PGS Publication: PGP000382

Publication Information (EuropePMC)
Title A saturated map of common genetic variants associated with human height.
PubMed ID 36224396(Europe PMC)
doi 10.1038/s41586-022-05275-y
Publication Date Oct. 12, 2022
Journal Nature
Author(s) Yengo L, Vedantam S, Marouli E, Sidorenko J, Bartell E, Sakaue S, Graff M, Eliasen AU, Jiang Y, Raghavan S, Miao J, Arias JD, Graham SE, Mukamel RE, Spracklen CN, Yin X, Chen SH, Ferreira T, Highland HH, Ji Y, Karaderi T, Lin K, Lüll K, Malden DE, Medina-Gomez C, Machado M, Moore A, Rüeger S, Sim X, Vrieze S, Ahluwalia TS, Akiyama M, Allison MA, Alvarez M, Andersen MK, Ani A, Appadurai V, Arbeeva L, Bhaskar S, Bielak LF, Bollepalli S, Bonnycastle LL, Bork-Jensen J, Bradfield JP, Bradford Y, Braund PS, Brody JA, Burgdorf KS, Cade BE, Cai H, Cai Q, Campbell A, Cañadas-Garre M, Catamo E, Chai JF, Chai X, Chang LC, Chang YC, Chen CH, Chesi A, Choi SH, Chung RH, Cocca M, Concas MP, Couture C, Cuellar-Partida G, Danning R, Daw EW, Degenhard F, Delgado GE, Delitala A, Demirkan A, Deng X, Devineni P, Dietl A, Dimitriou M, Dimitrov L, Dorajoo R, Ekici AB, Engmann JE, Fairhurst-Hunter Z, Farmaki AE, Faul JD, Fernandez-Lopez JC, Forer L, Francescatto M, Freitag-Wolf S, Fuchsberger C, Galesloot TE, Gao Y, Gao Z, Geller F, Giannakopoulou O, Giulianini F, Gjesing AP, Goel A, Gordon SD, Gorski M, Grove J, Guo X, Gustafsson S, Haessler J, Hansen TF, Havulinna AS, Haworth SJ, He J, Heard-Costa N, Hebbar P, Hindy G, Ho YA, Hofer E, Holliday E, Horn K, Hornsby WE, Hottenga JJ, Huang H, Huang J, Huerta-Chagoya A, Huffman JE, Hung YJ, Huo S, Hwang MY, Iha H, Ikeda DD, Isono M, Jackson AU, Jäger S, Jansen IE, Johansson I, Jonas JB, Jonsson A, Jørgensen T, Kalafati IP, Kanai M, Kanoni S, Kårhus LL, Kasturiratne A, Katsuya T, Kawaguchi T, Kember RL, Kentistou KA, Kim HN, Kim YJ, Kleber ME, Knol MJ, Kurbasic A, Lauzon M, Le P, Lea R, Lee JY, Leonard HL, Li SA, Li X, Li X, Liang J, Lin H, Lin SY, Liu J, Liu X, Lo KS, Long J, Lores-Motta L, Luan J, Lyssenko V, Lyytikäinen LP, Mahajan A, Mamakou V, Mangino M, Manichaikul A, Marten J, Mattheisen M, Mavarani L, McDaid AF, Meidtner K, Melendez TL, Mercader JM, Milaneschi Y, Miller JE, Millwood IY, Mishra PP, Mitchell RE, Møllehave LT, Morgan A, Mucha S, Munz M, Nakatochi M, Nelson CP, Nethander M, Nho CW, Nielsen AA, Nolte IM, Nongmaithem SS, Noordam R, Ntalla I, Nutile T, Pandit A, Christofidou P, Pärna K, Pauper M, Petersen ERB, Petersen LV, Pitkänen N, Polašek O, Poveda A, Preuss MH, Pyarajan S, Raffield LM, Rakugi H, Ramirez J, Rasheed A, Raven D, Rayner NW, Riveros C, Rohde R, Ruggiero D, Ruotsalainen SE, Ryan KA, Sabater-Lleal M, Saxena R, Scholz M, Sendamarai A, Shen B, Shi J, Shin JH, Sidore C, Sitlani CM, Slieker RC, Smit RAJ, Smith AV, Smith JA, Smyth LJ, Southam L, Steinthorsdottir V, Sun L, Takeuchi F, Tallapragada DSP, Taylor KD, Tayo BO, Tcheandjieu C, Terzikhan N, Tesolin P, Teumer A, Theusch E, Thompson DJ, Thorleifsson G, Timmers PRHJ, Trompet S, Turman C, Vaccargiu S, van der Laan SW, van der Most PJ, van Klinken JB, van Setten J, Verma SS, Verweij N, Veturi Y, Wang CA, Wang C, Wang L, Wang Z, Warren HR, Bin Wei W, Wickremasinghe AR, Wielscher M, Wiggins KL, Winsvold BS, Wong A, Wu Y, Wuttke M, Xia R, Xie T, Yamamoto K, Yang J, Yao J, Young H, Yousri NA, Yu L, Zeng L, Zhang W, Zhang X, Zhao JH, Zhao W, Zhou W, Zimmermann ME, Zoledziewska M, Adair LS, Adams HHH, Aguilar-Salinas CA, Al-Mulla F, Arnett DK, Asselbergs FW, Åsvold BO, Attia J, Banas B, Bandinelli S, Bennett DA, Bergler T, Bharadwaj D, Biino G, Bisgaard H, Boerwinkle E, Böger CA, Bønnelykke K, Boomsma DI, Børglum AD, Borja JB, Bouchard C, Bowden DW, Brandslund I, Brumpton B, Buring JE, Caulfield MJ, Chambers JC, Chandak GR, Chanock SJ, Chaturvedi N, Chen YI, Chen Z, Cheng CY, Christophersen IE, Ciullo M, Cole JW, Collins FS, Cooper RS, Cruz M, Cucca F, Cupples LA, Cutler MJ, Damrauer SM, Dantoft TM, de Borst GJ, de Groot LCPGM, De Jager PL, de Kleijn DPV, Janaka de Silva H, Dedoussis GV, den Hollander AI, Du S, Easton DF, Elders PJM, Eliassen AH, Ellinor PT, Elmståhl