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--- activities:spa [2021/01/20 15:38]
gibaud
+++ activities:spa [2022/11/07 14:14] (current)
janin
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 <html> <div class="pageTitle"> Surgical planning and assistance </div></html>
-Under creation, Please refer to the [[activities:projects|projects page ]]
 ====== Description ======
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 ====== Current Projects ======
+==== Surgical Data Science for Deep Brain Stimulation ====
+[[activities:theme1:sdsdbs|{{  :activities:theme1:vta.png?150|}}]]\\
+High frequency and continuous electrical stimulation of deep brain structures (DBS) has been demonstrated as an efficient minimally invasive surgical treatment for treating motor related diseases and recently severe neuropsychological diseases. The quality of the clinical improvement, as well as the existence of motor, neuropsychological or psychiatric side effects strongly depend on the location of the electrodes. To improve targeting and post operative evaluation for better outcome and reduced side effects, we studied and implemented an approach based on numeric and symbolic models for helping decision making process in deep brain stimulation surgery. [[activities:theme1:sdsdbs|More information]]
+\\
 ==== Acroboat: Analysis of Robotic Surgery ====
 [[[activities:spa:acroboat|{{  :activities:spa:acroboat_trajectory2.png?200|}}]]\\
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 [[activities:theme1:projects:ontospm|{{  :activities:theme1:ontospm.png?200|}}]]\\
 Many application contexts in surgery necessitate to define knowledge models of surgical processes, e.g. decision support systems, context-aware systems, ... A key feature of such knowledge models is to rely on a standard vocabulary modeling the various entities and relations involved in the domain of interest. OntoSPM is an ontology developed to provide a generic vocabulary of the domain of surgical procedures, focusing on entities such as surgical procedure steps, surgical actions, actors, instruments and roles. [[activities:theme1:projects:ontospm|More information]]
-==== Surgical Data Science for Deep Brain Stimulation ====
-[[activities:theme1:sdsdbs|{{  :activities:theme1:vta.png?150|}}]]\\
-High frequency and continuous electrical stimulation of deep brain structures (DBS) has been demonstrated as an efficient minimally invasive surgical treatment for treating motor related diseases and recently severe neuropsychological diseases. The quality of the clinical improvement, as well as the existence of motor, neuropsychological or psychiatric side effects strongly depend on the location of the electrodes. To improve targeting and post operative evaluation for better outcome and reduced side effects, we studied and implemented an approach based on numeric and symbolic models for helping decision making process in deep brain stimulation surgery. [[activities:theme1:sdsdbs|More information]]
@@ Line 80: / Line 80: @@
 [[http://neurolog.i3s.unice.fr/|{{  :activities:theme3:neurolog.png|}}]]\\
 The NeuroLOG project was developed based on the results of the NeuroBase Concerted Action (Action Concertée Incitative). This NeuroBase ACI was a Proof of Concept demonstrating the relevance and feasibility of federated systems for sharing imaging data in neuroimaging. During the NeuroLog project a distributed platform was set up to support multi-centric studies in neurosciences. The platform was deployed over 5 neuroscience centers spread all over France (Grenoble, Nice, Paris, Rennes). It enabled neurodata stores federation, neurodata analysis pipelines description and delivered grid computing capability to support data-intensive experiments in a secured environment. The NeuroLOG middleware is non-intrusive, since it interfaces the legacy neurodatabases available at each center participating in the federation thanks to a mediator called "Data federator" provided by the Business Objects company. The federation of the databases relies on a common ontology called OntoNeuroLog developed during the project, used to align the heterogeneous data present in the different databases onto a common schema.
-The main modules of OntoNeuroLog are available at the NCBO Bioportal:
+The main modules of OntoNeuroLog are available at the National Center of Biomedical Ontology (NCBO) Bioportal:
-  * [[https://bioportal.bioontology.org/ontologies/ONL-DP| OntoNeuroLog Dataset processing (ONL-DP) ]]
+  * [[https://bioportal.bioontology.org/ontologies/ONL-DP| OntoNeuroLog - Dataset processing (ONL-DP) ]]
-  * [[https://bioportal.bioontology.org/ontologies/ONL-MR-DA| OntoNeuroLog Magnetic Resonance Dataset Acquisition Ontology (ONL-MR-DA) ]]
+  * [[https://bioportal.bioontology.org/ontologies/ONL-MR-DA| OntoNeuroLog - Magnetic Resonance Dataset Acquisition (ONL-MR-DA) ]]
-  * [[https://bioportal.bioontology.org/ontologies/ONL-MSA| OntoNeuroLog Mental State Assessment (ONL-MSA) ]]
+  * [[https://bioportal.bioontology.org/ontologies/ONL-MSA| OntoNeuroLog - Mental State Assessment (ONL-MSA) ]]
  [[http://neurolog.i3s.unice.fr/|More information]]
-==== Neurobase (2002-2006) ====
-{{:infomanagement.jpg?170|}}
 ==== Shanoir project (2007-2011) ====
-{{:activities:theme3:shanoir.png?170|}}
+{{  :activities:theme3:shanoir.png?170|}}
+The Shanoir project was initiated by IRISA during the NeuroLOG project. It aims at designing a repository supporting the storage of neuroimaging data.
+The Shanoir system involves a relational database whose schema is aligned on the OntoNeuroLog ontology. The system has been continuously developed by IRISA since 2007. It is used in several neuroimaging centers in Grenoble, Rennes ([[https://project.inria.fr/neurinfo/fr/|Neurinfo platform]]) and in the France Life Imaging infrastructure: [[https://project.inria.fr/fli/|Information Analysis and Management (IAM) node]]
 ==== Virtual Imaging Platform (2009-2012) ====
 [[https://www.creatis.insa-lyon.fr/vip/|{{  :activities:theme3:vip.png?170|}}]]
+The VIP project aimed at setting up a platform allowing the sharing on the internet of medical image simulation tools, facilitating their use by large communities of researchers, and offering a grid-based computation environment. This platform implemented several simulation packages dedicated to various medical imaging modalities (CT, MR, PET, US), namely SIMBAD for CT, SIMRI for MR, SORTEO for PET, and FIELD II for US.
+Our contribution concerned the sharing and reuse of anatomical/physiological models that can be used to create simulated images. An ontology (called OntoVIP) was designed to model the vocabulary used to describe such models. It reused significant parts of the OntoNeuroLOG ontology, as well as other ontologies, namely:  FMA (Foundational Model of Anatomy), PATO (Ontology of phenotypic traits), MPATH (Mouse pathology), RadLex (Lexicon of radiology) and ChEBI (chemical entities of biological interest).
+The OntoVIP ontology is available at the National Center of Biomedical Ontology (NCBO) Bioportal: [[https://bioportal.bioontology.org/ontologies/OntoVIP| OntoVIP ontology ]]
 [[https://www.creatis.insa-lyon.fr/vip/|More information]]
+For older completed projects, please refer to the [[activities:projects|past-projects page ]]