SIGMENT : Une base de données bibliographique critique pour estimer la répartition géographique des traditions techniques lithiques du Gravettien moyen et récent en France.

(French) La base de données SIGMENT (SItes du Gravettien Moyen et récENT) a pour objectif d’estimer fiablement la distribution géographique des traditions techniques lithiques du Gravettien moyen et récent en France et dans ses marges. Elle compile des données contextuelles et culturelles sur 232 collections archéologiques provenant de 165 sites en France, Espagne, Italie et Allemagne, à partir de références publiées et d’observations personnelles. Une grille d’analyse qualitative a ensuite permis de classifier la fiabilité de la présence des traditions archéologiques étudiées pour chaque localité. Le résultat de cette classification montre qu’une partie importante des occurrences n’est pas fiable. À partir de l’étude historiographique et archéologique de plusieurs collections du Sud-Ouest de la France, nous discutons des facteurs ayant pu influencer la sur- ou sous-estimation de la présence de ces traditions archéologiques à partir d’un recensement strictement bibliographique, en particulier la variabilité des approches analytiques, des méthodologiques de fouille et de conservation ainsi que des décalages dans la façon dont ces collections sont décrites dans la littérature. Cette base de données critique a été mise à disposition des chercheur.euse.s, pour leur permettre de réutiliser ces données dans leurs travaux (English) This article presents the « SItes du Gravettien Moyen et récENT » (SIGMENT) database, which aims to reliably estimate the geographic distribution of Middle and Recent Gravettian lithic technical traditions in France and neighboring regions. We compiled contextual and cultural data from nearly 190 published references or personal observations on 232 collections from 165 sites in France, Spain, Italy and Germany. We then established a qualitative grid to classify the presence reliability of archaeological traditions at each site. We found that many of these occurrences are unreliable and tagged them as not suitable for integration into larger scale models focused on the geographic distribution of archaeological traditions. Building on the historiographic and archaeological study of several assemblages from southwestern France, we discuss the factors that may have influenced the traditions’ presence over- or under-estimation from a strict bibliographic approach, including varying analytical approaches, excavation and conservation methodologies, and inconsistencies in how assemblages are described in the published literature. This critical database may be used by researchers to explore the spatial patterns of the Middle and Recent Gravettien lithic technical traditions at regional to inter-regional or to implement their inventories of sites

The French NATIONAL CYBER CORE REPOSITORY: a user-oriented approach to promote the referencing of scientific cores

PosterInternational audienceIn plaeosciences the question of data management is made sensitive by the need of preserving and managing high value fragile geological samples: cores. Large international scientific programs, such as IODP or ICDP led intense effort for such, proposing detailed high standard work- and dataflows. However many paleoscience results derived from small-scale research programs in which data and sample management are too often managed only locally – when they are. In France a national effort is currently led to develop an integrated system to curate ice and sediment cores. Under the umbrella of the national excellence equipment program CLIMCOR, we launched a reflexion about core curating and the management of associated fieldwork data. Our aim was then to preserve all data from fieldwork in an integrated cyber-environment. To do so, our demarche was conducted through an intimate relationship with field operators and laboratory core curators in order to propose user-oriented solutions. We built a single web portal that is used as a national hub from any team’s data and to international standards (IGSNs, INSPIRE) and databases (IMLGS). For legacy samples, this requires the establishment of a dedicated cores list with associated metadata. However, for forthcoming core data, we developed a mobile application to capture technical and scientific data directly on the field. This application is linked with a unique coring-tools library and is adapted to most coring devices (gravity, drilling, percussion etc.) including multiple sections and holes coring operations. In this paper, we present the architecture of the integrated system, future perspectives and the approach we adopted to reach our goals. We will also present our mobile application through didactic examples

The French initiative for scientific cores virtual curating : a user-orientedintegrated approach