S, Erdmann J, Evans MK, Fatkin D, Feenstra B, Feitosa MF, Ferrucci L, Ford I, Fornage M, Franke A, Franks PW, Freedman BI, Gasparini P, Gieger C, Girotto G, Goddard ME, Golightly YM, Gonzalez-Villalpando C, Gordon-Larsen P, Grallert H, Grant SFA, Grarup N, Griffiths L, Gudnason V, Haiman C, Hakonarson H, Hansen T, Hartman CA, Hattersley AT, Hayward C, Heckbert SR, Heng CK, Hengstenberg C, Hewitt AW, Hishigaki H, Hoyng CB, Huang PL, Huang W, Hunt SC, Hveem K, Hyppönen E, Iacono WG, Ichihara S, Ikram MA, Isasi CR, Jackson RD, Jarvelin MR, Jin ZB, Jöckel KH, Joshi PK, Jousilahti P, Jukema JW, Kähönen M, Kamatani Y, Kang KD, Kaprio J, Kardia SLR, Karpe F, Kato N, Kee F, Kessler T, Khera AV, Khor CC, Kiemeney LALM, Kim BJ, Kim EK, Kim HL, Kirchhof P, Kivimaki M, Koh WP, Koistinen HA, Kolovou GD, Kooner JS, Kooperberg C, Köttgen A, Kovacs P, Kraaijeveld A, Kraft P, Krauss RM, Kumari M, Kutalik Z, Laakso M, Lange LA, Langenberg C, Launer LJ, Le Marchand L, Lee H, Lee NR, Lehtimäki T, Li H, Li L, Lieb W, Lin X, Lind L, Linneberg A, Liu CT, Liu J, Loeffler M, London B, Lubitz SA, Lye SJ, Mackey DA, Mägi R, Magnusson PKE, Marcus GM, Vidal PM, Martin NG, März W, Matsuda F, McGarrah RW, McGue M, McKnight AJ, Medland SE, Mellström D, Metspalu A, Mitchell BD, Mitchell P, Mook-Kanamori DO, Morris AD, Mucci LA, Munroe PB, Nalls MA, Nazarian S, Nelson AE, Neville MJ, Newton-Cheh C, Nielsen CS, Nöthen MM, Ohlsson C, Oldehinkel AJ, Orozco L, Pahkala K, Pajukanta P, Palmer CNA, Parra EJ, Pattaro C, Pedersen O, Pennell CE, Penninx BWJH, Perusse L, Peters A, Peyser PA, Porteous DJ, Posthuma D, Power C, Pramstaller PP, Province MA, Qi Q, Qu J, Rader DJ, Raitakari OT, Ralhan S, Rallidis LS, Rao DC, Redline S, Reilly DF, Reiner AP, Rhee SY, Ridker PM, Rienstra M, Ripatti S, Ritchie MD, Roden DM, Rosendaal FR, Rotter JI, Rudan I, Rutters F, Sabanayagam C, Saleheen D, Salomaa V, Samani NJ, Sanghera DK, Sattar N, Schmidt B, Schmidt H, Schmidt R, Schulze MB, Schunkert H, Scott LJ, Scott RJ, Sever P, Shiroma EJ, Shoemaker MB, Shu XO, Simonsick EM, Sims M, Singh JR, Singleton AB, Sinner MF, Smith JG, Snieder H, Spector TD, Stampfer MJ, Stark KJ, Strachan DP, 't Hart LM, Tabara Y, Tang H, Tardif JC, Thanaraj TA, Timpson NJ, Tönjes A, Tremblay A, Tuomi T, Tuomilehto J, Tusié-Luna MT, Uitterlinden AG, van Dam RM, van der Harst P, Van der Velde N, van Duijn CM, van Schoor NM, Vitart V, Völker U, Vollenweider P, Völzke H, Wacher-Rodarte NH, Walker M, Wang YX, Wareham NJ, Watanabe RM, Watkins H, Weir DR, Werge TM, Widen E, Wilkens LR, Willemsen G, Willett WC, Wilson JF, Wong TY, Woo JT, Wright AF, Wu JY, Xu H, Yajnik CS, Yokota M, Yuan JM, Zeggini E, Zemel BS, Zheng W, Zhu X, Zmuda JM, Zonderman AB, Zwart JA, 23andMe Research Team, VA Million Veteran Program, DiscovEHR (DiscovEHR and MyCode Community Health Initiative), eMERGE (Electronic Medical Records and Genomics Network), Lifelines Cohort Study, PRACTICAL Consortium, Understanding Society Scientific Group, Chasman DI, Cho YS, Heid IM, McCarthy MI, Ng MCY, O'Donnell CJ, Rivadeneira F, Thorsteinsdottir U, Sun YV, Tai ES, Boehnke M, Deloukas P, Justice AE, Lindgren CM, Loos RJF, Mohlke KL, North KE, Stefansson K, Walters RG, Winkler TW, Young KL, Loh PR, Yang J, Esko T, Assimes TL, Auton A, Abecasis GR, Willer CJ, Locke AE, Berndt SI, Lettre G, Frayling TM, Okada Y, Wood AR, Visscher PM, Hirschhorn JN.
Released in PGS Catalog: Oct. 19, 2022

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 Scoring File (FTP Link)
PGS002805
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_HIS)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 1,245,514
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002805/ScoringFiles/PGS002805.txt.gz
PGS002801
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_AFR)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 975,455
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002801/ScoringFiles/PGS002801.txt.gz
PGS002804
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_EUR)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 1,099,005
