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 DHODH
Basic gene info.Gene symbolDHODH
Gene namedihydroorotate dehydrogenase (quinone)
SynonymsDHOdehase|POADS|URA1
CytomapUCSC genome browser: 16q22
Genomic locationchr16 :72042642-72059316
Type of geneprotein-coding
RefGenesNM_001361.4,
NM_001025193.1,
Ensembl idENSG00000102967
Descriptiondihydroorotate dehydrogenase (quinone), mitochondrialdihydroorotate oxidasehuman complement of yeast URA1
Modification date20141207
dbXrefs MIM : 126064
HGNC : HGNC
Ensembl : ENSG00000102967
HPRD : 00521
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_DHODH
BioGPS: 1723
Gene Expression Atlas: ENSG00000102967
The Human Protein Atlas: ENSG00000102967
PathwayNCI Pathway Interaction Database: DHODH
KEGG: DHODH
REACTOME: DHODH
ConsensusPathDB
Pathway Commons: DHODH
MetabolismMetaCyc: DHODH
HUMANCyc: DHODH
RegulationEnsembl's Regulation: ENSG00000102967
miRBase: chr16 :72,042,642-72,059,316
TargetScan: NM_001361
cisRED: ENSG00000102967
ContextiHOP: DHODH
cancer metabolism search in PubMed: DHODH
UCL Cancer Institute: DHODH
Assigned class in ccmGDBC

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Phenotypic Information for DHODH(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: DHODH
Familial Cancer Database: DHODH
* 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_PYRIMIDINE_METABOLISM
REACTOME_METABOLISM_OF_NUCLEOTIDES
REACTOME_PYRIMIDINE_METABOLISM

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

Mutations for DHODH
* 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 DHODH related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF837427DHODH26299167205078072051051PKN1293437191457471314574947
AW006026SIN3A194157566347575663568DHODH87623167204845072057095

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
GAIN (# sample)                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=26)
Stat. for Synonymous SNVs
(# total SNVs=9)
Stat. for Deletions
(# total SNVs=1)
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
chr16:72057113-72057113p.A290V4
chr16:72042682-72042682p.K7Q2
chr16:72058060-72058060p.G384R2
chr16:72055072-72055072p.D189D2
chr16:72055123-72055123p.D206D1
chr16:72057073-72057073p.D277N1
chr16:72046163-72046163p.?1
chr16:72057435-72057435p.R346W1
chr16:72055148-72055148p.P215S1
chr16:72057108-72057108p.R288R1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 1 9  4         32 4
# mutation 1 8  4         42 5
nonsynonymous SNV 1 6  4         32 2
synonymous SNV   2            1  3
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
chr16:72058060p.R69Q2
chr16:72046133p.G384R2
chr16:72057419p.L23I1
chr16:72055100p.S298C1
chr16:72057435p.S26Y1
chr16:72045977p.A321S1
chr16:72055123p.T62N1
chr16:72057436p.S337S1
chr16:72045994p.L64M1
chr16:72055184p.D340D1

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 DHODH 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 DHODH

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

ACD,APRT,CFDP1,CHMP1A,COG4,CTU2,DDX28,
DHODH,DHX38,DUS2,FAM96B,FUK,KLHDC4,PDF,
PRMT7,PSMD7,THAP11,TMEM208,TXNL4B,VAC14,VPS4A
BCKDHA,ECI1,DCXR,DHODH,ETFB,GCDH,IDH3B,
CLUH,MKNK2,MPST,MRPS5,OPLAH,PCYT2,PLEKHJ1,
PPP1R16A,PRMT7,PXMP2,RNMTL1,SLC2A4RG,TUFM,UQCRHL

