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INFOBIOMED Pilot application WP 6.3

WP 6.3 Genomics and chronic inflammation. INFOBIOMED Pilot application WP 6.3. Genomics and chronic inflammation. Amsterdam, May 8-9, 2006. Marja Laine DDS, PhD Bruno Loos DDS, MSc, PhD, activity leader Academic Centre for Dentistry Amsterdam.

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INFOBIOMED Pilot application WP 6.3

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  1. WP 6.3 Genomics and chronic inflammation INFOBIOMED Pilot application WP 6.3 Genomics and chronic inflammation Amsterdam, May 8-9, 2006 Marja Laine DDS, PhD Bruno Loos DDS, MSc, PhD, activity leader Academic Centre for Dentistry Amsterdam 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  2. Periodontitis is an inflammatory, destructive disease of the supporting tissues of the teeth WP 6.3 Genomics and chronic inflammation use the disease PERIODONTITIS as a model for complex chronic inflammatory diseases 8h Consortium Meeting, Amsterdam, 8-9 May 2006

  3. Smoking General health Stress Genetic factors Diet Other diseases WP 6.3 Genomics and chronic inflammation complex nature of periodontitis Bacterial infection Host Clinical signs of periodontitis 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  4. WP 6.3 Genomics and chronic inflammation Challenge • to structure and integrate data streams • to use data analysis tools Data streams originate from: raw clinical data bio-informatics medical informatics 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  5. Genomic data Phenomic data Microbiology data Intermediate phenotype Age Gender BMI CRP, ……… WP 6.3 Genomics and chronic inflammation Environmental /life habits Assessment / Annotation External DBs Programs Periodontitis Data Warehouse (PDW) 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  6. WP 6.3 Genomics and chronic inflammation Periodontitis Data Warehouse (PDW) 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  7. WP 6.3 Genomics and chronic inflammation Privacy-enhanced data storage(in collaboration with Custodix) Pseudonymous data area Pseudonymous database at data warehouse Reversible incryptication of identifiers (Name and date of birth) Patients’ data PATIENTS ACTA Specific record access (add/update/remove) Research community, ACTA, others outside (statistical data processing) 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  8. WP 6.3 Genomics and chronic inflammation Periodontitis Data Warehouse - summary • data mining, visualization • about 800 patients/controls • genetic, microbiology, severity, intermediate phenotype • together with Custodix finalizing the privacy protection • external named user access (VPM-key) • developing external accessibility (dedicated server) 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  9. WP 6.3 Genomics and chronic inflammation Work planned 2006 PDW: application query builder Export data files for analyses OntoDataClean Data mining/visualization • Clustering • Feature subject selection (FSS) • Classification • Association • Statistics Aims: New classification of periodontitis New clinico-genetic associations New scientific hypotheses on pathophysiology of periodontitis New insights/ways in other complex chronic inflammatory diseases 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  10. WP 6.3 Genomics and chronic inflammation Thank you for your attention ! 8th Consortium Meeting, Amsterdam, 8-9 May 2006

  11. WP 6.3 Genomics and chronic inflammation 2007 2004 2005 2006 ACTA, KI, UAVR and ISCIII • Insight in the complex pathophysiology • Clear disease classification schemes • Risk profiling and possibilities for screening ACTA, Custodix, ISCIII, UPM and FORTH May 2006 8th Consortium Meeting, Amsterdam, 8-9 May 2006

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