Scientific Discourse Meeting, December 19, 2011

Agenda:

1: Creating processing workflows and annotations in U-Compare and Argo

Rafal Rak, National Centre for Text Mining, Manchester, UK: U-Compare

Abstract:

Unstructured Information Management Architecture (UIMA) is a framework that addresses interoperability of processing components coming from different sources by defining common data structures and interfaces. We present NaCTeM's U-Compare and Argo, systems that support the UIMA framework and provide easy-to-use graphical user interfaces to combine various UIMA-based components.

U-Compare is an integrated TM/NLP processing system which supports user-friendly, drag-and-drop processing workflow creation, as well as evaluation, statistics and visualization of produced annotations. U-Compare also facilitates component comparison capabilities, useful to automatically select the best processing setup. Currently, U-Compare comes with about 50 pre-loaded, ready-to-use components.

Argo complements U-Compare by providing a web-based interface and remote processing, making the framework more accessible to the non-technical user. One of the key functionalities of Argo is its ability to seamlessly incorporate user-interactive components, such as manual annotation editors, into otherwise completely automatic pipelines.

2. Use case overview:

2.1. Enhance Drug-mechanism Knowledge in Drug Product Labels

Team: Richard Boyce, Jodi Schneider, Mike Taylor, Anita de Waard

2.2. Defining core metadata for describing biomedical investigations

Team: Tim Clark, Susanna-Assunta Sansone, David Shotton, Philippe Rocca-Serra

DRAFT ISA-RDF model, Version 0.36

File:New ISA-RDF Version 0.36.pdf

2.3. Mining Treatment Outcomes

Team: Joanne Luciano, Anita de Waard

3. Any other business, next calls.

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