Posts In Category Year

A data-driven approach to automatic discovery of prescription drugs in cardiovascular risk management

on October 4, 2012 by Phillip Lord in 2011, Comments (0)

Abstract Objectives: To evaluate a data-driven approach for automatically identifying medications used in the treatment of cardiovascular disease, and consider how these learned rules might be applied to ontology […]


Development of a toxicological Ontology for the OECD QSAR Toolbox

on by Phillip Lord in 2012, Comments (0)

1 Introduction Here, we report on a new ontological resource aimed at standardizing and organizing the chemical toxicological databases in the OECD QSAR Toolbox which is free predictive toxicology […]


Analysis of MeSH and IPC as a Prerequisite for Guided Patent Search

on by Phillip Lord in 2012, Comments (0)

Abstract Document search on PubMed, the pre-eminent database for biomedical literature, relies on the annotation of its documents with relevant terms from the Medical Subject Headings ontology (MeSH) for […]


Bottom-up curation of terminology for experimental variables: the Ontology of Experimental Variables and Values (OoEVV)

on August 17, 2012 by Phillip Lord in 2012, Comments (0)

  Introduction The challenges of developing an effective biomedical knowledge representation (KR) include (a) expressing the correct logic of domain-specific concepts in a reusable way, (b) excluding extraneous ontological […]


DOMEO: a web-based tool for semantic annotation of online documents

on May 9, 2012 by Phillip Lord in 2011, Comments (0)

    DOMEO (Document Metadata Exchange Organizer), is an extensible web application enabling users to visually and efficiently create and share ontology-based annotation metadata on HTML or XML document […]


Automated Assessment of High Throughput Hypotheses on Gene Regulatory Mechanisms Involved in the Gastrin Response

on July 19, 2011 by Phillip Lord in 2011, Comments (0)

Introduction Systems Biology is an integrated approach to build and simulate biological models from a variety of data sources in order to generate and validate new research hypotheses. In […]


Linking genes to diseases with a SNPedia-Gene Wiki mashup

on by Phillip Lord in 2011, Comments (2)

    Abstract A variety of topic-focused wikis are used in the biomedical sciences to enable the mass-collaborative synthesis and distribution of diverse bodies of knowledge. To address complex […]


Using Multiple Ontologies to Annotate and Integrate Phenotype Records from Multiple Sources

on July 12, 2011 by Simon Cockell in 2011, Comments (0)

*Abstract Motivation: The completion of finished and draft sequences for model organisms such as rat has been followed by multiple SNP and knockout projects as well as the complete […]


The Vertebrate Bridging Ontology (VBO)

on by Simon Cockell in 2011, Comments (0)

*Abstract The recent proliferation of ontologies for organizing and modeling anatomical, phenotypic, and genetic information is a welcome development, with a great deal of potential for transforming the way […]


The EDAM ontology for bioinformatics tools and data

on July 8, 2011 by Phillip Lord in 2011, Comments (0)

Motivation Researchers demand simple and powerful means to organise, find, compare, use and connect an increasingly large and complex set of tool and data resources. These tasks depend on […]