학술논문
Refining the accuracy of validated target identification through coding variant fine-mapping in type 2 diabetes
Document Type
Article
Author
Mahajan, Anubha; Wessel, Jennifer; Willems, Sara M.; Zhao, Wei; Robertson, Neil R.; Chu, Audrey Y.; Gan, Wei; Kitajima, Hidetoshi; Taliun, Daniel; Rayner, N. William; Guo, Xiuqing; Lu, Yingchang; Li, Man; Jensen, Richard A.; Hu, Yao; Huo, Shaofeng; Lohman, Kurt K.; Zhang, Weihua; Cook, James P.; Prins, Bram Peter; Flannick, Jason; Grarup, Niels; Trubetskoy, Vassily Vladimirovich; Kravic, Jasmina; Kim, Young Jin; Rybin, Denis V.; Yaghootkar, Hanieh; Müller-Nurasyid, Martina; Meidtner, Karina; Li-Gao, Ruifang; Varga, Tibor V.; Marten, Jonathan; Li, Jin; Smith, Albert Vernon; An, Ping; Ligthart, Symen; Gustafsson, Stefan; Malerba, Giovanni; Demirkan, Ayse; Tajes, Juan Fernandez; Steinthorsdottir, Valgerdur; Wuttke, Matthias; Lecoeur, Cécile; Preuss, Michael; Bielak, Lawrence F.; Graff, Marielisa; Highland, Heather M.; Justice, Anne E.; Liu, Dajiang J.; Marouli, Eirini; Peloso, Gina Marie; Warren, Helen R.; Afaq, Saima; Afzal, Shoaib; Ahlqvist, Emma; Almgren, Peter; Amin, Najaf; Bang, Lia B.; Bertoni, Alain G.; Bombieri, Cristina; Bork-Jensen, Jette; Brandslund, Ivan; Brody, Jennifer A.; Burtt, Noël P.; Canouil, Mickaël; Chen, Yii-Der Ida; Cho, Yoon Shin; Christensen, Cramer; Eastwood, Sophie V.; Eckardt, Kai-Uwe; Fischer, Krista; Gambaro, Giovanni; Giedraitis, Vilmantas; Grove, Megan L.; de Haan, Hugoline G.; Hackinger, Sophie; Hai, Yang; Han, Sohee; Tybjærg-Hansen, Anne; Hivert, Marie-France; Isomaa, Bo; Jäger, Susanne; Jørgensen, Marit E.; Jørgensen, Torben; Käräjämäki, Annemari; Kim, Bong-Jo; Kim, Sung Soo; Koistinen, Heikki A.; Kovacs, Peter; Kriebel, Jennifer; Kronenberg, Florian; Läll, Kristi; Lange, Leslie A.; Lee, Jung-Jin; Lehne, Benjamin; Li, Huaixing; Lin, Keng-Hung; Linneberg, Allan; Liu, Ching-Ti; Liu, Jun; Loh, Marie; Mägi, Reedik; Mamakou, Vasiliki; McKean-Cowdin, Roberta; Nadkarni, Girish; Neville, Matt; Nielsen, Sune F.; Ntalla, Ioanna; Peyser, Patricia A.; Rathmann, Wolfgang; Rice, Kenneth; Rich, Stephen S.; Rode, Line; Rolandsson, Olov; Schönherr, Sebastian; Selvin, Elizabeth; Small, Kerrin S.; Stančáková, Alena; Surendran, Praveen; Taylor, Kent D.; Teslovich, Tanya M.; Thorand, Barbara; Thorleifsson, Gudmar; Tin, Adrienne; Tönjes, Anke; Varbo, Anette; Witte, Daniel R.; Wood, Andrew R.; Yajnik, Pranav; Yao, Jie; Yengo, Loïc; Young, Robin; Amouyel, Philippe; Boeing, Heiner; Boerwinkle, Eric; Bottinger, Erwin P.; Chowdhury, Rajiv; Collins, Francis S.; Dedoussis, George; Dehghan, Abbas; Deloukas, Panos; Ferrario, Marco M.; Ferrières, Jean; Florez, Jose C.; Frossard, Philippe; Gudnason, Vilmundur; Harris, Tamara B.; Heckbert, Susan R.; Howson, Joanna M. M.; Ingelsson, Martin; Kathiresan, Sekar; Kee, Frank; Kuusisto, Johanna; Langenberg, Claudia; Launer, Lenore