Semantic Research Platform for Model Organism Data

Date: May 27, 2016

Speaker: Maxime Déraspe

Abstract

Model organisms such as budding yeast provide a common platform to interrogate and understand cellular and physiological processes. Knowledge about model organisms, whether generated during the course of scientific investigations, or extracted from published articles, are integrated and made available by model organism databases (MODs) such as the Saccharomyces Genome Database (SGD). SGD uses InterMine to enable powerful, data-driven bioinformatic analyses and most of the other MODs also expose their data through InterMine so providing a standard platform for MOD data exploration and mining. However bioinformatic analyses also require access to a significantly broader set of biomedical data, which today can be found in structured form in the emerging network of Linked Open Data (LOD). The MODs have expended substantial effort over many years on human curation of the literature and if these gold-standard data alongside other MOD data could be provisioned as FAIR (Findable, Accessible, Interoperable, and Reusable), then scientists could leverage a greater amount of interoperable data in knowledge discovery.