0000000000004380
AUTHOR
Pierre Naubourg
showing 6 related works from this author
A Case Study of Open Source Software Development in Proteomic Area: The LIMS ePims
2008
The objective of this paper is to provide an illustrative feedback on development of Open Source software among several partners. We describe the first stage of the design of a specific software package, namely a customized Laboratory Information Management System (LIMS) for biology applications. This software package is structured in several modules which are reusable and can be customized for other applications. In this paper, we address the problem of multi-licensing for the same software tools due to the participation of several partners, the reuse of code source, and the subsequent distribution of this produced software.
A Multicentre Pilot Study of a Two-Tier Newborn Sickle Cell Disease Screening Procedure with a First Tier Based on a Fully Automated MALDI-TOF MS Pla…
2019
The reference methods used for sickle cell disease (SCD) screening usually include two analytical steps: a first tier for differentiating haemoglobin S (HbS) heterozygotes, HbS homozygotes and β-thalassemia from other samples, and a confirmatory second tier. Here, we evaluated a first-tier approach based on a fully automated matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) platform with automated sample processing, a laboratory information management system and NeoSickle® software for automatic data interpretation. A total of 6701 samples (with high proportions of phenotypes homozygous (FS) or heterozygous (FAS) for the inherited genes for sickle h…
Traitement des variabilités métier dans les Systèmes d'Information biologiques
2012
International audience; Les systèmes d'information scientifique nécessitent des fonctionnalités pour supporter deux types de variabilités majeures, la variabilité inter-acteurs et la variabilité inter-études. Nous traitons la variabilité inter-acteurs par un système d'importation des données garant de la qualité des données et la variabilité inter-études par l'utilisation d'un mécanisme d'annotation couplé au mécanisme de persistance. Afin de contrôler la qualité des données lors de leur importation en provenance de différents acteurs ou lors de leur annotation, nous proposons une approche basée sur deux niveaux de connaissance : 1) la connaissance relative aux applications du SI est représ…
A Approach to Clinical Proteomics Data Quality Control and Import
2011
International audience; Biomedical domain and proteomics in particular are faced with an increasing volume of data. The heterogeneity of data sources implies heterogeneity in the representation and in the content of data. Data may also be incorrect, implicate errors and can compromise the analysis of experiments results. Our approach aims to ensure the initial quality of data during import into an information system dedicated to proteomics. It is based on the joint use of models, which represent the system sources, and ontologies, which are use as mediators between them. The controls, we propose, ensure the validity of values, semantics and data consistency during import process.
Constraint Management in Engineering of Complex Information Systems
2009
We propose to build an engineering environment for information systems by using metamodels, OCL and symbolic model checkers to manage constraints. Our proposal is based on a definition of constraints as 3D spaces with dimensions corresponding to UML diagrams, constructs, and abstraction levels. We show how such environments can help with engineering quality complex systems by allowing to lift up a part of constraint verifications.
Domain knowledge integration and semantical quality management -A biology case study
2008
International audience; The management of semantical quality is a major challenge in the context of knowledge integration. In this paper, we describe a new approach to constraint management that emphasizes constraint traceability when moving from the semantical level to the operational one.Our strategy for management of semantical quality is related to a metamo-deling-based approach to knowledge integration. We carry out knowledge integration “on the fly” by using transformations applied to models belonging to our metamodeling architecture. The resulting integrated models access available resources through web services whose input and output parameters are guarded by constraints. Integrated…