| Author(s) |
Vilhjalmsson, Bjarni J
Yang, Jian
Hayeck, Tristan
Essioux, Laurent
Fanous, Ayman H
Farrell, Martilias S
Frank, Josef
Franke, Lude
Freedman, Robert
Freimer, Nelson B
Friedl, Marion
Friedman, Joseph I
Fromer, Menachem
Won, Hong-Hee
Genovese, Giulio
Georgieva, Lyudmila
Gershon, Elliot S
Giegling, Ina
Giusti-Rodrguez, Paola
Godard, Stephanie
Goldstein, Jacqueline I
Golimbet, Vera
Gopal, Srihari
Gratten, Jacob
Kathiresan, Sekar
Grove, Jakob
de Haan, Lieuwe
Hammer, Christian
Hamshere, Marian L
Hansen, Mark
Hansen, Thomas
Haroutunian, Vahram
Hartmann, Annette M
Henskens, Frans A
Herms, Stefan
Pato, Michele
Hirschhorn, Joel N
Hoffmann, Per
Hofman, Andrea
Hollegaard, Mads V
Hougaard, David M
Ikeda, Masashi
Joa, Inge
Julia, Antonio
Kahn, Rene S
Kalaydjieva, Luba
Pato, Carlos
Karachanak-Yankova, Sena
Karjalainen, Juha
Kavanagh, David
Keller, Matthew C
Kelly, Brian J
Kennedy, James L
Khrunin, Andrey
Kim, Yunjung
Klovins, Janis
Knowles, James A
Tamimi, Rulla
Konte, Bettina
Kucinskas, Vaidutis
Kucinskiene, Zita Ausrele
Kuzelova-Ptackova, Hana
Kahler, Anna K
Laurent, Claudine
Keong, Jimmy Lee Chee
Lee, Sang Hong
Legge, Sophie E
Lerer, Bernard
Stahl, Eli
Li, Miaoxin
Li, Tao
Liang, Kung-Yee
Lieberman, Jeffrey
Limborska, Svetlana
Loughland, Carmel M
Lubinski, Jan
Lnnqvist, Jouko
Macek, Milan
Magnusson, Patrik K E
Zaitlen, Noah
Maher, Brion S
Maier, Wolfgang
Mallet, Jacques
Marsal, Sara
Mattheisen, Manuel
Mattingsdal, Morten
McCarley, Robert W
McDonald, Colm
McIntosh, Andrew M
Meier, Sandra
Pasaniuc, Bogdan
Meijer, Carin J
Melegh, Bela
Melle, Ingrid
Mesholam-Gately, Raquelle I
Metspalu, Andres
Michie, Patricia T
Milani, Lili
Milanova, Vihra
Mokrab, Younes
Morris, Derek W
Belbin, Gillian
Mors, Ole
Mortensen, Preben B
Murphy, Kieran C
Murray, Robin M
Myin-Germeys, Inez
Mller-Myhsok, Bertram
Nelis, Mari
Nenadic, Igor
Nertney, Deborah A
Nestadt, Gerald
Finucane, Hilary K
Kenny, Eimear E
Nicodemus, Kristin K
Nikitina-Zake, Liene
Nisenbaum, Laura
Nordin, Annelie
O'Callaghan, Eadbhard
O'Dushlaine, Colm
O'Neill, F Anthony
Oh, Sang-Yun
Olincy, Ann
Olsen, Line
Schierup, Mikkel H
Van Os, Jim
Pantelis, Christos
Papadimitriou, George N
Papiol, Sergi
Parkhomenko, Elena
Pato, Michele T
Paunio, Tiina
Pejovic-Milovancevic, Milica
Perkins, Diana O
Pietilinen, Olli
De Jager, Philip
Pimm, Jonathan
Pocklington, Andrew J
Powell, John
Price, Alkes
Pulver, Ann E
Purcell, Shaun M
Quested, Digby
Rasmussen, Henrik B
Reichenberg, Abraham
Reimers, Mark A
Patsopoulos, Nikolaos A
Richards, Alexander L
Roffman, Joshua L
Roussos, Panos
Ruderfer, Douglas M
Salomaa, Veikko
Sanders, Alan R
Schall, Ulrich
Schubert, Christian R
Schulze, Thomas G
Schwab, Sibylle G
McCarroll, Steve
Scolnick, Edward M
Scott, Rodney J
Seidman, Larry J
Shi, Jianxin