APRT,C16orf59,CTU2,DDX28,DHODH,DUS2,EEF2KMT,
KARS,KLHDC4,MRPS34,MRTO4,NOB1,PDF,PKMYT1,
PRMT7,SAC3D1,SRM,TELO2,TFAP4,TRAP1,TUFM
CDK2,DHODH,DKC1,EARS2,EI24,FARSB,GINS3,
KIAA0020,MECR,POLD2,PPAT,PPIF,PRMT5,PRPF4,
PUS7,RRP9,RUVBL1,SRFBP1,SUV39H2,TRAP1,WDR77
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 DHODH
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
DB01097dihydroorotate dehydrogenase (quinone)approved; investigationalLeflunomide
DB01117dihydroorotate dehydrogenase (quinone)approvedAtovaquone
DB02262dihydroorotate dehydrogenase (quinone)experimentalOrotic Acid
DB02613dihydroorotate dehydrogenase (quinone)experimentalDecylamine-N,N-Dimethyl-N-Oxide
DB03247dihydroorotate dehydrogenase (quinone)experimentalRiboflavin Monophosphate
DB03480dihydroorotate dehydrogenase (quinone)experimentalBrequinar Analog
DB03523dihydroorotate dehydrogenase (quinone)experimental6-Fluoro-2-(2'-Fluoro-1,1'-Biphenyl-4-Yl)-3-Methylquinoline-4-Carboxylic Acid
DB03805dihydroorotate dehydrogenase (quinone)experimentalAntiproliferative Agent A771726
DB04147dihydroorotate dehydrogenase (quinone)experimentalLauryl Dimethylamine-N-Oxide
DB04281dihydroorotate dehydrogenase (quinone)experimental2-[4-(4-Chlorophenyl)Cyclohexylidene]-3,4-Dihydroxy-1(2h)-Naphthalenone
DB04583dihydroorotate dehydrogenase (quinone)experimental5-(AMINOCARBONYL)-1,1':4',1''-TERPHENYL-3-CARBOXYLICACID
DB07443dihydroorotate dehydrogenase (quinone)experimental(2Z)-N-biphenyl-4-yl-2-cyano-3-hydroxybut-2-enamide
DB07559dihydroorotate dehydrogenase (quinone)experimental(2Z)-2-cyano-N-(2,2'-dichlorobiphenyl-4-yl)-3-hydroxybut-2-enamide
DB07561dihydroorotate dehydrogenase (quinone)experimental(2Z)-2-cyano-N-(3'-ethoxybiphenyl-4-yl)-3-hydroxybut-2-enamide
DB07646dihydroorotate dehydrogenase (quinone)experimentalUNDECYLAMINE-N,N-DIMETHYL-N-OXIDE
DB07975dihydroorotate dehydrogenase (quinone)experimental2-({[3,5-DIFLUORO-3'-(TRIFLUOROMETHOXY)BIPHENYL-4-YL]AMINO}CARBONYL)CYCLOPENT-1-ENE-1-CARBOXYLIC ACID
DB07976dihydroorotate dehydrogenase (quinone)experimental3-{[(3-FLUORO-3'-METHOXYBIPHENYL-4-YL)AMINO]CARBONYL}THIOPHENE-2-CARBOXYLIC ACID
DB07977dihydroorotate dehydrogenase (quinone)experimental3-({[3,5-DIFLUORO-3'-(TRIFLUOROMETHOXY)BIPHENYL-4-YL]AMINO}CARBONYL)THIOPHENE-2-CARBOXYLIC ACID
DB07978dihydroorotate dehydrogenase (quinone)experimental2-({[2,3,5,6-TETRAFLUORO-3'-(TRIFLUOROMETHOXY)BIPHENYL-4-YL]AMINO}CARBONYL)CYCLOPENTA-1,3-DIENE-1-CARBOXYLIC ACID
DB08006dihydroorotate dehydrogenase (quinone)experimentalN-anthracen-2-yl-5-methyl[1,2,4]triazolo[1,5-a]pyrimidin-7-amine
DB08008dihydroorotate dehydrogenase (quinone)experimental5-methyl-N-[4-(trifluoromethyl)phenyl][1,2,4]triazolo[1,5-a]pyrimidin-7-amine
DB08169dihydroorotate dehydrogenase (quinone)experimental(2Z)-N-biphenyl-4-yl-2-cyano-3-cyclopropyl-3-hydroxyprop-2-enamide
DB08172dihydroorotate dehydrogenase (quinone)experimental(2Z)-N-(3-chloro-2'-methoxybiphenyl-4-yl)-2-cyano-3-hydroxybut-2-enamide
DB08249dihydroorotate dehydrogenase (quinone)experimental3,6,9,12,15-PENTAOXATRICOSAN-1-OL
DB00130dihydroorotate dehydrogenase (quinone)approved; nutraceutical; investigationalL-Glutamine


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Cross referenced IDs for DHODH
* 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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