Trait: Limb pain

Trait Information
Identifier HP_0009763
Description Chronic pain in the limbs with no clear focal etiology.
Trait category
Other trait
Synonyms 2 synonyms
  • Limb pain
  • Pain in extremities

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS019742
(TPMI_773_Lassosum2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Pain in limb Limb pain 10,074
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019742/ScoringFiles/PGS019742.txt.gz
PGS019743
(TPMI_773_LDpred2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Pain in limb Limb pain 939,894
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019743/ScoringFiles/PGS019743.txt.gz
PGS019744
(TPMI_773_MegaPRS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Pain in limb Limb pain 492,963
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019744/ScoringFiles/PGS019744.txt.gz
PGS019745
(TPMI_773_PRS-CS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Pain in limb Limb pain 983,825
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019745/ScoringFiles/PGS019745.txt.gz
PGS019746
(TPMI_773_SBayesR)
 PGP000835 |
Chen HH et al. Nature (2025)
 Pain in limb Limb pain 1,002,185
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019746/ScoringFiles/PGS019746.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		Evaluated Score PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM037924 PGS019742
(TPMI_773_Lassosum2)
 PSS013645|
East Asian Ancestry|
19,815 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Pain in limb — AUROC: 0.68205 R²: 0.01651 sex, age, array, PCs 1-10 —
PPM037925 PGS019743
(TPMI_773_LDpred2)
 PSS013644|
East Asian Ancestry|
19,815 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Pain in limb — AUROC: 0.6816 R²: 0.01644 sex, age, array, PCs 1-10 —
PPM037926 PGS019744
(TPMI_773_MegaPRS)
 PSS013646|
East Asian Ancestry|
19,815 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Pain in limb — AUROC: 0.68156 R²: 0.01649 sex, age, array, PCs 1-10 —
PPM037927 PGS019745
(TPMI_773_PRS-CS)
 PSS013647|
East Asian Ancestry|
19,815 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Pain in limb — AUROC: 0.68161 R²: 0.01644 sex, age, array, PCs 1-10 —
PPM037928 PGS019746
(TPMI_773_SBayesR)
 PSS013648|
East Asian Ancestry|
19,815 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Pain in limb — AUROC: 0.68245 R²: 0.01687 sex, age, array, PCs 1-10 —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS013644 729.5,M79.60, M79.62, M79.63, M79.64, M79.65, M79.66, M79.67 —
[
  • 209 cases
  • , 19,606 controls
]
,
46.05 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013645 729.5,M79.60, M79.62, M79.63, M79.64, M79.65, M79.66, M79.67 —
[
  • 209 cases
  • , 19,606 controls
]
,
46.05 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013646 729.5,M79.60, M79.62, M79.63, M79.64, M79.65, M79.66, M79.67 —
[
  • 209 cases
  • , 19,606 controls
]
,
46.05 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013647 729.5,M79.60, M79.62, M79.63, M79.64, M79.65, M79.66, M79.67 —
[
  • 209 cases
  • , 19,606 controls
]
,
46.05 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013648 729.5,M79.60, M79.62, M79.63, M79.64, M79.65, M79.66, M79.67 —
[
  • 209 cases
  • , 19,606 controls
]
,
46.05 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —