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 DGAT1
Basic gene info.Gene symbolDGAT1
Gene namediacylglycerol O-acyltransferase 1
SynonymsARAT|ARGP1|DGAT|DIAR7
CytomapUCSC genome browser: 8q24.3
Genomic locationchr8 :145538246-145550567
Type of geneprotein-coding
RefGenesNM_012079.5,
Ensembl idENSG00000261698
DescriptionACAT related gene product 1acyl coenzyme A:cholesterol acyltransferase related gene 1acyl-CoA retinol O-fatty-acyltransferaseacyl-CoA:diacylglycerol acyltransferasediglyceride acyltransferase
Modification date20141212
dbXrefs MIM : 604900
HGNC : HGNC
Ensembl : ENSG00000185000
HPRD : 05360
Vega : OTTHUMG00000174606
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_DGAT1
BioGPS: 8694
Gene Expression Atlas: ENSG00000261698
The Human Protein Atlas: ENSG00000261698
PathwayNCI Pathway Interaction Database: DGAT1
KEGG: DGAT1
REACTOME: DGAT1
ConsensusPathDB
Pathway Commons: DGAT1
MetabolismMetaCyc: DGAT1
HUMANCyc: DGAT1
RegulationEnsembl's Regulation: ENSG00000261698
miRBase: chr8 :145,538,246-145,550,567
TargetScan: NM_012079
cisRED: ENSG00000261698
ContextiHOP: DGAT1
cancer metabolism search in PubMed: DGAT1
UCL Cancer Institute: DGAT1
Assigned class in ccmGDBC

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Phenotypic Information for DGAT1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: DGAT1
Familial Cancer Database: DGAT1
* 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_GLYCEROLIPID_METABOLISM
KEGG_RETINOL_METABOLISM
REACTOME_PHOSPHOLIPID_METABOLISM
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: DGAT1
MedGen: DGAT1 (Human Medical Genetics with Condition)
ClinVar: DGAT1
PhenotypeMGI: DGAT1 (International Mouse Phenotyping Consortium)
PhenomicDB: DGAT1

Mutations for DGAT1
* 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
* 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
ovaryDGAT1chr8145546557145546577LRRC14chr8145743628145743648
pancreasDGAT1chr8145540410145540430chr8145572109145572129
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 DGAT1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AJ571972DGAT1121538145540164145540305GLTSCR2150377194825904348260312
AK026450ZSWIM111492204450987344512944DGAT1149122038145539954145540916
BE734547DGAT1354168145540746145541627TCEB141787687485896974884487

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   1  
GAIN (# sample)          1   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=26)
Stat. for Synonymous SNVs
(# total SNVs=5)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
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
chr8:145541626-145541626p.R269H3
chr8:145540294-145540294p.G464R2
chr8:145550132-145550132p.D56E2
chr8:145540701-145540701p.S411L1
chr8:145541629-145541629p.P268H1
chr8:145540281-145540281p.A468V1
chr8:145542025-145542025p.V192A1
chr8:145540765-145540765p.Y390H1
chr8:145541660-145541660p.A258T1
chr8:145540289-145540289p.Q465H1

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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
# sample1  4    1  31  122 3
# mutation1  4    1  31  122 3
nonsynonymous SNV1  3       21  111 3
synonymous SNV   1    1  1    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
chr8:145541626p.R427H1
chr8:145540547p.A163A1
chr8:145541627p.R424R1
chr8:145540555p.Y417Y1
chr8:145541933p.E416Q1
chr8:145540576p.Y390H1
chr8:145542007p.R362L1
chr8:145540687p.S344Y1
chr8:145542011p.F337F1
chr8:145540765p.R322H1

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 DGAT1 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 DGAT1

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

ADCK5,HGH1,COMMD5,CYC1,CYHR1,DGAT1,EXOSC4,
FBXL6,GPAA1,SLC52A2,GRINA,HSF1,LRRC14,MAF1,
C8orf82,PPP1R16A,PUF60,PYCRL,SHARPIN,VPS28,ZC3H3
ABCD2,ABHD15,ACOT1,ACSL1,AQP7,BOK,CIDEC,
DGAT1,ECHS1,FAH,GYG2,HEPACAM,HEPN1,LGALS12,
LPL,MARC1,PECR,PNPLA2,PPARG,RBP4,YBX2

ADCK5,HGH1,COX6C,CYHR1,DGAT1,EXOSC4,FAM83H,
FBXL6,GLI4,SLC52A2,GRINA,MROH1,HSF1,MAF1,
MFSD3,NAPRT,OPLAH,PPP1R16A,SHARPIN,SLC39A4,VPS28
ACE2,ALPI,TMEM253,SMIM24,CHN2,CIDEB,CREB3L3,
CYP2J2,CYP4F2,DGAT1,FADS6,GLTPD2,HSD3B1,MS4A10,
NAALADL1,NAT8B,NLRP6,OIT3,SLC15A1,SLC23A1,TM6SF2
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 DGAT1


There's no related Drug.
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Cross referenced IDs for DGAT1
* 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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