PosterInternational audienceManaging scientific data is probably one the most challenging issue in modern science. The question is made evenmore sensitive with the need of preserving and managing high value fragile geological sam-ples: cores. Largeinternational scientific programs, such as IODP or ICDP are leading an intense effort to solve this problem andpropose detailed high standard work- and dataflows thorough core handling and curating. However most resultsderived from rather small-scale research programs in which data and sample management is generally managedonly locally – when it is . . .The national excellence equipment program (Equipex) CLIMCOR aims at developing French facilities for coringand drilling investigations. It concerns indiscriminately ice, marine and continental samples. As part of this initiative,we initiated a reflexion about core curating and associated coring-data management. The aim of the project isto conserve all metadata from fieldwork in an integrated cyber-environment which will evolve toward laboratoryacquireddata storage in a near future. In that aim, our demarche was conducted through an close relationship withfield operators as well laboratory core curators in order to propose user-oriented solutions.The national core curating initiative currently proposes a single web portal in which all scientifics teams can storetheir field data. For legacy samples, this will requires the establishment of a dedicated core lists with associatedmetadata. For forthcoming samples, we propose a mobile application, under Android environment to capture technicaland scientific metadata on the field. This application is linked with a unique coring tools library and is adaptedto most coring devices (gravity, drilling, percussion, etc...) including multiple sections and holes coring operations.Those field data can be uploaded automatically to the national portal, but also referenced through internationalstandards or persistent identifiers (IGSN, ORCID and INSPIRE) and displayed in international portals (currently,NOAA’s IMLGS).In this paper, we present the architecture of the integrated system, future perspectives and the approach we adoptedto reach our goals. We will also present in front of our poster, one of the three mobile applications, dedicated moreparticularly to the operations of continental drillings

The French initiative for scientific cores virtual curating : a user-orientedintegrated approach

PosterInternational audienceManaging scientific data is probably one the most challenging issue in modern science. The question is made evenmore sensitive with the need of preserving and managing high value fragile geological sam-ples: cores. Largeinternational scientific programs, such as IODP or ICDP are leading an intense effort to solve this problem andpropose detailed high standard work- and dataflows thorough core handling and curating. However most resultsderived from rather small-scale research programs in which data and sample management is generally managedonly locally – when it is . . .The national excellence equipment program (Equipex) CLIMCOR aims at developing French facilities for coringand drilling investigations. It concerns indiscriminately ice, marine and continental samples. As part of this initiative,we initiated a reflexion about core curating and associated coring-data management. The aim of the project isto conserve all metadata from fieldwork in an integrated cyber-environment which will evolve toward laboratoryacquireddata storage in a near future. In that aim, our demarche was conducted through an close relationship withfield operators as well laboratory core curators in order to propose user-oriented solutions.The national core curating initiative currently proposes a single web portal in which all scientifics teams can storetheir field data. For legacy samples, this will requires the establishment of a dedicated core lists with associatedmetadata. For forthcoming samples, we propose a mobile application, under Android environment to capture technicaland scientific metadata on the field. This application is linked with a unique coring tools library and is adaptedto most coring devices (gravity, drilling, percussion, etc...) including multiple sections and holes coring operations.Those field data can be uploaded automatically to the national portal, but also referenced through internationalstandards or persistent identifiers (IGSN, ORCID and INSPIRE) and displayed in international portals (currently,NOAA’s IMLGS).In this paper, we present the architecture of the integrated system, future perspectives and the approach we adoptedto reach our goals. We will also present in front of our poster, one of the three mobile applications, dedicated moreparticularly to the operations of continental drillings

From core referencing to data re-use: two French national initiatives to reinforce paleodata stewardship (National Cyber Core Repository and LTER France Retro-Observatory)

PosterInternational audienceManaging paleoscience data is highly challenging to the multiplicity of actors in play, types of sampling, analysis, post-analysis treatments, statistics etc. However, a well-structured curating of data would permit innovative developments based on data and/or sample re-use, such as meta-analysis or the development of new proxies on previously studied cores. In this paper, we will present two recent initiatives that allowed us tackling this objective at a French national level: the “National Cyber Core Repository” (NCCR) and the “LTER-France retro-observatory” (ROZA).NCCR was developed under the umbrella of the French National Center fo Coring and Drilling (C2FN) thanks to the national excellence equipment project CLIMCOR. It aims at gathering on a unique website the locations and metadata of any scientific coring/drilling performed by French teams or using French facilities, whatever the type of archive it is (lake/marine sediment; ice etc.). It uses international standard, notably IGSN (for samples), ORCID (for persons) and DOI (for campaigns). NCC follows the INSPIRE ISO 19115 standard in order to catalogue the data. For continental sediment, NCCR may be fed directly on the field through a specifically developed mobile application.Based on NCCR, further initiatives may be led. In particular, under the umbrella of LTER-France (Long Term Ecological Research), we developed ROZA in order to facilitate the re-use of data and samples. Here the idea is to capitalise the knowledge on a given lake from which several sediment cores can be taken through time. In that aim we selected at least one lake from each of the 13 areas composing the network LTER-France. To enter the database, a set of mandatory data must be provided under a pre-determined format. In that case, the insertion of ROZA within the network LTER will favor to use of paleodata by non-paleodata scientists, in particular ecologists

The French initiative for scientific cores virtual curating : a user-oriented integrated approach

