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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for DPYS
check button Gene summary
Basic gene informationGene symbolDPYS
Gene namedihydropyrimidinase
SynonymsDHP|DHPase
CytomapUCSC genome browser: 8q22
Type of geneprotein-coding
RefGenesNM_001385.2,
Descriptiondihydropyrimidine amidohydrolasehydantoinase
Modification date20141207
dbXrefs MIM : 613326
HGNC : HGNC
Ensembl : ENSG00000147647
HPRD : 01960
Vega : OTTHUMG00000164891
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_DPYS
BioGPS: 1807
PathwayNCI Pathway Interaction Database: DPYS
KEGG: DPYS
REACTOME: DPYS
Pathway Commons: DPYS
ContextiHOP: DPYS
ligand binding site mutation search in PubMed: DPYS
UCL Cancer Institute: DPYS
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)KidneyLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)KIRC,KIRP,KICHLIHC
Reference showing the relevant tissue of DPYS
Description by TissGene annotationsTissgsKTS
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID
GO:0006208pyrimidine nucleobase catabolic process9718352
GO:0006212uracil catabolic process10410956
GO:0006208pyrimidine nucleobase catabolic process9718352
GO:0006212uracil catabolic process10410956


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TissGeneExp for DPYS

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LUSC-1.4389782380.578037448-2.0170156862.13E-118.55E-11
LIHC8.56076658510.92938859-2.3686221.49E-067.71E-06
LUAD-0.9010987250.323734034-1.2248327594.87E-071.69E-06
KICH-1.5823874156.228364585-7.8107521.24E-121.47E-11
BRCA-1.803041345-0.478195731-1.3248456142.10E-141.05E-13
KIRP4.369089967.838430585-3.4693406253.66E-050.00013768


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TissGene-miRNA for DPYS

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for DPYS
TissGeneSNV for DPYS

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.R475QSKCM5
p.E177KSKCM3
p.P464LSKCM2
p.R391GSTAD2
p.E184KSKCM2
p.R118QSKCM2
p.G393ESKCM2
p.D402NBLCA1
p.L500MLUAD1
p.G281CLUAD1
p.E496KCOAD1
p.M297ILUAD1
p.E371KSKCM1
p.V225AKIRC1
p.I385SBLCA1
p.V455DCOAD1
p.M250ISKCM1
p.E271KSKCM1
p.A422TTHYM1
p.R355WUCEC1
p.V439MLUSC1
p.I273TBLCA1
p.N195ISKCM1
p.N424TESCA1
p.R394TLUSC1
p.H217LLIHC1
p.P487HUCEC1
p.P308HLUAD1
p.K165RHNSC1
p.G298VLUAD1
p.G324ESKCM1
p.A237GLUSC1
p.M97IHNSC1
p.I98NSKCM1
p.V488LLUSC1
p.R355WCOAD1
p.E449KSKCM1
p.R13CUCEC1
p.K153EOV1
p.L388FBLCA1
p.E215KESCA1
p.D197NBLCA1
p.G216CLUSC1
p.R465*UCEC1
p.T212ACESC1
p.Y269CHNSC1
p.V452LUCEC1
p.W137LLUAD1
p.D166YREAD1
p.A224SLUAD1
p.H518NLUAD1
p.D128NREAD1
p.R475XSTAD1
p.S109FSKCM1
p.E288GBRCA1
p.F425VSTAD1
p.G435RACC1
p.R221CSTAD1
p.R221CHNSC1
p.M1IACC1
p.R118QBLCA1
p.R391GESCA1
p.A498TPRAD1
p.R490HCOAD1
p.E288KSKCM1
p.P487AHNSC1
p.L7VKIRP1
p.E115KSKCM1
p.D128NSKCM1
p.L149FSKCM1
p.R479*LUSC1
p.G210ESKCM1
p.N426SSKCM1
p.V455DSTAD1
p.D459YSTAD1
p.A383VBLCA1
p.V240LLUAD1
p.A259SGBM1
p.E470*BLCA1
p.D508YLUAD1
p.D280YBLCA1
p.G216SSKCM1
p.Q190HCOAD1
p.R262SBLCA1
p.P467LSKCM1
p.S379ILUAD1
p.P123HLUAD1
p.K205NPAAD1
p.R118QHNSC1
p.H192LLGG1
p.D407NUCEC1
p.G393RSKCM1
p.E226KESCA1
p.V397ABLCA1
p.S415ADLBC1
p.V446ESKCM1
p.P123HBLCA1
p.R475*STAD1
p.A200SLUAD1
p.G202RPAAD1
p.A259TLUAD1
p.N424ISKCM1
p.K417QSKCM1
p.A187VPAAD1
p.A90SLUAD1
p.W285CSTAD1
p.R465QUCEC1
p.F425VBLCA1
p.D341GKIRC1
p.T456MUCEC1
p.D326ESKCM1
p.E174KSKCM1
p.A224ELUAD1
p.V446MSKCM1


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TissGeneCNV for DPYS

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for DPYS

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0TopHat-FusionPRADTCGA-FC-A4JI-01ATMEM68-DPYSOut-of-Framechr8:56656039chr8:105436616
TCGAfusionPortalPRADALUSCTCGA-60-2706-01AVPS13B-DPYSIn-frameChr8:100568881Chr8:105405219


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TissGeneNet for DPYS

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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COAD (tumor)COAD (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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HNSC (tumor)HNSC (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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KICH (tumor)KICH (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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KIRC (tumor)KIRC (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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KIRP (tumor)KIRP (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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LIHC (tumor)LIHC (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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LUAD (tumor)LUAD (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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LUSC (tumor)LUSC (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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PRAD (tumor)PRAD (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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STAD (tumor)STAD (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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THCA (tumor)THCA (normal)
DPYS, DPYSL5 (tumor)DPYS, DPYSL5 (normal)
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TissGeneProg for DPYS

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for DPYS
TissGeneDrug for DPYS

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for DPYS

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0238358Hypokalemic periodic paralysis9BeFree
umls:C0007102Malignant tumor of colon2BeFree
umls:C0026848Myopathy2BeFree
umls:C0699790Colon Carcinoma2BeFree
umls:C3495551Dihydropyrimidinuria2BeFree
umls:C0009404Colorectal Neoplasms1GAD
umls:C0013221Drug toxicity1GAD
umls:C0018801Heart failure1BeFree
umls:C0018802Congestive heart failure1BeFree
umls:C0023895Liver diseases1GAD
umls:C0024437Macular degeneration1BeFree
umls:C0024623Malignant neoplasm of stomach1BeFree
umls:C0027819Neuroblastoma1BeFree
umls:C0242383Age related macular degeneration1BeFree
umls:C0342803Dihydropyrimidinase deficiency1CLINVAR,CTD_human,ORPHANET,UNIPROT
umls:C0699791Stomach Carcinoma1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C1832916Timothy syndrome1BeFree
umls:C1959620Dihydropyrimidine Dehydrogenase Deficiency1BeFree
umls:C3714580Hypokalemic periodic paralysis type 11BeFree