR1 (International Mouse Phenotyping Consortium)
PhenomicDB: FFAR1

Mutations for FFAR1
* 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 FFAR1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

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=25)
Stat. for Synonymous SNVs
(# total SNVs=10)
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
chr19:35842813-35842813p.P120L4
chr19:35843086-35843086p.R211H3
chr19:35843150-35843150p.T232T3
chr19:35843061-35843061p.V203M2
chr19:35842700-35842700p.F82F2
chr19:35842650-35842650p.A66P1
chr19:35842811-35842811p.R119S1
chr19:35843227-35843227p.R258Q1
chr19:35842942-35842942p.P163L1
chr19:35842694-35842694p.P80P1

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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
# sample 2 51 1   15    52 3
# mutation 2 51 1   15    62 3
nonsynonymous SNV 1 31 1    5    52 2
synonymous SNV 1 2      1     1  1
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
chr19:35843061p.V203M2
chr19:35842807p.R119K1
chr19:35842971p.R207Q1
chr19:35842808p.P120L1
chr19:35842977p.R221W1
chr19:35842810p.C121R1
chr19:35842982p.A222A1
chr19:35842813p.G125E1
chr19:35842987p.T232T1
chr19:35842815p.A128V1

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 FFAR1 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 FFAR1

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

AKR7A2P1,CGB,CGB1,CGB5,FFAR1,FFAR2,FLJ46111,
GCG,GRIN1,HAO2,IL17A,INS,KIRREL3,PPP1R1C,
PPY,SNORD115-26,TAGLN3,TEX28,TNNI3K,TPH2,TWISTNB
C16orf74,SMIM24,C1orf86,C1QL1,COL23A1,COL9A2,CTXN1,
FAM27B,FFAR1,KRT81,LGALS7,MAG,MIF,NKX2-5,
PTRH1,RBP1,SELM,TLE6,TMEM191A,TNFRSF18,ZNHIT2

AFF3,MROH9,CCL21,CD19,CD22,CD79B,CLEC4F,
CLEC4M,CNR2,FAM129C,FCRL1,FFAR1,KEL,KRT73,
LOC285780,MAS1,MS4A1,RASGRP2,SNX29P2,TLR10,TRIM17
ABCC11,APOBEC1,CA9,CBR1,CYP2J2,DDC,FFAR1,
GATA5,GBA3,GOLT1A,KDM8,MEP1B,MMEL1,NR1H4,
OTC,PTGR1,SLC23A1,SLC23A3,SLC2A9,TIGD3,AGMO
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 FFAR1
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
DB00159free fatty acid receptor 1approved; nutraceuticalIcosapent


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Cross referenced IDs for FFAR1
* 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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