PGS Publication: PGP000500

Publication Information (EuropePMC)
Title Multi-ancestry genome-wide association analyses improve resolution of genes and pathways influencing lung function and chronic obstructive pulmonary disease risk.
PubMed ID 36914875(Europe PMC)
doi 10.1038/s41588-023-01314-0
Publication Date March 13, 2023
Journal Nat Genet
Author(s) Shrine N, Izquierdo AG, Chen J, Packer R, Hall RJ, Guyatt AL, Batini C, Thompson RJ, Pavuluri C, Malik V, Hobbs BD, Moll M, Kim W, Tal-Singer R, Bakke P, Fawcett KA, John C, Coley K, Piga NN, Pozarickij A, Lin K, Millwood IY, Chen Z, Li L, China Kadoorie Biobank Collaborative Group, Wijnant SRA, Lahousse L, Brusselle G, Uitterlinden AG, Manichaikul A, Oelsner EC, Rich SS, Barr RG, Kerr SM, Vitart V, Brown MR, Wielscher M, Imboden M, Jeong A, Bartz TM, Gharib SA, Flexeder C, Karrasch S, Gieger C, Peters A, Stubbe B, Hu X, Ortega VE, Meyers DA, Bleecker ER, Gabriel SB, Gupta N, Smith AV, Luan J, Zhao JH, Hansen AF, Langhammer A, Willer C, Bhatta L, Porteous D, Smith BH, Campbell A, Sofer T, Lee J, Daviglus ML, Yu B, Lim E, Xu H, O'Connor GT, Thareja G, Albagha OME, Qatar Genome Program Research (QGPR) Consortium, Suhre K, Granell R, Faquih TO, Hiemstra PS, Slats AM, Mullin BH, Hui J, James A, Beilby J, Patasova K, Hysi P, Koskela JT, Wyss AB, Jin J, Sikdar S, Lee M, May-Wilson S, Pirastu N, Kentistou KA, Joshi PK, Timmers PRHJ, Williams AT, Free RC, Wang X, Morrison JL, Gilliland FD, Chen Z, Wang CA, Foong RE, Harris SE, Taylor A, Redmond P, Cook JP, Mahajan A, Lind L, Palviainen T, Lehtimäki T, Raitakari OT, Kaprio J, Rantanen T, Pietiläinen KH, Cox SR, Pennell CE, Hall GL, Gauderman WJ, Brightling C, Wilson JF, Vasankari T, Laitinen T, Salomaa V, Mook-Kanamori DO, Timpson NJ, Zeggini E, Dupuis J, Hayward C, Brumpton B, Langenberg C, Weiss S, Homuth G, Schmidt CO, Probst-Hensch N, Jarvelin MR, Morrison AC, Polasek O, Rudan I, Lee JH, Sayers I, Rawlins EL, Dudbridge F, Silverman EK, Strachan DP, Walters RG, Morris AP, London SJ, Cho MH, Wain LV, Hall IP, Tobin MD.
Released in PGS Catalog: Sept. 1, 2023

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

PGS Developed By This Publication

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)
PGS003865
(multiancestry_LF_GRS_FF_weights_EAS)
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Lung function (FEV1/FVC) FEV/FVC ratio 406
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003865/ScoringFiles/PGS003865.txt.gz
PGS003862
(multiancestry_LF_GRS_FF_weights_EUR)
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Lung function (FEV1/FVC) FEV/FVC ratio 442
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003862/ScoringFiles/PGS003862.txt.gz
PGS003863
(multiancestry_LF_GRS_FF_weights_AFR)
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Lung function (FEV1/FVC) FEV/FVC ratio 437
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003863/ScoringFiles/PGS003863.txt.gz
PGS003864
(multiancestry_LF_GRS_FF_weights_AMR)
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Lung function (FEV1/FVC) FEV/FVC ratio 434
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003864/ScoringFiles/PGS003864.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
PPM018752 PGS003862
(multiancestry_LF_GRS_FF_weights_EUR)
 PSS011096|
European Ancestry|
320,656 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: FEV1/FVC ratio β: 0.2787 [0.2753, 0.282] — — age, age^2, sex, height, smoking, 10 genetic PCs Beta = Standard deviation (SD) change of FEV1/FVC per SD change of GRS
PPM018753 PGS003863
(multiancestry_LF_GRS_FF_weights_AFR)
 PSS011093|
African Ancestry|
4,227 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: FEV1/FVC ratio β: 0.1534 [0.1106, 0.1961] — — age, age^2, sex, height, smoking, 10 genetic PCs Beta = Standard deviation (SD) change of FEV1/FVC per SD change of GRS
PPM018754 PGS003864
(multiancestry_LF_GRS_FF_weights_AMR)
 PSS011094|
Hispanic or Latin American Ancestry|
2,798 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: FEV1/FVC ratio β: 0.254 [0.2163, 0.2917] — — age, age^2, sex, height, smoking, 10 genetic PCs Beta = Standard deviation (SD) change of FEV1/FVC per SD change of GRS
PPM018755 PGS003865
(multiancestry_LF_GRS_FF_weights_EAS)
 PSS011095|
East Asian Ancestry|
1,564 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: FEV1/FVC ratio β: 0.196 [0.1203, 0.2716] — — age, age^2, sex, height, smoking, 10 genetic PCs Beta = Standard deviation (SD) change of FEV1/FVC per SD change of GRS
PPM018756 PGS003862
(multiancestry_LF_GRS_FF_weights_EUR)
 PSS011092|
European Ancestry|
11,074 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: Chronic obstructive pulmonary disease OR: 1.63 [1.56, 1.71] — — age, age^2, sex, height, smoking —
PPM018757 PGS003863
(multiancestry_LF_GRS_FF_weights_AFR)
 PSS011091|
African Ancestry|
2,886 individuals
 PGP000500 |
Shrine N et al. Nat Genet (2023)
 Reported Trait: Chronic obstructive pulmonary disease OR: 1.23 [1.13, 1.34] — — age, age^2, sex, height, smoking —

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
PSS011091 — —
[
  • 995 cases
  • , 1,891 controls
]
 — African unspecified — COPDGene, SPIROMICS —
PSS011092 — —
[
  • 6,746 cases
  • , 4,328 controls
]
 — European — 6 cohorts
  • COPDGene
  • ,ECLIPSE
  • ,GenKOLS
  • ,NAS
  • ,NETT
  • ,SPIROMICS
 —
PSS011093 — — 4,227 individuals — African unspecified — UKB —
PSS011094 — — 2,798 individuals — Hispanic or Latin American — UKB —
PSS011095 — — 1,564 individuals — East Asian — UKB —
PSS011096 — — 320,656 individuals — European — UKB —