Department of Chemistry

Murray-Rust Research Group

OSCAR4 Launch

OSCAR (Open Source Chemistry Analysis Routines) is an open source extensible system for the automated annotation of chemistry in scientific articles. It can be used to identify chemical names, reaction names, ontology terms, enzymes and chemical prefixes and adjectives. In addition, where possible, any chemical names detected will be annotated with structures derived either by lookup, or name-to-structure parsing using OPSIN[1] or with identifiers from the ChEBI (`Chemical Entities of Biological Interest') ontology.

The current version of OSCAR. OSCAR4, focuses on providing a core library that facilitates integration with other tools. Its simple to use API is modularised to promote extension into other domains and allows for its use within workflow systems like Taverna[2] and U-Compare [3].

We will be hosting a launch on the 13th of April to discuss the new architecture as well as demonstrate some applications that use OSCAR. Tutorial sessions on on how to use the new API will also be provided.

Archived videos from the launch are now online:

The program is available below:


10.00 - Peter Murray-Rust : Introduction

10.25 - Sam Adams : Architecture of OSCAR4

10.50 - Lezan Hawizy : ChemicalTagger: Building Text-Mining Applications with OSCAR

11.15 - Coffee

11.35 - Hannah Barjat : OSCAR Tagging of Atmospheric Science Papers

12.00 - Daniel Lowe : Named Entity Resolution in OSCAR

12.25 - BalaKrishna Kolluru : U-Compare, OSCAR and the number 42

12.50 - OSCAR4 Lunch

1.30 Hands-on Session with OSCAR

DATE: Wednesday April 13th 2011

VENUE: Unilever Centre for Molecular Science Informatics, Department of Chemistry, Lensfield Road, Cambridge CB2 1EW

Twitter Hashtag: #Oscar4Launch