Mise en place d’une démarche qualité au LARMAUR

National audiencePoster: Implementation of a quality approach in LARMAURThe growth of research activities and human resources of the LARMAUR, has led the direction of the laboratory to initiate a quality approach in January 2012. The main objective was to optimize the organization and the running of the research unit. The quality policy is covering: the reorganization of the laboratory (research topics, work groups, operating mode), the optimization of organization, operation and management of experimental devices and the optimization of scientific and technical research performed in the laboratory. To get buy-in with the quality approach, it was decided to give to the "proof of concept". The approach was implemented on an experimental device working closely with the team. Once the concept has been validated by the laboratory council, a quality manager has been appointed, and the project has been extent to the whole laboratory considering the small size of the research unit.More information: http://www.larmaur.univ-rennes1.frKeywords: research, management, optimization, process, qualityPoster : Mise en place d’une démarche qualité au LARMAURFort de la dynamique croissante des activités et des ressources humaines du LARMAUR, une démarche qualité a été initiée par la direction en janvier 2012 afin d’optimiser l’organisation et le fonctionnement de l’unité. La politique qualité mise en place par la direction concerne : la réorganisation du laboratoire (thèmes de recherche, groupe de travail, mode de fonctionnement), l’optimisation de l’organisation, du fonctionnement et de la gestion des dispositifs expérimentaux et la valorisation des travaux scientifiques et techniques réalisés au sein du laboratoire.Afin de remporter l’adhésion de l’unité sur cette démarche, il a été décidé de passer par la « preuve du concept » en appliquant la démarche sur un dispositif expérimental dont l’équipe associée était convaincue de l’intérêt. A l’issue d’une présentation des résultats obtenus en conseil de laboratoire, un responsable qualité a été nommé, et le projet a été étendu à l’ensemble du laboratoire en s’adaptant aux besoins d’une unité de recherche de petite taille.En savoir plus : http://www.larmaur.univ-rennes1.frMots clés : recherche, organisation, valorisation, processus, qualit

Institut de Physique de Rennes La démarche qualité au sein du Département Mécanique et Verres

International audienceInstitut de Physique de RennesLa démarche qualité au sein du Département Mécanique et VerresMariette NIVARD1, Jean-Christophe SANGLEBOEUF2Depuis plusieurs années, le LARMAUR ERL 6274 du CNRS, est une unité de recherche qui s’inscrit dans une dynamique de croissance, tant en ressource humaine qu’en projets scientifiques. A l’occasion de la dernière évaluation AERES, les tutelles ont souhaité une intégration à mi-parcours de cette unité au sein de l’IPR3 (effectif depuis janvier 2014). La direction du LARMAUR a saisi cette occasion pour initier une démarche qualité et revoir l’organisation ainsi que le mode de fonctionnement du LARMAUR, futur département Mécanique et Verres. Ce poster est une synthèse de la politique qualité mise en place il y a deux ans, les objectifs attendus et les actions qualité réalisées sont décrits pour ce département de recherche qui est intimement lié à une filière une filière d’enseignement : Mécanique et Sciences pour l’Ingénieur de l’Université de Rennes1. Le département mécanique et verres est toujours dans une dynamique de travail sur la qualité, avec comme évènement marquant cette année les premiers audits internes de la qualité en recherche et en enseignement via des projets tuteurés de la Licence pro animateur qualité de l’IUT de Rennes. La démarche montre déjà très largement le bien fondé au quotidien de la mise en place des bonnes pratiques au sein d’une unité de recherche, et la réussite se mesure dans le temps par l’adhésion de la quasi-totalité du personnel du département à ce projet. 1Assistante Ingénieur en Instrumentation Scientifique et Techniques expérimentalesResponsable Qualité département Mécanique et [email protected] des UniversitésResponsable du département Mécanique et [email protected] de Physique de Rennes IPR UMR 6251 CNRSUniversité de Rennes 1Campus de Beaulie

Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool

<p>Abstract</p> <p>Background</p> <p>Roche 454 pyrosequencing platform is often considered the most versatile of the Next Generation Sequencing technology platforms, permitting the sequencing of large genomes, the analysis of variations or the study of transcriptomes. A recent reported bias leads to the production of multiple reads for a unique DNA fragment in a random manner within a run. This bias has a direct impact on the quality of the measurement of the representation of the fragments using the reads. Other cleaning steps are usually performed on the reads before assembly or alignment.</p> <p>Findings</p> <p>PyroCleaner is a software module intended to clean 454 pyrosequencing reads in order to ease the assembly process. This program is a free software and is distributed under the terms of the GNU General Public License as published by the Free Software Foundation. It implements several filters using criteria such as read duplication, length, complexity, base-pair quality and number of undetermined bases. It also permits to clean flowgram files (.sff) of paired-end sequences generating on one hand validated paired-ends file and the other hand single read file.</p> <p>Conclusions</p> <p>Read cleaning has always been an important step in sequence analysis. The pyrocleaner python module is a Swiss knife dedicated to 454 reads cleaning. It includes commonly used filters as well as specialised ones such as duplicated read removal and paired-end read verification.</p