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002804/ScoringFiles/PGS002804.txt.gz
PGS002800
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_SAS)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 1,156,741
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002800/ScoringFiles/PGS002800.txt.gz
PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 1,103,042
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002802/ScoringFiles/PGS002802.txt.gz
PGS002803
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_EAS)
PGP000382 |
Yengo L et al. Nature (2022)
Height body height 990,792
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002803/ScoringFiles/PGS002803.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
PPM015523 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009974|
European Ancestry|
14,587 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.401 age, sex and 10 genetic principal components
PPM015524 PGS002804
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_EUR)
PSS009974|
European Ancestry|
14,587 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.401 age, sex and 10 genetic principal components
PPM015525 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009973|
European Ancestry|
14,058 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.399 age, sex and 10 genetic principal components
PPM015526 PGS002804
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_EUR)
PSS009973|
European Ancestry|
14,058 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.4 age, sex and 10 genetic principal components
PPM015527 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009976|
South Asian Ancestry|
9,257 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.214 age, sex and 10 genetic principal components
PPM015528 PGS002800
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_SAS)
PSS009976|
South Asian Ancestry|
9,257 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.033 age, sex and 10 genetic principal components
PPM015529 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009972|
East Asian Ancestry|
2,246 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.202 age, sex and 10 genetic principal components
PPM015530 PGS002803
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_EAS)
PSS009972|
East Asian Ancestry|
2,246 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.157 age, sex and 10 genetic principal components
PPM015531 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009975|
Hispanic or Latin American Ancestry|
5,798 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.201 age, sex and 10 genetic principal components
PPM015532 PGS002805
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_HIS)
PSS009975|
Hispanic or Latin American Ancestry|
5,798 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.131 age, sex and 10 genetic principal components
PPM015533 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009977|
African Ancestry|
6,911 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.123 age, sex and 10 genetic principal components
PPM015534 PGS002801
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_AFR)
PSS009977|
African Ancestry|
6,911 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.085 age, sex and 10 genetic principal components
PPM015535 PGS002802
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_ALL)
PSS009978|
African Ancestry|
8,238 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.094 age, sex and 10 genetic principal components
PPM015536 PGS002801
(GIANT_HEIGHT_YENGO_2022_PGS_WEIGHTS_AFR)
PSS009978|
African Ancestry|
8,238 individuals
PGP000382 |
Yengo L et al. Nature (2022)
Reported Trait: Height : 0.085 age, sex and 10 genetic principal components

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
PSS009972 2,246 individuals East Asian UKB
PSS009973 14,058 individuals European NR LLB
PSS009974 14,587 individuals European UKB
PSS009975 5,798 individuals Hispanic or Latin American PAGE
PSS009976 9,257 individuals South Asian UKB
PSS009977 6,911 individuals African unspecified PAGE
PSS009978 8,238 individuals African unspecified UKB