J.; Lindgren, Cecilia M.; Männistö, Satu; Meitinger, Thomas; Melander, Olle; Mohlke, Karen L.; Moitry, Marie; Morris, Andrew D.; Murray, Alison D.; de Mutsert, Renée; Orho-Melander, Marju; Owen, Katharine R.; Perola, Markus; Peters, Annette; Province, Michael A.; Rasheed, Asif; Ridker, Paul M.; Rivadineira, Fernando; Rosendaal, Frits R.; Rosengren, Anders H.; Salomaa, Veikko; Sheu, Wayne H.-H.; Sladek, Rob; Smith, Blair H.; Strauch, Konstantin; Uitterlinden, André G.; Varma, Rohit; Willer, Cristen J.; Blüher, Matthias; Butterworth, Adam S.; Chambers, John Campbell; Chasman, Daniel I.; Danesh, John; van Duijn, Cornelia; Dupuis, Josée; Franco, Oscar H.; Franks, Paul W.; Froguel, Philippe; Grallert, Harald; Groop, Leif; Han, Bok-Ghee; Hansen, Torben; Hattersley, Andrew T.; Hayward, Caroline; Ingelsson, Erik; Kardia, Sharon L. R.; Karpe, Fredrik; Kooner, Jaspal Singh; Köttgen, Anna; Kuulasmaa, Kari; Laakso, Markku; Lin, Xu; Lind, Lars; Liu, Yongmei; Loos, Ruth J. F.; Marchini, Jonathan; Metspalu, Andres; Mook-Kanamori, Dennis; Nordestgaard, Børge G.; Palmer, Colin N. A.; Pankow, James S.; Pedersen, Oluf; Psaty, Bruce M.; Rauramaa, Rainer; Sattar, Naveed; Schulze, Matthias B.; Soranzo, Nicole; Spector, Timothy D.; Stefansson, Kari; Stumvoll, Michael; Thorsteinsdottir, Unnur; Tuomi, Tiinamaija; Tuomilehto, Jaakko; Wareham, Nicholas J.; Wilson, James G.; Zeggini, Eleftheria; Scott, Robert A.; Barroso, Inês; Frayling, Timothy M.; Goodarzi, Mark O.; Meigs, James B.; Boehnke, Michael; Saleheen, Danish; Morris, Andrew P.; Rotter, Jerome I.; McCarthy, Mark I.
Source
Nature Genetics; April 2018, Vol. 50 Issue: 4 p559-571, 13p
Subject
Language
ISSN
10614036; 15461718
Abstract
We aggregated coding variant data for 81,412 type 2 diabetes cases and 370,832 controls of diverse ancestry, identifying 40 coding variant association signals (P< 2.2 × 10−7); of these, 16 map outside known risk-associated loci. We make two important observations. First, only five of these signals are driven by low-frequency variants: even for these, effect sizes are modest (odds ratio ≤1.29). Second, when we used large-scale genome-wide association data to fine-map the associated variants in their regional context, accounting for the global enrichment of complex trait associations in coding sequence, compelling evidence for coding variant causality was obtained for only 16 signals. At 13 others, the associated coding variants clearly represent ‘false leads’ with potential to generate erroneous mechanistic inference. Coding variant associations offer a direct route to biological insight for complex diseases and identification of validated therapeutic targets; however, appropriate mechanistic inference requires careful specification of their causal contribution to disease predisposition.