PosterInternational audienceManaging scientific data is a crucial issue for modern science. This concerns particularly the conservation of high value geological samples: cores. International scientific programs are leading an intense effort to solve this problem and propose detailed high standard work- and dataflows including core handling and curating. However, there is currently no consensual standard for sample and associated metadata management. The national excellence equipment program CLIMCOR aims at developing French facilities for scientific coring (ice, marine and continental). As part of it, we led a reflexion about cores and associated metada curating. Our aim is to conserve all metadata from fieldwork in an integrated cyber-environment which could evolve toward laboratory-acquired data storage. In that aim, our demarche was conducted through a close relationship with field operators and core curators, in order to propose user-oriented solutions.The national core curating initiative currently proposes a single web portal to store field data. For forthcoming samples, we propose a mobile application to capture technical and scientific metadata on the field or in cruise. This application is linked with a unique coring tools library and is adapted to most coring devices, including multiple sections and holes coring operations.Those field data can be uploaded automatically to the national portal, but also referenced through international standards or persistent identifiers (IGSN - SESAR, ORCID) and INSPIRE schema and displayed in international portals (currently, NOAA IMLGS).In this paper, we present the architecture of the integrated system, future perspectives and the approach we adopted to reach our goals.(1) http://climcor-equipex.dt.insu.cnrs.fr/?lang=e

From the field to the database: a user-oriented approach to promote cyber-curating of scientific continental drilling cores

International audienceManaging scientific data is probably one the most challenging issues in modern science. In plaeosciences the question is made even more sensitive with the need of preserving and managing high value fragile geological samples: cores. Large international scientific programs, such as IODP or ICDP led intense effort to solve this problem and proposed detailed high standard work- and dataflows thorough core handling and curating. However many paleoscience results derived from small-scale research programs in which data and sample management is too often managed only locally – when it is… In this paper we present a national effort leads in France to develop an integrated system to curate ice and sediment cores. Under the umbrella of the national excellence equipment program CLIMCOR, we launched a reflexion about core curating and the management of associated fieldwork data. Our aim was then to conserve all data from fieldwork in an integrated cyber-environment which will evolve toward laboratory-acquired data storage in a near future. To do so, our demarche was conducted through an intimate relationship with field operators as well laboratory core curators in order to propose user-oriented solutions. The national core curating initiative proposes a single web portal in which all teams can store their fieldwork data. This portal is used as a national hub to attribute IGSNs. For legacy samples, this requires the establishment of a dedicated core list with associated metadata. However, for forthcoming core data, we developed a mobile application to capture technical and scientific data directly on the field. This application is linked with a unique coring-tools library and is adapted to most coring devices (gravity, drilling, percussion etc.) including multiple sections and holes coring operations. Those field data can be uploaded automatically to the national portal, but also referenced through international standards (IGSN and INSPIRE) and displayed in international portals (currently, NOAA’s IMLGS). In this paper, we present the architecture of the integrated system, future perspectives and the approach we adopted to reach our goals. We will also present our mobile application through didactic examples

Gestion et valorisation des carottes sédimentaires à but scientifique en France : vers un système intégré

