Open Targets: a platform for therapeutic target identification and validation

被引:300
作者
Koscielny, Gautier [1 ,2 ]
An, Peter [1 ,3 ]
Carvalho-Silva, Denise [1 ,4 ]
Cham, Jennifer A. [1 ,4 ]
Fumis, Luca [1 ,4 ]
Gasparyan, Rippa [1 ,3 ]
Hasan, Samiul [1 ,2 ]
Karamanis, Nikiforos [1 ,4 ]
Maguire, Michael [1 ,4 ]
Papa, Eliseo [1 ,3 ]
Pierleoni, Andrea [1 ,4 ]
Pignatelli, Miguel [1 ,4 ]
Platt, Theo [1 ,3 ]
Rowland, Francis [1 ,4 ]
Wankar, Priyanka [1 ,3 ]
Bento, A. Patricia [1 ,4 ]
Burdett, Tony [1 ,4 ]
Fabregat, Antonio [1 ,4 ]
Forbes, Simon [1 ,5 ]
Gaulton, Anna [1 ,4 ]
Gonzalez, Cristina Yenyxe [1 ,4 ]
Hermjakob, Henning [1 ,4 ,6 ]
Hersey, Anne [1 ,4 ]
Jupe, Steven [1 ,4 ]
Kafkas, Senay [1 ,4 ]
Keays, Maria [1 ,4 ]
Leroy, Catherine [1 ,4 ]
Lopez, Francisco-Javier [1 ,4 ]
Magarinos, Maria Paula [1 ,4 ]
Malone, James [1 ,4 ]
McEntyre, Johanna [1 ,4 ]
Fuentes, Alfonso Munoz-Pomer [1 ,4 ]
O'Donovan, Claire [1 ,4 ]
Papatheodorou, Irene [1 ,4 ]
Parkinson, Helen [1 ,4 ]
Palka, Barbara [1 ,4 ]
Paschall, Justin [1 ,4 ]
Petryszak, Robert [1 ,4 ]
Pratanwanich, Naruemon [1 ,4 ]
Sarntivijal, Sirarat [1 ,4 ]
Saunders, Gary [1 ,4 ]
Sidiropoulos, Konstantinos [1 ,4 ]
Smith, Thomas [1 ,4 ]
Sondka, Zbyslaw [1 ,5 ]
Stegle, Oliver [1 ,4 ]
Tang, Amy [1 ,4 ]
Turner, Edward [1 ,4 ]
Vaughan, Brendan [1 ,4 ]
Vrousgou, Olga [1 ,4 ]
Watkins, Xavier [1 ,4 ]
机构
[1] Open Targets, Wellcome Genome Campus, Cambridge CB10 1SD, England
[2] GSK, Med Res Ctr, Gunnels Wood Rd, Stevenage SG1 2NY, Herts, England
[3] Biogen, Cambridge, MA 02142 USA
[4] European Bioinformat Inst EMBL EBI, Wellcome Genome Campus, Cambridge CB10 1SD, England
[5] Wellcome Trust Sanger Inst, Wellcome Genome Campus, Cambridge CB10 1SA, England
[6] Natl Ctr Prot Res, 38 Life Sci Pk Rd, Beijing 102206, Peoples R China
关键词
PHENOTYPE ONTOLOGY; DRUG-TARGET; DATABASE; UPDATE; DISEASE; ASSOCIATION; KNOWLEDGE; RESOURCE; CATALOG; GENES;
D O I
10.1093/nar/gkw1055
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
We have designed and developed a data integration and visualization platform that provides evidence about the association of known and potential drug targets with diseases. The platform is designed to support identification and prioritization of biological targets for follow-up. Each drug target is linked to a disease using integrated genome-wide data from a broad range of data sources. The platform provides either a target-centric workflow to identify diseases that may be associated with a specific target, or a disease-centric workflow to identify targets that may be associated with a specific disease. Users can easily transition between these target-and disease-centric workflows. The Open Targets Validation Platform is accessible at https:// www.targetvalidation.org.
引用
收藏
页码:D985 / D994
页数:10
相关论文
共 53 条
[21]   Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease [J].
Jostins, Luke ;
Ripke, Stephan ;
Weersma, Rinse K. ;
Duerr, Richard H. ;
McGovern, Dermot P. ;
Hui, Ken Y. ;
Lee, James C. ;
Schumm, L. Philip ;
Sharma, Yashoda ;
Anderson, Carl A. ;
Essers, Jonah ;
Mitrovic, Mitja ;
Ning, Kaida ;
Cleynen, Isabelle ;
Theatre, Emilie ;
Spain, Sarah L. ;
Raychaudhuri, Soumya ;
Goyette, Philippe ;
Wei, Zhi ;
Abraham, Clara ;
Achkar, Jean-Paul ;
Ahmad, Tariq ;
Amininejad, Leila ;
Ananthakrishnan, Ashwin N. ;
Andersen, Vibeke ;
Andrews, Jane M. ;
Baidoo, Leonard ;
Balschun, Tobias ;
Bampton, Peter A. ;
Bitton, Alain ;
Boucher, Gabrielle ;
Brand, Stephan ;
Buening, Carsten ;
Cohain, Ariella ;
Cichon, Sven ;
D'Amato, Mauro ;
De Jong, Dirk ;
Devaney, Kathy L. ;
Dubinsky, Marla ;
Edwards, Cathryn ;
Ellinghaus, David ;
Ferguson, Lynnette R. ;
Franchimont, Denis ;
Fransen, Karin ;
Gearry, Richard ;
Georges, Michel ;
Gieger, Christian ;
Glas, Juergen ;
Haritunians, Talin ;
Hart, Ailsa .
