Literature DB >> 27899665

Open Targets: a platform for therapeutic target identification and validation.

Gautier Koscielny1,2, Peter An3,4, Denise Carvalho-Silva3,5, Jennifer A Cham3,5, Luca Fumis3,5, Rippa Gasparyan3,4, Samiul Hasan3,2, Nikiforos Karamanis3,5, Michael Maguire3,5, Eliseo Papa3,4, Andrea Pierleoni3,5, Miguel Pignatelli3,5, Theo Platt3,4, Francis Rowland3,5, Priyanka Wankar3,4, A Patrícia Bento3,5, Tony Burdett3,5, Antonio Fabregat3,5, Simon Forbes3,6, Anna Gaulton3,5, Cristina Yenyxe Gonzalez3,5, Henning Hermjakob3,5,7, Anne Hersey3,5, Steven Jupe3,5, Şenay Kafkas3,5, Maria Keays3,5, Catherine Leroy3,5, Francisco-Javier Lopez3,5, Maria Paula Magarinos3,5, James Malone3,5, Johanna McEntyre3,5, Alfonso Munoz-Pomer Fuentes3,5, Claire O'Donovan3,5, Irene Papatheodorou3,5, Helen Parkinson3,5, Barbara Palka3,5, Justin Paschall3,5, Robert Petryszak3,5, Naruemon Pratanwanich3,5, Sirarat Sarntivijal3,5, Gary Saunders3,5, Konstantinos Sidiropoulos3,5, Thomas Smith3,5, Zbyslaw Sondka3,6, Oliver Stegle3,5, Y Amy Tang3,5, Edward Turner3,5, Brendan Vaughan3,5, Olga Vrousgou3,5, Xavier Watkins3,5, Maria-Jesus Martin3,5, Philippe Sanseau3,2, Jessica Vamathevan5, Ewan Birney3,5, Jeffrey Barrett3,5,6, Ian Dunham8,5.   

Abstract

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.
© The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2016        PMID: 27899665      PMCID: PMC5210543          DOI: 10.1093/nar/gkw1055

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  50 in total

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Authors:  George P Patrinos; David N Cooper; Erik van Mulligen; Vassiliki Gkantouna; Giannis Tzimas; Zuotian Tatum; Erik Schultes; Marco Roos; Barend Mons
Journal:  Hum Mutat       Date:  2012-07-23       Impact factor: 4.878

2.  Trial watch: phase II and phase III attrition rates 2011-2012.

Authors:  John Arrowsmith; Philip Miller
Journal:  Nat Rev Drug Discov       Date:  2013-08       Impact factor: 84.694

Review 3.  Pharmacogenomics knowledge for personalized medicine.

Authors:  M Whirl-Carrillo; E M McDonagh; J M Hebert; L Gong; K Sangkuhl; C F Thorn; R B Altman; T E Klein
Journal:  Clin Pharmacol Ther       Date:  2012-10       Impact factor: 6.875

4.  Evolution of the Sequence Ontology terms and relationships.

Authors:  Christopher J Mungall; Colin Batchelor; Karen Eilbeck
Journal:  J Biomed Inform       Date:  2010-03-10       Impact factor: 6.317

5.  Europe PMC: a full-text literature database for the life sciences and platform for innovation.

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Journal:  Nucleic Acids Res       Date:  2014-11-06       Impact factor: 16.971

6.  COSMIC: exploring the world's knowledge of somatic mutations in human cancer.

Authors:  Simon A Forbes; David Beare; Prasad Gunasekaran; Kenric Leung; Nidhi Bindal; Harry Boutselakis; Minjie Ding; Sally Bamford; Charlotte Cole; Sari Ward; Chai Yin Kok; Mingming Jia; Tisham De; Jon W Teague; Michael R Stratton; Ultan McDermott; Peter J Campbell
Journal:  Nucleic Acids Res       Date:  2014-10-29       Impact factor: 16.971

7.  Expression Atlas update--an integrated database of gene and protein expression in humans, animals and plants.

Authors:  Robert Petryszak; Maria Keays; Y Amy Tang; Nuno A Fonseca; Elisabet Barrera; Tony Burdett; Anja Füllgrabe; Alfonso Muñoz-Pomer Fuentes; Simon Jupp; Satu Koskinen; Oliver Mannion; Laura Huerta; Karine Megy; Catherine Snow; Eleanor Williams; Mitra Barzine; Emma Hastings; Hendrik Weisser; James Wright; Pankaj Jaiswal; Wolfgang Huber; Jyoti Choudhary; Helen E Parkinson; Alvis Brazma
Journal:  Nucleic Acids Res       Date:  2015-10-19       Impact factor: 16.971