Sigurdsson, Engilbert
Silagadze, Teimuraz
Silverman, Jeremy M
Sim, Kang
Slominsky, Petr
Smoller, Jordan W
Daly, Mark
So, Hon-Cheong
Spencer, Chris C A
Stahl, Eli A
Stefansson, Hreinn
Steinberg, Stacy
Stogmann, Elisabeth
Straub, Richard E
Strengman, Eric
Strohmaier, Jana
Stroup, T Scott
Purcell, Shaun
Subramaniam, Mythily
Suvisaari, Jaana
Svrakic, Dragan M
Szatkiewicz, Jin P
Sderman, Erik
Thirumalai, Srinivas
Toncheva, Draga
Tooney, Paul A
Tosato, Sarah
Veijola, Juha
Chasman, Daniel
Waddington, John
Walsh, Dermot
Wang, Dai
Wang, Qiang
Webb, Bradley T
Weiser, Mark
Wildenauer, Dieter B
Williams, Nigel M
Williams, Stephanie
Witt, Stephanie H
Neale, Benjamin
Wolen, Aaron R
Wong, Emily H M
Wormley, Brandon K
Wu, Jing Qin
Xi, Hualin Simon
Zai, Clement C
Zheng, Xuebin
Zimprich, Fritz
Wray, Naomi R
Stefansson, Kari
Goddard, Michael
Visscher, Peter M
Adolfsson, Rolf
Andreassen, Ole A
Blackwood, Douglas H R
Bramon, Elvira
Buxbaum, Joseph D
Borglum, Anders D
Cichon, Sven
Darvasi, Ariel
Domenici, Enrico
Gusev, Alexander
Visscher, Peter M
Ehrenreich, Hannelore
Esko, Tonu
Gejman, Pablo V
Gill, Michael
Gurling, Hugh
Hultman, Christina M
Iwata, Nakao
Jablensky, Assen V
Jonsson, Erik G
Kendler, Kenneth S
Kraft, Peter
Kirov, George
Knight, Jo
Lencz, Todd
Levinson, Douglas F
Li, Qingqin S
Liu, Jianjun
Malhotra, Anil K
McCarroll, Steven A
McQuillin, Andrew
Moran, Jennifer L
Patterson, Nick
Mortensen, Preben B
Mowry, Bryan J
Nthen, Markus M
Ophoff, Roel A
Owen, Michael J
Palotie, Aarno
Pato, Carlos N
Petryshen, Tracey L
Posthuma, Danielle
Rietschel, Marcella
Price, Alkes L
Riley, Brien P
Rujescu, Dan
Sham, Pak C
Sklar, Pamela
St Clair, David
Weinberger, Daniel R
Wendland, Jens R
Werge, Thomas
Daly, Mark J
Sullivan, Patrick F
Ripke, Stephan
O'Donovan, Michael C
Kraft, Peter
Hunter, David J
Adank, Muriel
Ahsan, Habibul
Aittomaki, Kristiina
Baglietto, Laura
Berndt, Sonja
Blomquist, Carl
Canzian, Federico
Neale, Benjamin M
Chang-Claude, Jenny
Chanock, Stephen J
Crisponi, Laura
Czene, Kamila
Dahmen, Norbert
Silva, Isabel dos Santos
Easton, Douglas
Eliassen, A Heather
Figueroa, Jonine
Fletcher, Olivia
Corvin, Aiden
Garcia-Closas, Montserrat
Gaudet, Mia M
Gibson, Lorna
Haiman, Christopher A
Hall, Per
Hazra, Aditi
Hein, Rebecca
Henderson, Brian E
Hofman, Albert
Hopper, John L
Walters, James T R
Irwanto, Astrid
Johansson, Mattias
Kaaks, Rudolf
Kibriya, Muhammad G
Lichtner, Peter
Lindstrom, Sara
Liu, Jianjun
Lund, Eiliv
Makalic, Enes
Meindl, Alfons
Farh, Kai-How
Meijers-Heijboer, Hanne
Muller-Myhsok, Bertram
Muranen, Taru A
Nevanlinna, Heli
Peeters, Petra H
Peto, Julian
Prentice, Ross L
Rahman, Nazneen
Sanchez, Maria Jose
Schmidt, Daniel F
Holmans, Peter A
Schmutzler, Rita K
Southey, Melissa C
Tamimi, Rulla
Travis, Ruth
