HPGDS

Chr 4

hematopoietic prostaglandin D synthase

Also known as: GSTS, GSTS1, GSTS1-1, PGD2, PGDS

NCBI Gene: 27306ENSG00000163106UniProt: O60760

Prostaglandin-D synthase is a sigma class glutathione-S-transferase family member. The enzyme catalyzes the conversion of PGH2 to PGD2 and plays a role in the production of prostanoids in the immune system and mast cells. The presence of this enzyme can be used to identify the differentiation stage of human megakaryocytes. [provided by RefSeq, Jul 2008]

Research Assistant →
0
Active trials
25
Pubs (1 yr)
19
P/LP submissions
0%
P/LP missense
1.63
LOEUF
Multiple*
Mechanism· predicted
Clinical Summary— HPGDS
⚡
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📋
ClinVar Variants
19 unique Pathogenic / Likely Pathogenic· 21 VUS of 53 total submissions
Explore recent and relevant literature in Research Assistant →

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD
Tolerant — LoF & missense variants common in population
LoF Constraint
1.63LOEUF
pLI 0.000
Z-score 0.14
OE 0.95 (0.57–1.63)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
-1.03Z-score
OE missense 1.28 (1.11–1.48)
135 obs / 105.4 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE0.95 (0.57–1.63)
0≤0.351.4
Missense OE1.28 (1.11–1.48)
0≤0.61.4
Synonymous OE1.09
0≤1.21.6
LoF obs/exp: 9 / 9.5Missense obs/exp: 135 / 105.4Syn Z: -0.43
DN
0.7034th %ile
GOF
0.7028th %ile
LOF
0.2484th %ile

This gene has evidence for multiple mechanisms of pathogenicity (gain-of-function and dominant-negative). Both the Badonyi & Marsh prediction and the broader genomic evidence point to gain-of-function as the predominant mechanism. Different variants in this gene may act through different mechanisms — interpret in context of the specific variant.

GOFprediction above median
DNprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

53 submitted variants in ClinVar

ClinVar

Classification Summary

Pathogenic16
Likely Pathogenic3
VUS21
Likely Benign2
Benign5
16
Pathogenic
3
Likely Pathogenic
21
VUS
2
Likely Benign
5
Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
16
0
16
Likely Pathogenic
0
0
3
0
3
VUS
0
16
5
0
21
Likely Benign
0
1
1
0
2
Benign
0
3
0
2
5
Total02025247

LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly

View in ClinVar →

Protein Context — Lollipop Plot

HPGDS · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
Open Research Assistant →
Full-Text Mentions
NLP-detected gene mentions in article bodies · via PubTator3
PubTator3
Top 5 full-text resultsSearch PubTator3 ↗
Key Publications
Landmark & review papers · by relevance
PubMed
Top 5 results · since 2015Search PubMed ↗
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC
HPGDS promotes tubular injury and interstitial inflammation in diabetic nephropathy by activating canonical pyroptosis pathway.
Huang Y et al.·Int Immunopharmacol
2026
Pharmacology and macrophage modulation of HPGDS inhibitor PK007 demonstrate reduced disease severity in DMD-affected muscles of the mdx mouse model.
Yarlagadda S et al.·Skelet Muscle
2025Open AccessFunctional
miR-665 overexpression inhibits the apoptosis of luteal cells in small ruminants suppressing HPGDS.
Yang H et al.·Theriogenology
2023
HPGDS is a novel prognostic marker associated with lipid metabolism and aggressiveness in lung adenocarcinoma.
Shao F et al.·Front Oncol
2022Open Access
Overexpressing HPGDS in adipose-derived mesenchymal stem cells reduces inflammatory state and improves wound healing in type 2 diabetic mice.
Ouyang L et al.·Stem Cell Res Ther
2022Open Access
Top 5 resultsSearch Europe PMC ↗

External Resources

Links to major genomics databases and tools

Franklin by Genoox
AI-powered variant curation and clinical analysis
DECIPHER
Genomic variants and phenotypes in rare disease patients