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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for HPGDS |
Basic gene info. | Gene symbol | HPGDS |
Gene name | hematopoietic prostaglandin D synthase | |
Synonyms | GSTS|GSTS1-1|PGD2|PGDS | |
Cytomap | UCSC genome browser: 4q22.3 | |
Genomic location | chr4 :95219706-95264027 | |
Type of gene | protein-coding | |
RefGenes | NM_014485.2, | |
Ensembl id | ENSG00000163106 | |
Description | GST class-sigmaglutathione S-transferase sigmaglutathione-dependent PGD synthaseglutathione-dependent PGD synthetaseglutathione-requiring prostaglandin D synthasehematopoietic prostaglandin D2 synthaseprostaglandin-H2 D-isomerase | |
Modification date | 20141207 | |
dbXrefs | MIM : 602598 | |
HGNC : HGNC | ||
Ensembl : ENSG00000163106 | ||
HPRD : 04001 | ||
Vega : OTTHUMG00000130974 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_HPGDS | |
BioGPS: 27306 | ||
Gene Expression Atlas: ENSG00000163106 | ||
The Human Protein Atlas: ENSG00000163106 | ||
Pathway | NCI Pathway Interaction Database: HPGDS | |
KEGG: HPGDS | ||
REACTOME: HPGDS | ||
ConsensusPathDB | ||
Pathway Commons: HPGDS | ||
Metabolism | MetaCyc: HPGDS | |
HUMANCyc: HPGDS | ||
Regulation | Ensembl's Regulation: ENSG00000163106 | |
miRBase: chr4 :95,219,706-95,264,027 | ||
TargetScan: NM_014485 | ||
cisRED: ENSG00000163106 | ||
Context | iHOP: HPGDS | |
cancer metabolism search in PubMed: HPGDS | ||
UCL Cancer Institute: HPGDS | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for HPGDS(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: HPGDS |
Familial Cancer Database: HPGDS |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
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/ |
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KEGG_ARACHIDONIC_ACID_METABOLISM |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: HPGDS |
MedGen: HPGDS (Human Medical Genetics with Condition) | |
ClinVar: HPGDS | |
Phenotype | MGI: HPGDS (International Mouse Phenotyping Consortium) |
PhenomicDB: HPGDS |
Mutations for HPGDS |
* 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. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows HPGDS related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=13) | (# total SNVs=3) |
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(# total SNVs=1) | (# total SNVs=0) |
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* 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 position | Mutation(aa) | Unique sampleID count |
chr4:95220653-95220653 | p.R193Q | 2 |
chr4:95239059-95239059 | p.S64I | 1 |
chr4:95223334-95223334 | p.T133K | 1 |
chr4:95239087-95239087 | p.E55K | 1 |
chr4:95223336-95223336 | p.D132D | 1 |
chr4:95239089-95239089 | p.L54fs*12 | 1 |
chr4:95220654-95220654 | p.R193* | 1 |
chr4:95223384-95223384 | p.F116F | 1 |
chr4:95239101-95239101 | p.K50R | 1 |
chr4:95220656-95220656 | p.K192R | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 1 | 2 | 1 | 1 |   |   | 1 |   | 1 |   |   | 2 | 1 |   |   |   | 5 | 1 |   | 2 |
# mutation | 1 | 2 | 1 | 1 |   |   | 1 |   | 1 |   |   | 2 | 1 |   |   |   | 5 | 1 |   | 2 |
nonsynonymous SNV | 1 | 2 |   | 1 |   |   |   |   | 1 |   |   | 1 |   |   |   |   | 3 | 1 |   | 2 |
synonymous SNV |   |   | 1 |   |   |   | 1 |   |   |   |   | 1 | 1 |   |   |   | 2 |   |   |   |
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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* 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 Position | Mutation(aa) | Unique sampleID count |
