| Title: |
Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis. |
| Authors: |
Sieberts, S; Zhu, Fan; García-García, Javier; Stahl, Eli; Pratap, Abhishek; Pandey, Gaurav; Pappas, Dimitrios; Aguilar, Daniel; Anton, Bernat; Bonet, Bo; Eksi, Ridvan; Fornés, Oriol; Guney, Emre; Li, Hongdong; Marín, Manuel; Panwar, Bharat; Planas-Iglesias, Joan; Poglayen, Daniel; Cui, Jing; Falcao, Andre O.; Suver, Christine; Hoff, Bruce; Balagurusamy, S; Dillenberger, Donna; Neto, Elias Chaibub; Norman, Thea; Aittokallio, Tero; Ammad-Ud-Din, Muhammad; Azencott, Chloe-Agathe; Bellón, Víctor; Boeva, Valentina; Bunte, Kerstin; Chheda, Himanshu; Cheng, Cheng; Corander, Jukka; Dumontier, Michel; Goldenberg, Anna; Gopalacharyulu, Peddinti; Hajiloo, Mohsen; Hidru, Daniel; Jaiswal, Alok; Kaski, S; Khalfaoui, Beyrem; Khan, Ali; Kramer, Eric R.; Marttinen, Pekka; Mezlini, Aziz M.; Molparia, Bhuvan; Pirinen, Matti; Saarela, Janna; Samwald, Matthias; Stoven, Véronique; Tang, Hao; Tang, Jing; Torkamani, Ali; Vert, Jean-Philippe; Wang, Bo; Wang, Tao; Wennerberg, Krister; Wineinger, Nathan E.; Guan, Guanghua; Xie, Yang; Yeung, Rae; Zhan, Xiaowei; Zhao, Cheng; Calaza, Manuel; Elmarakeby, Haitham; Heath, S.; Long, Quan; Moore, Jonathan D.; Opiyo, Stephen; Savage, S.; Zhu, Jun; Greenberg, Jeff; Kremer, Joel; Michaud, Kaleb; Barton, Anne; Coenen, Marieke; Mariette, Xavier; Miceli, Corinne; Shadick, Nancy; Weinblatt, Michael; de Vries, Niek; Tak, Paul P.; Gerlag, Danielle; Huizinga, Tom W J; Kurreeman, Fina; Allaart, Cornelia F.; Bridges, S; Bridges, S Louis; Criswell, Lindsey; Moreland, Larry; Klareskog, Lars; Saevarsdottir, Saedis; Padyukov, Leonid; Gregersen, Peter K; Friend, Stephen; Plenge, Robert; Stolovitzky, Gustavo; Oliva, Baldo; Guan, Yuanfang; Mangravite, Lara M |
| Contributors: |
Zhejiang University Hangzhou, China; Universidad del País Vasco Espainia / Euskal Herriko Unibertsitatea España = University of the Basque Country Spain = Université du pays basque Espagne (UPV / EHU); Commonwealth Scientific and Industrial Research Organisation Australia (CSIRO); Institut d'Ecologia Aquàtica; Universitat de Girona = University of Girona (UdG); Department of Medical Genetics; Faculty of Medicine-Child and Family Research Institute-Centre for Molecular Medicine and Therapeutics-University of British Columbia Canada (UBC); China Agricultural University (CAU); Computational Intelligence Research Group (CA3); Centre of Technology and Systems (CTS); Faculdade de Ciências e Tecnologia = School of Science & Technology (FCT NOVA); Universidade Nova de Lisboa = NOVA University Lisbon (NOVA)-Universidade Nova de Lisboa = NOVA University Lisbon (NOVA)-Faculdade de Ciências e Tecnologia = School of Science & Technology (FCT NOVA); Universidade Nova de Lisboa = NOVA University Lisbon (NOVA)-Universidade Nova de Lisboa = NOVA University Lisbon (NOVA); Cancer et génome: Bioinformatique, biostatistiques et épidémiologie d'un système complexe; Mines Paris - PSL (École nationale supérieure des mines de Paris); Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Institut Curie Paris -Institut National de la Santé et de la Recherche Médicale (INSERM); Centre de Bioinformatique (CBIO); Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL); Hefei University of Technology (HFUT); Stanford Center for BioMedical Informatics Research (BMIR); Stanford University; Service de génétique Rouen; CHU Rouen; Normandie Université (NU)-Normandie Université (NU)-Université de Rouen Normandie (UNIROUEN); Normandie Université (NU); Technical Research Centre of Finland; VTT Technical Research Centre of Finland (VTT); U.S. Food and Drug Administration (FDA); Jet Propulsion Laboratory (JPL); NASA-California Institute of Technology (CALTECH); Profium Oy Helsinki; Chinese Academy of Agricultural Sciences (CAAS); Business School Hohai University; Hohai University; Institute of Industrial Economics Hohai University; State Key Laboratory of Medical Genetics of China; Hunan Medical College; State Key Laboratory of Advanced Special Steel; Shanghai University; Quantitative Biomedical Research Center (QBRC); University of Texas Southwestern Medical Center; Harold C. Simmons Comprehensive Cancer Center Dallas, TX, États-Unis; Laboratoire de recherche en Hydrodynamique, Énergétique et Environnement Atmosphérique (LHEEA); École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS); China National Research Center of Intelligent Equipment for Agriculture Beijing (NRCIEA); Centro Nacional de Análisi Genómico (CNAG); Centro Nacional de Analisis Genomico Barcelona (CNAG); Gregor Mendel Institute of Molecular Plant Biology (GMI); Austrian Academy of Sciences (OeAW); Department of Mechanical and Aerospace Engineering Univ California Davis (MAE - UC Davis); University of California Davis (UC Davis); University of California (UC)-University of California (UC); Tongji University; Laboratory for Measles and Rubella; Laboratoire National de Santé Luxembourg (LNS); Department of Human Genetics; Radboud University Medical Center Nijmegen (RadboudUMC); INSERM U1012; Hôpital Bicêtre GHU AP-HP. Université Paris-Saclay, Le Kremlin-Bicêtre; Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-GHU AP-HP. Université Paris Saclay-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-GHU AP-HP. Université Paris Saclay; Università degli Studi di Camerino = University of Camerino (UNICAM); Division of Rheumatology, Immunology and Allergy and Partners Asthma Center; Brigham and Women's Hospital Boston; Department of Health Education and Promotion; Maastricht University Maastricht; Universiteit van Amsterdam = University of Amsterdam (UvA); Department of rheumatology; Leiden University Medical Center Leiden (LUMC); Universiteit Leiden = Leiden University-Universiteit Leiden = Leiden University; Rheumatology Unit, Department of Medicine; University of California San Francisco (UC San Francisco); University of California (UC); Rheumatology Unit; Karolinska Institutet = Karolinska Institute Stockholm; Merck Sharp and Dohme (Merck & Co. Inc); Structural Bioinformatics Group (GRIB), Barcelona Research Park of Biomedicine (PRBB); Universitat Pompeu Fabra Barcelona (UPF); Capital Normal University Beijing |
| Source: |
ISSN: 2041-1723. |
| Publisher Information: |
CCSD; Nature Publishing Group |
| Publication Year: |
2016 |
| Collection: |
Inserm: HAL (Institut national de la santé et de la recherche médicale) |
| Subject Terms: |
[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] |
| Description: |
International audience ; Rheumatoid arthritis (RA) affects millions world-wide. While anti-TNF treatment is widely used to reduce disease progression, treatment fails in ∼one-third of patients. No biomarker currently exists that identifies non-responders before treatment. A rigorous community-based assessment of the utility of SNP data for predicting anti-TNF treatment efficacy in RA patients was performed in the context of a DREAM Challenge (http://www.synapse.org/RA_Challenge). An open challenge framework enabled the comparative evaluation of predictions developed by 73 research groups using the most comprehensive available data and covering a wide range of state-of-the-art modelling methodologies. Despite a significant genetic heritability estimate of treatment non-response trait (h(2)=0.18, P value=0.02), no significant genetic contribution to prediction accuracy is observed. Results formally confirm the expectations of the rheumatology community that SNP information does not significantly improve predictive performance relative to standard clinical traits, thereby justifying a refocusing of future efforts on collection of other data. |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| Relation: |
info:eu-repo/semantics/altIdentifier/pmid/27549343; PUBMED: 27549343 |
| DOI: |
10.1038/ncomms12460 |
| Availability: |
https://hal.science/hal-01420921; https://hal.science/hal-01420921v1/document; https://hal.science/hal-01420921v1/file/ncomms12460.pdf; https://doi.org/10.1038/ncomms12460 |
| Rights: |
https://creativecommons.org/licenses/by-nc/4.0/ ; info:eu-repo/semantics/OpenAccess |
| Accession Number: |
edsbas.8F339B3B |
| Database: |
BASE |