NATURE, 2012, 491 (7422) :119-124
[22]   Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data [J].
Kibbe, Warren A. ;
Arze, Cesar ;
Felix, Victor ;
Mitraka, Elvira ;
Bolton, Evan ;
Fu, Gang ;
Mungall, Christopher J. ;
Binder, Janos X. ;
Malone, James ;
Vasant, Drashtti ;
Parkinson, Helen ;
Schriml, Lynn M. .
NUCLEIC ACIDS RESEARCH, 2015, 43 (D1) :D1071-D1078
[23]   The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data [J].
Koehler, Sebastian ;
Doelken, Sandra C. ;
Mungall, Christopher J. ;
Bauer, Sebastian ;
Firth, Helen V. ;
Bailleul-Forestier, Isabelle ;
Black, Graeme C. M. ;
Brown, Danielle L. ;
Brudno, Michael ;
Campbell, Jennifer ;
FitzPatrick, David R. ;
Eppig, Janan T. ;
Jackson, Andrew P. ;
Freson, Kathleen ;
Girdea, Marta ;
Helbig, Ingo ;
Hurst, Jane A. ;
Jaehn, Johanna ;
Jackson, Laird G. ;
Kelly, Anne M. ;
Ledbetter, David H. ;
Mansour, Sahar ;
Martin, Christa L. ;
Moss, Celia ;
Mumford, Andrew ;
Ouwehand, Willem H. ;
Park, Soo-Mi ;
Riggs, Erin Rooney ;
Scott, Richard H. ;
Sisodiya, Sanjay ;
Van Vooren, Steven ;
Wapner, Ronald J. ;
Wilkie, Andrew O. M. ;
Wright, Caroline F. ;
Vulto-van Silfhout, Anneke T. ;
de Leeuw, Nicole ;
de Vries, Bert B. A. ;
Washingthon, Nicole L. ;
Smith, Cynthia L. ;
Westerfield, Monte ;
Schofield, Paul ;
Ruef, Barbara J. ;
Gkoutos, Georgios V. ;
Haendel, Melissa ;
Smedley, Damian ;
Lewis, Suzanna E. ;
Robinson, Peter N. .
NUCLEIC ACIDS RESEARCH, 2014, 42 (D1) :D966-D974
[24]   STITCH 4: integration of protein-chemical interactions with user data [J].
Kuhn, Michael ;
Szklarczyk, Damian ;
Pletscher-Frankild, Sune ;
Blicher, Thomas H. ;
von Mering, Christian ;
Jensen, Lars J. ;
Bork, Peer .
NUCLEIC ACIDS RESEARCH, 2014, 42 (D1) :D401-D407
[25]   DrugBank 4.0: shedding new light on drug metabolism [J].
Law, Vivian ;
Knox, Craig ;
Djoumbou, Yannick ;
Jewison, Tim ;
Guo, An Chi ;
Liu, Yifeng ;
Maciejewski, Adam ;
Arndt, David ;
Wilson, Michael ;
Neveu, Vanessa ;
Tang, Alexandra ;
Gabriel, Geraldine ;
Ly, Carol ;
Adamjee, Sakina ;
Dame, Zerihun T. ;
Han, Beomsoo ;
Zhou, You ;
Wishart, David S. .
NUCLEIC ACIDS RESEARCH, 2014, 42 (D1) :D1091-D1097
[26]   Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana [J].
Lee, Insuk ;
Ambaru, Bindu ;
Thakkar, Pranjali ;
Marcotte, Edward M. ;
Rhee, Seung Y. .
NATURE BIOTECHNOLOGY, 2010, 28 (02) :149-U14
[27]   RNA-Guided Human Genome Engineering via Cas9 [J].
Mali, Prashant ;
Yang, Luhan ;
Esvelt, Kevin M. ;
Aach, John ;
Guell, Marc ;
DiCarlo, James E. ;
Norville, Julie E. ;
Church, George M. .
SCIENCE, 2013, 339 (6121) :823-826
[28]   Modeling sample variables with an Experimental Factor Ontology [J].
Malone, James ;
Holloway, Ele ;
Adamusiak, Tomasz ;
Kapushesky, Misha ;
Zheng, Jie ;
Kolesnikov, Nikolay ;
Zhukova, Anna ;
Brazma, Alvis ;
Parkinson, Helen .
BIOINFORMATICS, 2010, 26 (08) :1112-1118
[29]   The Ensembl Variant Effect Predictor [J].
McLaren, William ;
Gil, Laurent ;
Hunt, Sarah E. ;
Riat, Harpreet Singh ;
Ritchie, Graham R. S. ;
Thormann, Anja ;
Flicek, Paul ;
Cunningham, Fiona .
GENOME BIOLOGY, 2016, 17
[30]   Translational paradigms in pharmacology and drug discovery [J].
Mullane, Kevin ;
Winquist, Raymond J. ;
Williams, Michael .
BIOCHEMICAL PHARMACOLOGY, 2014, 87 (01) :189-210