PGS Publication: PGP000064

Publication Information (EuropePMC)
Title Impact of common genetic determinants of Hemoglobin A1c on type 2 diabetes risk and diagnosis in ancestrally diverse populations: A transethnic genome-wide meta-analysis.
PubMed ID 28898252(Europe PMC)
doi 10.1371/journal.pmed.1002383
Publication Date Sept. 12, 2017
Journal PLoS Med
Author(s) Wheeler E, Leong A, Liu CT, Hivert MF, Strawbridge RJ, Podmore C, Li M, Yao J, Sim X, Hong J, Chu AY, Zhang W, Wang X, Chen P, Maruthur NM, Porneala BC, Sharp SJ, Jia Y, Kabagambe EK, Chang LC, Chen WM, Elks CE, Evans DS, Fan Q, Giulianini F, Go MJ, Hottenga JJ, Hu Y, Jackson AU, Kanoni S, Kim YJ, Kleber ME, Ladenvall C, Lecoeur C, Lim SH, Lu Y, Mahajan A, Marzi C, Nalls MA, Navarro P, Nolte IM, Rose LM, Rybin DV, Sanna S, Shi Y, Stram DO, Takeuchi F, Tan SP, van der Most PJ, Van Vliet-Ostaptchouk JV, Wong A, Yengo L, Zhao W, Goel A, Martinez Larrad MT, Radke D, Salo P, Tanaka T, van Iperen EPA, Abecasis G, Afaq S, Alizadeh BZ, Bertoni AG, Bonnefond A, Böttcher Y, Bottinger EP, Campbell H, Carlson OD, Chen CH, Cho YS, Garvey WT, Gieger C, Goodarzi MO, Grallert H, Hamsten A, Hartman CA, Herder C, Hsiung CA, Huang J, Igase M, Isono M, Katsuya T, Khor CC, Kiess W, Kohara K, Kovacs P, Lee J, Lee WJ, Lehne B, Li H, Liu J, Lobbens S, Luan J, Lyssenko V, Meitinger T, Miki T, Miljkovic I, Moon S, Mulas A, Müller G, Müller-Nurasyid M, Nagaraja R, Nauck M, Pankow JS, Polasek O, Prokopenko I, Ramos PS, Rasmussen-Torvik L, Rathmann W, Rich SS, Robertson NR, Roden M, Roussel R, Rudan I, Scott RA, Scott WR, Sennblad B, Siscovick DS, Strauch K, Sun L, Swertz M, Tajuddin SM, Taylor KD, Teo YY, Tham YC, Tönjes A, Wareham NJ, Willemsen G, Wilsgaard T, Hingorani AD, EPIC-CVD Consortium, EPIC-InterAct Consortium, Lifelines Cohort Study, Egan J, Ferrucci L, Hovingh GK, Jula A, Kivimaki M, Kumari M, Njølstad I, Palmer CNA, Serrano Ríos M, Stumvoll M, Watkins H, Aung T, Blüher M, Boehnke M, Boomsma DI, Bornstein SR, Chambers JC, Chasman DI, Chen YI, Chen YT, Cheng CY, Cucca F, de Geus EJC, Deloukas P, Evans MK, Fornage M, Friedlander Y, Froguel P, Groop L, Gross MD, Harris TB, Hayward C, Heng CK, Ingelsson E, Kato N, Kim BJ, Koh WP, Kooner JS, Körner A, Kuh D, Kuusisto J, Laakso M, Lin X, Liu Y, Loos RJF, Magnusson PKE, März W, McCarthy MI, Oldehinkel AJ, Ong KK, Pedersen NL, Pereira MA, Peters A, Ridker PM, Sabanayagam C, Sale M, Saleheen D, Saltevo J, Schwarz PE, Sheu WHH, Snieder H, Spector TD, Tabara Y, Tuomilehto J, van Dam RM, Wilson JG, Wilson JF, Wolffenbuttel BHR, Wong TY, Wu JY, Yuan JM, Zonderman AB, Soranzo N, Guo X, Roberts DJ, Florez JC, Sladek R, Dupuis J, Morris AP, Tai ES, Selvin E, Rotter JI, Langenberg C, Barroso I, Meigs JB.
Released in PGS Catalog: March 27, 2020

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 PGS Scoring File (FTP Link)
PGS000128
(GS-E-AFR)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 22
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000128/ScoringFiles/PGS000128.txt.gz
PGS000129
(GS-E-EAS)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 17
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000129/ScoringFiles/PGS000129.txt.gz
PGS000130
(GS-G-EUR)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 19
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000130/ScoringFiles/PGS000130.txt.gz
PGS000132
(GS-G-EAS)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 19
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000132/ScoringFiles/PGS000132.txt.gz
PGS000131
(GS-G-AFR)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 19
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000131/ScoringFiles/PGS000131.txt.gz
PGS000127
(GS-E-EUR)
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Hemoglobin A1c HbA1c measurement 21
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000127/ScoringFiles/PGS000127.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
PPM000412 PGS000132
(GS-G-EAS)
PSS000235|
East Asian Ancestry|
5,073 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 1.05 [1.02, 1.07] age, sex
PPM000411 PGS000131
(GS-G-AFR)
PSS000234|
African Ancestry|
1,906 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 1.0 [0.95, 1.05] age, sex
PPM000410 PGS000130
(GS-G-EUR)
PSS000236|
European Ancestry|
37,357 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 1.05 [1.04, 1.06] age, sex
PPM000409 PGS000129
(GS-E-EAS)
PSS000235|
East Asian Ancestry|
5,073 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 1.02 [0.99, 1.05] age, sex
PPM000408 PGS000128
(GS-E-AFR)
PSS000234|
African Ancestry|
1,906 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 0.98 [0.96, 1.0] age, sex
PPM000407 PGS000127
(GS-E-EUR)
PSS000236|
European Ancestry|
37,357 individuals
PGP000064 |
Wheeler E et al. PLoS Med (2017)
Reported Trait: Incident type 2 diabetes OR: 1.0 [0.99, 1.01] age, sex

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
PSS000234 Incident type 2 diabtes defined as fasting glucose >= 7 mmol/L, 2 hour glucose >= 11.1 mmol/L, antidiabetic medication use, or a physician diagnosis of type 2 diabetes Range = [10.0, 15.0] years
[
  • 262 cases
  • , 1,644 controls
]
,
37.93 % Male samples
Mean = 57.4 years
Sd = 7.43 years
African unspecified ARIC, MESA Partial overlap with discovery GWAS
PSS000235 Incident type 2 diabtes defined as fasting glucose >= 7 mmol/L, 2 hour glucose >= 11.1 mmol/L, antidiabetic medication use, or a physician diagnosis of type 2 diabetes Range = [10.0, 15.0] years
[
  • 2,391 cases
  • , 2,682 controls
]
,
47.45 % Male samples
Mean = 55.6 years
Sd = 7.37 years
East Asian MESA, SCHS Partial overlap with discovery GWAS
PSS000236 Incident type 2 diabtes defined as fasting glucose >= 7 mmol/L, 2 hour glucose >= 11.1 mmol/L, antidiabetic medication use, or a physician diagnosis of type 2 diabetes Range = [10.0, 15.0] years
[
  • 13,145 cases
  • , 24,212 controls
]
,
43.47 % Male samples
Mean = 54.63 years
Sd = 8.27 years
European ARIC, FHS, InterAct, MESA Partial overlap with discovery GWAS