Data Integration in the Life Sciences

1. Front Matter

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2. Foundations of Data Integration

   1. Entrez: The NCBI Search and Discovery Engine

      • James M. Ostell

      Pages 1-4

   2. InterOnto – Ranking Inter-Ontology Links

      • Silke Trißl, Philipp Hussels, Ulf Leser

      Pages 5-20

   3. Finding Cross Genome Patterns in Annotation Graphs

      • Joseph Benik, Caren Chang, Louiqa Raschid, Maria-Esther Vidal, Guillermo Palma, Andreas Thor

      Pages 21-36

   4. Pay-as-You-Go Ranking of Schema Mappings Using Query Logs

      • Ruhaila Maskat, Norman W. Paton, Suzanne M. Embury

      Pages 37-52

3. New Paradigms for Data Integration

   1. Combining Structured and Unstructured Knowledge Sources for Question Answering in Watson

      • Ken Barker

      Pages 53-55

   2. Cancer Data Integration and Querying with GeneTegra

      • E. Patrick Shironoshita, Yves R. Jean-Mary, Ray M. Bradley, Patricia Buendia, Mansur R. Kabuka

      Pages 56-70

   3. Integrating Large, Disparate Biomedical Ontologies to Boost Organ Development Network Connectivity

      • Chimezie Ogbuji, Rong Xu

      Pages 71-82

   4. Validating Candidate Gene-Mutation Relations in MEDLINE Abstracts via Crowdsourcing

      • John D. Burger, Emily Doughty, Sam Bayer, David Tresner-Kirsch, Ben Wellner, John Aberdeen et al.

      Pages 83-91

4. Integrating Clinical Data

   1. The Biomedical Translational Research Information System: Clinical Data Integration at the National Institutes of Health

      • James J. Cimino

      Pages 92-92

   2. ONCO-i2b2: Improve Patients Selection through Case-Based Information Retrieval Techniques

      • Daniele Segagni, Matteo Gabetta, Valentina Tibollo, Alberto Zambelli, Silvia G. Priori, Riccardo Bellazzi

      Pages 93-99

   3. Syntactic-Semantic Frames for Clinical Cohort Identification Queries

      • Dina Demner-Fushman, Swapna Abhyankar

      Pages 100-112

5. Back Matter

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This book constitutes the refereed proceedings of the 8th International Conference on Data Integration in the Life Sciences, DILS 2012, held in College Park, MD, USA, on June 28-29, 2012. The 11 revised papers included in this volume were carefully reviewed and selected. The papers cover the following topics: foundations of data integration, new paradigms for data integration, and integrating clinical data.

• information retrieval
• knowledge management
• ontology
• schema mapping
• semantic web

• US National Library of Medicine, National Institutes of Health, Bethesda, USA

  Olivier Bodenreider, Bastien Rance

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