8.  Ensembl 2016.

Authors:  Andrew Yates; Wasiu Akanni; M Ridwan Amode; Daniel Barrell; Konstantinos Billis; Denise Carvalho-Silva; Carla Cummins; Peter Clapham; Stephen Fitzgerald; Laurent Gil; Carlos García Girón; Leo Gordon; Thibaut Hourlier; Sarah E Hunt; Sophie H Janacek; Nathan Johnson; Thomas Juettemann; Stephen Keenan; Ilias Lavidas; Fergal J Martin; Thomas Maurel; William McLaren; Daniel N Murphy; Rishi Nag; Michael Nuhn; Anne Parker; Mateus Patricio; Miguel Pignatelli; Matthew Rahtz; Harpreet Singh Riat; Daniel Sheppard; Kieron Taylor; Anja Thormann; Alessandro Vullo; Steven P Wilder; Amonida Zadissa; Ewan Birney; Jennifer Harrow; Matthieu Muffato; Emily Perry; Magali Ruffier; Giulietta Spudich; Stephen J Trevanion; Fiona Cunningham; Bronwen L Aken; Daniel R Zerbino; Paul Flicek
Journal:  Nucleic Acids Res       Date:  2015-12-19       Impact factor: 16.971

9.  The Enzyme Portal: a case study in applying user-centred design methods in bioinformatics.

Authors:  Paula de Matos; Jennifer A Cham; Hong Cao; Rafael Alcántara; Francis Rowland; Rodrigo Lopez; Christoph Steinbeck
Journal:  BMC Bioinformatics       Date:  2013-03-20       Impact factor: 3.169

10.  Standardized description of scientific evidence using the Evidence Ontology (ECO).

Authors:  Marcus C Chibucos; Christopher J Mungall; Rama Balakrishnan; Karen R Christie; Rachael P Huntley; Owen White; Judith A Blake; Suzanna E Lewis; Michelle Giglio
Journal:  Database (Oxford)       Date:  2014-07-22       Impact factor: 3.451

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  148 in total

Review 1.  Exploring the dark genome: implications for precision medicine.

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Journal:  Mamm Genome       Date:  2019-07-04       Impact factor: 2.957

Review 2.  Genetic-Driven Druggable Target Identification and Validation.

Authors:  Matteo Floris; Stefania Olla; David Schlessinger; Francesco Cucca
Journal:  Trends Genet       Date:  2018-05-23       Impact factor: 11.639

Review 3.  Approaches to target tractability assessment - a practical perspective.

Authors:  Kristin K Brown; Michael M Hann; Ami S Lakdawala; Rita Santos; Pamela J Thomas; Kieran Todd
Journal:  Medchemcomm       Date:  2018-02-14       Impact factor: 3.597

4.  Elucidating the druggability of the human proteome with eFindSite.

Authors:  Omar Kana; Michal Brylinski
Journal:  J Comput Aided Mol Des       Date:  2019-03-19       Impact factor: 3.686

Review 5.  Applications of machine learning in drug discovery and development.

Authors:  Jessica Vamathevan; Dominic Clark; Paul Czodrowski; Ian Dunham; Edgardo Ferran; George Lee; Bin Li; Anant Madabhushi; Parantu Shah; Michaela Spitzer; Shanrong Zhao
Journal:  Nat Rev Drug Discov       Date:  2019-06       Impact factor: 84.694

Review 6.  The PROTACtable genome.

Authors:  Melanie Schneider; Chris J Radoux; Andrew Hercules; David Ochoa; Ian Dunham; Lykourgos-Panagiotis Zalmas; Gerhard Hessler; Sven Ruf; Veerabahu Shanmugasundaram; Michael M Hann; Pam J Thomas; Markus A Queisser; Andrew B Benowitz; Kris Brown; Andrew R Leach
Journal:  Nat Rev Drug Discov       Date:  2021-07-20       Impact factor: 84.694

Review 7.  A Review of Recent Advances in Translational Bioinformatics: Bridges from Biology to Medicine.

Authors:  J Vamathevan; E Birney
Journal:  Yearb Med Inform       Date:  2017-09-11

8.  Over expression of DNA damage and cell cycle dependent proteins are associated with poor survival in patients with adrenocortical carcinoma.

Authors:  Chitra Subramanian; Mark S Cohen
Journal:  Surgery       Date:  2018-11-07       Impact factor: 3.982

9.  Cardioinformatics: the nexus of bioinformatics and precision cardiology.

Authors:  Bohdan B Khomtchouk; Diem-Trang Tran; Kasra A Vand; Matthew Might; Or Gozani; Themistocles L Assimes
Journal:  Brief Bioinform       Date:  2020-12-01       Impact factor: 11.622

10.  Using Informatics Tools to Identify Opportunities for Precision Medicine in Diffuse Large B-cell Lymphoma.

Authors:  Sharvil P Patel; R Andrew Harkins; Michelle J Lee; Christopher R Flowers; Jean L Koff
Journal:  Clin Lymphoma Myeloma Leuk       Date:  2019-12-24
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