SWAT4LS-2009
Semantic Web Applications and Tools for Life Sciences

Table of Contents

• Preface
  
  

Papers

1. TIM: A Semantic Web Application for the Specification of Metadata Items in Clinical Research
   Matthias Löbe, Magnus Knuth, Roland Mücke
2. Towards the Ontology-based Classification of Lymphoma Patients using Semantic Image Annotations
   Sonja Zillner
3. Linking Open Drug Data to Cheminformatics and Proteochemometrics
   Egon Willighagen, Jarl Wikberg
4. Mining Semantic Networks of Bioinformatics e-Resources from the Literature
   Hammad Afzal, James Eales, Robert Stevens, Goran Nenadic
5. Semantics-Based Composition of EMBOSS Services with Bio-jETI
   Anna-Lena Lamprecht, Stefan Naujokat, Tiziana Margaria, Bernhard Steffen
6. OBO & OWL: Roundtrip Ontology Transformations
   Syed Hamid Tirmizi, Stuart Aitken, Dilvan A. Moreira, Chris Mungall, Juan Sequeda, Nigam H. Shah, Daniel P. Miranker

Highlight Posters

1. Weekend Triple Billionaire
   Jerven Bolleman, Thomas Kappler
2. Towards a Logic-based Assessment of the compatibility of UMLS sources
   Ernesto Jimenez-Ruiz, Bernardo Cuenca Grau, Rafael Berlanga, Ian Horrocks
3. Using the NCBO Web Services for Concept Recognition and Ontology Annotation of Expression Datasets
   Simon Twigger, Joey Geiger, Jennifer Smith

Demos

1. NeuroLex.org - A semantic wiki for neuroinformatics based on the NIF Standard Ontology
   Stephen Larson, Sarah Maynard, Fahim Imam, Maryann Martone
2. DC-THERA Directory, a Knowledge Management System for the support of the European Dendritic Cell Immunology Community
   Marco Brandizi, Michaela Gündel, Ciro Scognamiglio, Andrea Splendiani
3. ContentCVS: A CVS-based Collaborative ONTology ENgineering Tool
   Ernesto Jimenez-Ruiz, Bernardo Cuenca Grau, Ian Horrocks, Rafael Berlanga
4. A system for repairing missing is-a structure in ontologies
   Patrick Lambrix, Qiang Liu, He Tan
5. Onto-Frogger: Playing with Semantic Structure
   Amalia Kallergi, Fons J. Verbeek

Posters

1. Semantic access to chemistry data with the ChEBI ontology and web services
   Nico Adams, Paula de Matos, Adriano Dekker, Marcus Ennis, Janna Hastings, Kenneth Haug, Duncan Hull, Zara Josephs, Pablo Moreno, Steve Turner, Christoph Steinbeck
2. From Ontology for Genetic Interval (OGI) to Sequence Assembly -- Ontology applying to next generation sequencing
   Yu Lin, Hiroshi Tarui, Peter Simons
3. Ondex: data integration and visualisation for the Semantic Web
   Catherine Canevet, Andrea Splendiani, Shao Chih Kuo, Robert Stevens, Phil Lord, Chris Rawlings
4. Semantic integration and exploitation of orthology information and genetic disorders
   Jose Antonio Miñarro Giménez, Marisa Madrid, Jesualdo Tomás Fernández-Breis
5. Towards an Ontology-based Mediation Framework for Integrating Biological Data
   Amine Kerzazi, Ismael Navas-Delgado, Jose F Aldana Montes
6. Integration of information from different ontologies
   Julia Dmitrieva, Fons J. Verbeek
7. Observations on Semantic Annotation of Microscope Images for Life Sciences
   Joris Slob, Amalia Kallergi, Fons Verbeek
8. Semantic Bookmarking for Reference Management
   Alex Logvynovskiy, Mohammad Dastbaz, Chris Imafidon
9. Using ontologies for querying and analysing protein-protein interaction data
   Pietro Hiram Guzzi, Mario Cannataro