Information, Technology in Bio- and Medical Informatics, ITBAM 2010

1. Front Matter

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2. Workflow Management and Database

   1. e-BioFlow: Improving Practical Use of Workflow Systems in Bioinformatics

      • Ingo Wassink, Matthijs Ooms, Pieter Neerincx, Gerrit van der Veer, Han Rauwerda, Jack A. M. Leunissen et al.

      Pages 1-15

   2. MEDCollector: Multisource Epidemic Data Collector

      • João Zamite, Fabrício A. B. Silva, Francisco Couto, Mário J. Silva

      Pages 16-30

   3. Epidemic Marketplace: An Information Management System for Epidemiological Data

      • Luis F. Lopes, Fabrício A. B. Silva, Francisco Couto, João Zamite, Hugo Ferreira, Carla Sousa et al.

      Pages 31-44

3. Decision Support and Data Management in Biomedicine

   1. DCM Data Management Framework: A Data Warehousing Approach

      • Shehla Khalid, Claire Surr, Daniel Neagu

      Pages 45-56

   2. Automatic Classification of Intrapartal Fetal Heart-Rate Recordings – Can It Compete with Experts?

      • Václav Chudáček, Jiří Spilka, Michal Huptych, George Georgoulas, Petr Janků, Michal Koucký et al.

      Pages 57-66

   3. Clinical Informatics to Diagnose Cardiac Diseases Based on Data Mining

      • Sung Ho Ha, Zhen Yu Zhang

      Pages 67-77

4. Decision Support in Biomedicine (Short Papers)

   1. The Case-Based Software System for Physician’s Decision Support

      • Leonid Karpov, Valery Yudin

      Pages 78-85

   2. SASAgent: An Agent Based Architecture for Search, Retrieval and Composition of e-Science Models and Tools

      • Luiz Felipe Mendes, Regina Braga, Fernanda Campos

      Pages 86-93

   3. Clustering of Protein Substructures for Discovery of a Novel Class of Sequence-Structure Fragments

      • Ivana Rudolfova, Jaroslav Zendulka, Matej Lexa

      Pages 94-101

   4. A Comorbidity Network Approach to Predict Disease Risk

      • Francesco Folino, Clara Pizzuti, Maria Ventura

      Pages 102-109

   5. Mining and Post-processing of Association Rules in the Atherosclerosis Risk Domain

      • Petr Berka, Jan Rauch

      Pages 110-117

5. Medical Data Modeling and Information Retrieval

   1. Optimized Column-Oriented Model: A Storage and Search Efficient Representation of Medical Data

      • Razan Paul, Abu Sayed Md. Latiful Hoque

      Pages 118-127

   2. A Semantic Query Interface for the OGO Platform

      • José Antonio Miñarro-Giménez, Mikel Egaña Aranguren, Francisco García-Sánchez, Jesualdo Tomás Fernández-Breis

      Pages 128-142

   3. BioMedical Information Retrieval: The BioTracer Approach

      • Heri Ramampiaro

      Pages 143-157

6. Data Mining in Bioinformatics

   1. A Self-organizing State Space Approach to Inferring Time-Varying Causalities between Regulatory Proteins

      • Osamu Hirose, Kentaro Shimizu

      Pages 158-171

7. Knowledge Representation and Data Management in Bioinformatics

   1. Retrieving Samples from Biobanks

      • Claus Dabringer, Johann Eder

      Pages 172-185

   2. Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways

      • Sine Zambach, Jens Ulrik Hansen

      Pages 186-200

   3. Smooth Introduction of Semantic Tagging in Genotyping Procedures

      • Alessio Bechini, Jacopo Viotto, Riccardo Giannini

      Pages 201-214

8. Biological Data and Signal Processing

   1. Laboratory Kit for Oscillometry Measurement of Blood Pressure

      • Jan Dvořák, Jan Havlík

      Pages 215-219

Biomedical engineering and medical informatics are challenging and rapidly growing areas. Applications of information technology in these areas are of paramount imp- tance. The aim of the first ITBAM conference was to bring together scientists, - searchers and practitioners from different disciplines (mathematics, bioinformatics, biology, medicine, biomedical engineering and computer science) having such c- mon interests. We hope that ITBAM conferences will provide opportunities for fru- ful discussions between all attendees and provide a platform where participants can exchange their most recent results, identify future directions and challenges, initiate possible collaborative research and system development, and develop common l- guages for solving problems in the realm of biomedical engineering, bioinformatics and medical informatics. The importance of computer-aided diagnosis and therapy has drawn more and more attention worldwide and laid the foundation for modern medicine with excellent potential for promising applications such as telemedicine, Web-based healthcare and analysis of genetic information. For this conference, after a peer-review process, we finally selected 13 long papers and 8 short papers that are now published in this volume. They are divided in to the following groups: workflow management and database; decision support and data management in biomedicine; medical data modelling and information retrieval; data mining in bioinformatics; knowledge representation and data management in bio- formatics; biological data and signal processing. The papers show how broad the spectrum of topics in applications of information technology to biomedical engine- ing and medical informatics is.

• Interface
• bioinformatics
• biological data
• classification
• clustering
• data mining
• data modeling
• data modelling
• data warehouse
• database
• grid-based data bases
• image processing
• information retrieval
• performance
• signal processing

• Department of Computer Science, San José State University, San José, U.S.A.

  Sami Khuri

• Faculty of Electrical Engineering, Department of Cybernetics, Czech Technical University, Prague 6, Czech Republic

  Lenka Lhotská

• Dipartimento di Informatica, University of Pisa, Pisa, Italy

  Nadia Pisanti

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