chr4:95229885 | p.E55K | 1 |
chr4:95220653 | p.K50R | 1 |
chr4:95229888 | p.R193L | 1 |
chr4:95220656 | p.D38N | 1 |
chr4:95239050 | p.K192R | 1 |
chr4:95220697 | p.Y29H | 1 |
chr4:95239059 | p.R178R | 1 |
chr4:95220769 | p.R12R | 1 |
chr4:95239087 | p.E154D | 1 |
chr4:95220778 | p.F151F | 1 |
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* 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. |
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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 HPGDS |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* 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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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* 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 |
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ALOX5AP,GCSAML,CDK15,CNRIP1,COPZ2,CPA3,CX3CR1, DCN,GATA1,GPR34,HPGDS,HTRA1,LILRA2,LY86, MMP2,MS4A2,PDGFRL,RASGRP4,SIGLEC6,SIGLEC17P,TREM2 | BCAT1,C3AR1,CD209,CD33,CTSC,DAB2,FCER1G, FCGR2B,FOLR2,HPGDS,HRH1,LGMN,LOC283070,MRC1, MS4A4A,MS4A6A,RASGRP4,RNASE1,S100A10,SLC24A4,TLR8 | ||||
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A2M,ARHGAP20,C1orf186,C1S,CCR8,CD1C,CD1E, CPA3,CTSG,FAM180A,FCER1A,GAS7,HPGDS,MS4A2, PLD4,RELN,SIGLEC17P,SLC18A2,TIMP3,TM6SF1,VCAM1 | AVIL,AZGP1,BMX,C10orf67,C11orf53,APMAP,CCDC129, GNG13,HMX2,HPGDS,HTR3C,HTR3E,KCNV1,KIFAP3, KLK13,POU2F3,PSTPIP2,PTGER2,SH2D6,SH2D7,TRPM5 |
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* 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 |
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Pharmacological Information for HPGDS |
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DB Category | DB Name | DB's ID and Url link |
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* Gene Centered Interaction Network. |
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* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00143 | hematopoietic prostaglandin D synthase | approved; nutraceutical | Glutathione | ![]() | ![]() |
DB01897 | hematopoietic prostaglandin D synthase | experimental | 2-(2f-Benzothiazolyl)-5-Styryl-3-(4f-Phthalhydrazidyl)Tetrazolium Chloride | ![]() | ![]() |
DB04077 | hematopoietic prostaglandin D synthase | experimental | Glycerol | ![]() | ![]() |
DB07613 | hematopoietic prostaglandin D synthase | experimental | 3-phenyl-5-(1H-pyrazol-3-yl)isoxazole | ![]() | ![]() |
DB07614 | hematopoietic prostaglandin D synthase | experimental | PHENYL-5-(1H-PYRAZOL-3-YL)-1,3-THIAZOLE | ![]() | ![]() |
DB07615 | hematopoietic prostaglandin D synthase | experimental | 2-{[(2E)-3-(3,4-dimethoxyphenyl)prop-2-enoyl]amino}benzoic acid | ![]() | ![]() |
DB07616 | hematopoietic prostaglandin D synthase | experimental | 4-{[4-(4-fluoro-3-methylphenyl)-1,3-thiazol-2-yl]amino}-2-hydroxybenzoic acid | ![]() | ![]() |
DB07917 | hematopoietic prostaglandin D synthase | experimental | 4-(BENZHYDRYLOXY)-1-[3-(1H-TETRAAZOL-5-YL)PROPYL]PIPERIDINE | ![]() | ![]() |
DB08313 | hematopoietic prostaglandin D synthase | experimental | nocodazole | ![]() | ![]() |
DB08695 | hematopoietic prostaglandin D synthase | experimental | 3-(4-nitrophenyl)-1H-pyrazole | ![]() | ![]() |
DB08790 | hematopoietic prostaglandin D synthase | experimental | 1-PHENYL-1H-PYRAZOLE-4-CARBOXYLIC ACID | ![]() | ![]() |
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Cross referenced IDs for HPGDS |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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