James Malone
European Bioinformatics Institute
71 Papers
475 Citations
James Malone is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Ontology (information science) & Computer science. The author has an hindex of 26, co-authored 71 publications. Previous affiliations of James Malone include University of Manchester & Wellcome Trust.
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Papers
Open Targets: a platform for therapeutic target identification and validation.
Gautier Koscielny,Peter An,Denise Carvalho-Silva,Jennifer A. Cham,Luca Fumis,Rippa Gasparyan,Samiul Hasan,Nikiforos Karamanis,Michael Maguire,Eliseo Papa,Andrea Pierleoni,Miguel Pignatelli,Theo Platt,Francis Rowland,Priyanka Wankar,A. Patrícia Bento,Tony Burdett,Antonio Fabregat,Simon A. Forbes,Anna Gaulton,Cristina Y. González,Henning Hermjakob,Anne Hersey,S Jupe,Senay Kafkas,Maria Keays,Catherine Leroy,Francisco-Javier Lopez,María Paula Magariños,James Malone,Johanna McEntyre,Alfonso Muñoz-Pomer Fuentes,Claire O'Donovan,Irene Papatheodorou,Helen Parkinson,Barbara Palka,Justin Paschall,Robert Petryszak,Naruemon Pratanwanich,Sirarat Sarntivijal,Gary Saunders,Konstantinos Sidiropoulos,Thomas Smith,Zbyslaw Sondka,Oliver Stegle,Y. Amy Tang,Edward Turner,Brendan Vaughan,Olga Vrousgou,Xavier Watkins,Maria Jesus Martin,Philippe Sanseau,Jessica Vamathevan,Ewan Birney,Jeffrey C. Barrett,Jeffrey C. Barrett,Ian Dunham +56 more
TL;DR: The Open Targets Validation Platform is designed to support identification and prioritization of biological targets for follow-up and provides evidence about the association of known and potential drug targets with diseases.
453
ArrayExpress update—trends in database growth and links to data analysis tools
Gabriella Rustici,Nikolay Kolesnikov,Marco Brandizi,Tony Burdett,Miroslaw Dylag,Ibrahim Emam,Anna Farne,Emma Hastings,Jon Ison,Maria Keays,Natalja Kurbatova,James Malone,Roby Mani,Annalisa Mupo,Rui Pedro Pereira,Ekaterina Pilicheva,Johan Rung,Anjan Sharma,Y. Amy Tang,Tobias Ternent,Andrew Tikhonov,Danielle Welter,Eleanor Williams,Alvis Brazma,Helen Parkinson,Ugis Sarkans +25 more
TL;DR: The ArrayExpress Archive of Functional Genomics Data ( ArrayExpress) is one of three international functional genomics public data repositories, alongside the Gene Expression Omnibus at NCBI and the DDBJ Omics Archive, supporting peer-reviewed publications.
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The Ontology for Biomedical Investigations
Anita Bandrowski,Ryan R. Brinkman,Mathias Brochhausen,Matthew H. Brush,Bill Bug,Marcus C. Chibucos,Kevin Clancy,Mélanie Courtot,Dirk Derom,Michel Dumontier,Liju Fan,Jennifer Fostel,Gilberto Fragoso,Frank Gibson,Alejandra Gonzalez-Beltran,Melissa A. Haendel,Yongqun He,Mervi Heiskanen,Tina Hernandez-Boussard,Mark Jensen,Yu Lin,Allyson L. Lister,Phillip Lord,James Malone,Elisabetta Manduchi,Monnie McGee,Norman Morrison,James A. Overton,Helen Parkinson,Bjoern Peters,Philippe Rocca-Serra,Alan Ruttenberg,Susanna-Assunta Sansone,Richard H. Scheuermann,Daniel Schober,Barry Smith,Larisa N. Soldatova,Christian J. Stoeckert,Chris F. Taylor,Carlo Torniai,Jessica A. Turner,Randi Vita,Patricia L. Whetzel,Jie Zheng +43 more
TL;DR: The state of OBI and several applications that are using it are described, such as adding semantic expressivity to existing databases, building data entry forms, and enabling interoperability between knowledge resources.
EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats
Jon Ison,Matúš Kalaš,Inge Jonassen,Dan Bolser,Mahmut Uludag,Hamish McWilliam,James Malone,Rodrigo Lopez,Steve Pettifer,Peter M. Rice +9 more
TL;DR: EDAM is an ontology of bioinformatics operations (tool or workflow functions), types of data and identifiers, application domains and data formats, which supports semantic annotation of diverse entities such as Web services, databases, programmatic libraries, standalone tools, interactive applications, data schemas, datasets and publications within bio informatics.
The carboxyl-terminal domain of phosphophoryn contains unique extended triplet amino acid repeat sequences forming ordered carboxyl-phosphate interaction ridges that may be essential in the biomineralization process
Anne George,Leslie J. Bannon,Boris Sabsay,Jerry W. Dillon,James Malone,Arthur Veis,Nancy A. Jenkins,Debra J. Gilbert,Neal G. Copeland +8 more
TL;DR: Two domains and the colocalization of Dmp1 and Dmp2 genes at a position equivalent to the dentinogenesis imperfecta type II location on human 4q21 all suggest that the PPs are indeed involved in some aspect of ECM mineralization.
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