Isolated granulocytic sarcoma of the pancreas: A tricky diagnostic for primary pancreatic extramedullary acute myeloid leukemia

We report two clinical cases of primary granulocytic sarcoma of the pancreas that were diagnosed on the surgical specimen. Atypical clinical and morphological presentations may have lead to pretherapeutic biopsies of the pancreatic mass in order to indicate primary chemotherapy. Literature review of this rare clinical presentation may help physicians to anticipate diagnostic and therapeutic strategies

From high throughput 454 GS FLX data analysis process of 16S RNA gene sequences using barcoding to bacterial community exploration

From high throughput 454 GS FLX data analysis process of 16S RNA gene sequences using barcoding to bacterial community exploratio

The ruminal level of trans-10 fatty acids of dairy cows is linked to the composition of bacterial community

The ruminal level of trans-10 fatty acids of dairy cows is linked to the composition of bacterial communit

Whole-genome, deep pyrosequencing analysis of a duck influenza A virus evolution in swine cells.

We studied the sub-population level evolution of a duck influenza A virus isolate during passage in swine tracheal cells. The complete genomes of the A/mallard/Netherlands/10-Nmkt/1999 strain and its swine cell-passaged descendent were analysed by 454 pyrosequencing with coverage depth ranging from several hundred to several thousand reads at any point. This allowed characterization of defined minority sub-populations of gene segments 2, 3, 4, 5, 7, and 8 present in the original isolate. These minority sub-populations ranged between 9.5% (for segment 2) and 46% (for segment 4) of their respective gene segments in the parental stock. They were likely contributed by one or more viruses circulating within the same area, at the same period and in the same or a sympatric host species. The minority sub-populations of segments 3, 4, and 5 became extinct upon viral passage in swine cells, whereas the minority sub-populations of segments 2, 7 and 8 completely replaced their majority counterparts. The swine cell-passaged virus was therefore a three-segment reassortant and also harboured point mutations in segments 3 and 4. The passaged virus was more homogenous than the parental stock, with only 17 minority single nucleotide polymorphisms present above 5% frequency across the whole genome. Though limited here to one sample, this deep sequencing approach highlights the evolutionary versatility of influenza viruses whereby they exploit their genetic diversity, predilection for mixed infection and reassortment to adapt to a new host environmental niche.This work was supported by a grant from DEFRA and HEFCE under the Veterinary Training and Research Initiative to the Cambridge Infectious Diseases Consortium (VB, LT), BBSRC grants BB/H014306/1 and BB/G00479X/1 (LT), and the French Ministry of Agriculture, INRA and the French Région Midi-Pyrénées (GC, J-LG, VB).This is the accepted version of the original version available at: http://dx.doi.org/10.1016/j.meegid.2013.04.03

Applied investigation of person-specific and context-specific factors on postoperative recovery and clinical outcomes of patients undergoing gastrointestinal cancer surgery: multicentre European study

INTRODUCTION: Cancer treatments have greatly advanced over the past two decades causing survival improvements and reduced complications from cancer surgery. However, the cancer diagnosis and the effects of treatment modalities pose a major risk to patients' psychological well-being. Given current interest and emerging evidence about the importance of psychological and social factors on cancer survival and coping with cancer treatments, this study will build and expand research in order to identify key modifiable psychosocial variables that contribute to better physical and mental health following gastrointestinal cancer (GIC) surgery. OBJECTIVES: To elucidate the incidence of postoperative psychiatric morbidity within 6 months following GIC surgery. To identify key measurable modifiable preoperative psychological factors that can significantly affect postoperative psychiatric morbidity in patients undergoing surgery for GIC. To clarify the changes seen in a patient's psychological well-being during their treatment pathway for GIC. METHODS AND ANALYSIS: This multicentre study has an observational longitudinal study design. In total, 1000 patients will be screened with a multicomponent psychological questionnaire at four different time points: at diagnosis, preoperatively, 1 and 6 months after surgery. Data from this questionnaire will be linked to postoperative complications including psychiatric morbidity, length of hospital stay and recovery to normal activity. ETHICS AND DISSEMINATION: NHS Health Research Authority approval was gained on (REC reference 15.LO/1847) for the completion of this study. Multiple platforms will be used for the dissemination of the research data, including international clinical and patient group presentations and publication of research outputs in a high impact clinical journal