6/15/2009 2 Projects Projects MIRALab research on medical simulation since years � CHARM Comprehensive Human 1993 Animation Resource Model A semantic- -driven platform for musculoskeletal simulation driven platform for musculoskeletal simulation A semantic 1996 � MIAS Minimally Invasive Articular Surgery Caecilia Charbonnier � TREMOR Development and validation of new assistive devices Caecilia Charbonnier 1996 for treatment of disability caused by TREMOR MIRALab – MIRALab – University of Geneva University of Geneva 1998 � DRAMA Developments in Rehabilitation of the Arm MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 3 4 Projects 3D Anatomical Human Projects 3D Anatomical Human Marie Curie RTN MIRALab research on medical simulation since years 8 partners (MIRALab, IOR, UCL, INRIA, STARLab, SMI, EPFL, CRS4) Goals � Develop realistic functional musculoskeletal models of the lower limbs � Co-Me Interactive clinical visualization 2001 � Integrated model (anatomy + dynamics + physiology) for hip joint examination, Swiss National project � Unfold new technologies and knowledge around virtual representations of human body � 3D Anatomical Human 2006 � Combine knowledge on the human musculoskeletal system 3D anatomical functional models for the human musculoskeletal system, � Improve the learning support for medical training European Project � Dynamic atlases MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 1
6/15/2009 5 6 CO- CO -ME ME Outline Outline Subproject of the Swiss NCCR 5 partners (MIRALab, EPFL, MEM Center, HUG, INSELSPITAL Bern) � Introduction Goal: early detection of hip osteoarthritis (hip joint degeneration) � Current medical ontology development Improve understanding: � Cause: repetitive femoro-acetabular impingement (FAI) ? � A semantic-driven platform -> This hypothesis need to be demonstrated through clinical studies Improve detection: � The Ontology For Anatomical Simulation � Support early diagnosis � More automatic and objective assessment (OFAS) model Improve treatment (minimally invasive surgery): � System overview � Support corrective surgery planning: bone and labrum resection � Support arthroscopy � Scenarios MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 7 8 Modeling of the musculoskeletal system from MRI Modeling of the musculoskeletal system from MRI Modeling of the musculoskeletal system from MRI Modeling of the musculoskeletal system from MRI Interactive Generic model segmentation reconstruction Static MRI (Generic) Anatomical Models (Generic) Patient model Anatomical Registration Models (Patient) reconstruction Static MRI (Patient) 4 Bones 3 Cartilages, 3 Ligaments 21 Muscles MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 2
6/15/2009 9 10 Motion modeling Motion modeling Body scanning Body scanning Determination of the bone segments in the marker cluster technical frame: 3D body scanning Skin and markers registration MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 11 12 Physical- -based simulation based simulation The complete pipeline Physical The complete pipeline � Simulator: � Based on particles system implementation of FE � Optimizes for large deformations � Accurate and fast � Biomechanical modeling: � Hip + femur bones (rigid) � Labrum cartilage (deformable) � Young’s modulus: 20 MPa � Poisson’s ratio: 0.4 MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 3
6/15/2009 13 14 Medical data Medical data Needs Needs Material properties Medical images 3D models More user-centric systems that act as “intelligent” assistants, Motion capture able to Medical Data centralize the data, and to EMG interact naturally with human users and with the information environment. Kinematical & morphological parameters 3D body scanning MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 15 16 What knowledge? Why do we need ontology? What knowledge? Why do we need ontology? � The terminologies commonly used by � For information management clinicians � To share common understanding of the � Anatomy structure of information among people or � Physiology software agents � Pathology, etc. � To enable reuse of domain knowledge � Available from: � To analyze domain knowledge � Medical atlases � Medical literature � Medical discourse, etc. MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 4
6/15/2009 17 18 Outline Outline The world of medical ontologies The world of medical ontologies 308’000 concepts, SNOMED 924’000 relations � Introduction ICD CPT � Current medical ontology development OPCS UMLS � A semantic-driven platform � The Ontology For Anatomical Simulation FMA ICPC (OFAS) model 120’000 concepts, 2.1 million relations � System overview NCI MedDRA 36’000 concepts � Scenarios MeSH GALEN 52’000 entities LOINC MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 19 20 Current medical ontology development Outline Current medical ontology development Outline � Aims: � Introduction � Biological databases, Medical Knowledge medical record, health � Current medical ontology development insurance, clinical � A semantic-driven platform billing, indexing, … ONTOLOGY � What next? � The Ontology For Anatomical Simulation (OFAS) model � Develop end user applications � System overview � Build the links with the � Scenarios Medical Data Medical Knowledge medical data and the 3D content ONTOLOGY MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 5
6/15/2009 21 22 The clinical platform The clinical platform The OFAS model The OFAS model � Classification of anatomical musculoskeletal concepts Clinical platform � 825 classes, 1244 instances � Contains parameters for the functional anatomy simulation (kinematics, mechanics) user input ONTOLOGY DATA � All concepts are linked to a 3D model � Limited to the musculoskeletal output system of the lower limb MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 23 24 The OFAS model The OFAS model The OFAS model The OFAS model � Structure (in Protégé): � Relations between classes Classes Relations Instances Class hierarchy Attributes and values Example: A muscle has a tendon which is attached to a bone (skeletal component). MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 6
6/15/2009 25 26 System overview System overview System overview System overview export Ontology XML file Protégé browser Clinical platform DB XML MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva 16 th June 2009 16 th June 2009 Where Research Means Creativity www.miralab.ch Where Research Means Creativity www.miralab.ch 27 28 Outline Scenario 1: visualization Outline Scenario 1: visualization � Introduction � Current medical ontology development � A semantic-driven platform The system queries the ontology � The Ontology For Anatomical Simulation (OFAS) model � System overview � Scenarios MIRALab WAM 2009 MIRALab WAM 2009 University of Geneva University of Geneva www.miralab.ch 16 th June 2009 www.miralab.ch 16 th June 2009 Where Research Means Creativity Where Research Means Creativity 7
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