Turnbull, Clare
Uitterlinden, Andre G
van der Luijt, Rob B
Waisfisz, Quinten
Wang, Zhaoming
Whittemore, Alice S
Lindstrom, Sara
Lee, Phil
Yang, Rose
Zheng, Wei
Bulik-Sullivan, Brendan
Collier, David A
Huang, Hailiang
Pers, Tune H
Agartz, Ingrid
Agerbo, Esben
Albus, Margot
Alexander, Madeline
Amin, Farooq
Ripke, Stephan
Bacanu, Silviu A
Begemann, Martin
Belliveau, Richard A
Bene, Judit
Bergen, Sarah E
Bevilacqua, Elizabeth
Bigdeli, Tim B
Black, Donald W
Bruggeman, Richard
Buccola, Nancy G
Genovese, Giulio
Buckner, Randy L
Byerley, William
Cahn, Wiepke
Cai, Guiqing
Campion, Dominique
Cantor, Rita M
Carr, Vaughan J
Carrera, Noa
Catts, Stanley V
Chambert, Kimberly D
Loh, Po-Ru
Chan, Raymond C K
Chen, Ronald Y L
Chen, Eric Y H
Cheng, Wei
Cheung, Eric F C
Chong, Siow Ann
Cloninger, C Robert
Cohen, David
Cohen, Nadine
Cormican, Paul
Bhatia, Gaurav
Craddock, Nick
Crowley, James J
Curtis, David
Davidson, Michael
Davis, Kenneth L
Degenhardt, Franziska
Del Favero, Jurgen
DeLisi, Lynn E
Demontis, Ditte
Dikeos, Dimitris
Do, Ron
Dinan, Timothy
Djurovic, Srdjan
Donohoe, Gary
Drapeau, Elodie
Duan, Jubao
Dudbridge, Frank
Durmishi, Naser
Eichhammer, Peter
Eriksson, Johan
Escott-Price, Valentina
|
| Publication Date |
2015
|
| Abstract |
Polygenic risk scores have shown great promise in predicting complex disease risk and will become more accurate as training sample sizes increase. The standard approach for calculating risk scores involves linkage disequilibrium (LD)-based marker pruning and applying a p value threshold to association statistics, but this discards information and can reduce predictive accuracy. We introduce LDpred, a method that infers the posterior mean effect size of each marker by using a prior on effect sizes and LD information from an external reference panel. Theory and simulations show that LDpred outperforms the approach of pruning followed by thresholding, particularly at large sample sizes. Accordingly, predicted R2 increased from 20.1% to 25.3% in a large schizophrenia dataset and from 9.8% to 12.0% in a large multiple sclerosis dataset. A similar relative improvement in accuracy was observed for three additional large disease datasets and for non-European schizophrenia samples. The advantage of LDpred over existing methods will grow as sample sizes increase.
|
| Citation |
American Journal of Human Genetics, 97(4), p. 576-592
|
| ISSN |
1537-6605
0002-9297
|
| Link | |
| Language |
en
|
| Publisher |
Cell Press
|
| Title |
Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores
|
| Type of document |
Journal Article
|
| Entity Type |
Publication
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| Name | Size | format | Description | Link |
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