International audienceLes carottes sédimentaires font l'objet d'un intérêt grandissant de la part des paléo-environnementalistes mais également d’écologues qui s'intéressent à la trajectoire des écosystèmes (Pansu et al., 2015; Perga et al., 2015). Les carottes marines ou continentales prélevées dans le cadre de consortiums internationaux (IODP, ICDP) donnent l’exemple depuis des décennies en terme de partage d’échantillons pour ce type d’étude ; plus récemment l’augmentation de ré-études massives de données publiées (Bolliet et al., 2016; Cartapan is et al., 2016) démontrent la valeur de ces échantillons et des données associées. De leur côté depuis quelques années, les législateurs et financeurs poussent à l’ouverture, au partage et à la traçabilité des données : on peut citer l’OCDE, l’UE, l’ERC... Comment notre communauté peut-elle s’inscrire au quotidien dans ces processus qui demandent de profonds changements culturels dans nos pratiques de recherche ? C’est pour tenter d’apporter une réponse à cette question que nous avons cherché à développer un système intégré de captation et de gestion des métadonnées des échantillons issus de forages scientifiques, qui puisse être implémenté au niveau national et connecté à des initiatives internationales, sur lequel pourront venir s’appuyer les futurs Plans de Gestion de Données. Par une approche bottom-up, pragmatique et au plus près des pratiques des équipes de recherche, nombreuses, dispersées, aux moyens inégaux, et en s’appuyant sur des initiatives existantes, nous tentons de répondre petit à petit à différents niveaux - de la mission de prélèvement jusqu'à leur stockage, en passant par la mise à disposition, le suivi et la valorisation des échantillons et des métadonnées qui leur sont associées. Des avancées rapides ont pu être obtenues par la rencontre entre une communauté de paléoécologues et des équipes techniques novatrices dans le domaine du partage et de l’interopérabilité mêlant des informaticiens, géomaticiens, curateurs d’échantillons et de données. Cette dynamique s’appuie sur 3 projets nationaux (Cyber-Carothèque nationale s/c Equipex CLIMCOR ANR-11-EQPX-0009 ; QR-Code LTSER- France ; ROZA LTSER-France) et s’inscrit dans le cadre du Centre de Carottage et de Forage National (C2FN), une cellule de la division technique de l’INSU. Nous présenterons dans cette intervention 4 outils qui seront à court terme interconnectés : i)CoreBOOK, une application mobile de terrain dédiée à la captation des métadonnées de forage ; ii) le portail de la cyber-carothèque national, un hub accueillant les données nouvellement acquises et les inventaires de carothèques ; iii) Collec-Science, outil générique de gestion de collections d’échantillons naturels adapté à nos besoins (s/c projet QrCODE); enfin iv) ROZA (Rétro-Observatoire des Zones Ateliers), un prototype de découvreur et visualiseur de données destiné à favoriser la réutilisation des échantillons et des données paléoenvironnementales en mettant à disposition les données essentielles à la capitalisation des connaissances d’études successives sur un même site. Les perspectives aujourd'hui sont grandes, le système modulaire qui commence à se dessiner doit permettre à chacun de trouver son compte, à son rythme, où opérationnel peut enfin rimer avec standardisation, traçabilité et interopérabilité tout en conservant une utilisabilité au plus proche des activités et besoins quotidiens des chercheurs et personnels d’accompagnement, afin d’opérer un virage en douceur vers des pratiques de la science dite « ouverte

Gestion et valorisation des carottes sédimentaires à but scientifique en France : vers un système intégré

International audienceLes carottes sédimentaires font l'objet d'un intérêt grandissant de la part des paléo-environnementalistes mais également d’écologues qui s'intéressent à la trajectoire des écosystèmes (Pansu et al., 2015; Perga et al., 2015). Les carottes marines ou continentales prélevées dans le cadre de consortiums internationaux (IODP, ICDP) donnent l’exemple depuis des décennies en terme de partage d’échantillons pour ce type d’étude ; plus récemment l’augmentation de ré-études massives de données publiées (Bolliet et al., 2016; Cartapan is et al., 2016) démontrent la valeur de ces échantillons et des données associées. De leur côté depuis quelques années, les législateurs et financeurs poussent à l’ouverture, au partage et à la traçabilité des données : on peut citer l’OCDE, l’UE, l’ERC... Comment notre communauté peut-elle s’inscrire au quotidien dans ces processus qui demandent de profonds changements culturels dans nos pratiques de recherche ? C’est pour tenter d’apporter une réponse à cette question que nous avons cherché à développer un système intégré de captation et de gestion des métadonnées des échantillons issus de forages scientifiques, qui puisse être implémenté au niveau national et connecté à des initiatives internationales, sur lequel pourront venir s’appuyer les futurs Plans de Gestion de Données. Par une approche bottom-up, pragmatique et au plus près des pratiques des équipes de recherche, nombreuses, dispersées, aux moyens inégaux, et en s’appuyant sur des initiatives existantes, nous tentons de répondre petit à petit à différents niveaux - de la mission de prélèvement jusqu'à leur stockage, en passant par la mise à disposition, le suivi et la valorisation des échantillons et des métadonnées qui leur sont associées. Des avancées rapides ont pu être obtenues par la rencontre entre une communauté de paléoécologues et des équipes techniques novatrices dans le domaine du partage et de l’interopérabilité mêlant des informaticiens, géomaticiens, curateurs d’échantillons et de données. Cette dynamique s’appuie sur 3 projets nationaux (Cyber-Carothèque nationale s/c Equipex CLIMCOR ANR-11-EQPX-0009 ; QR-Code LTSER- France ; ROZA LTSER-France) et s’inscrit dans le cadre du Centre de Carottage et de Forage National (C2FN), une cellule de la division technique de l’INSU. Nous présenterons dans cette intervention 4 outils qui seront à court terme interconnectés : i)CoreBOOK, une application mobile de terrain dédiée à la captation des métadonnées de forage ; ii) le portail de la cyber-carothèque national, un hub accueillant les données nouvellement acquises et les inventaires de carothèques ; iii) Collec-Science, outil générique de gestion de collections d’échantillons naturels adapté à nos besoins (s/c projet QrCODE); enfin iv) ROZA (Rétro-Observatoire des Zones Ateliers), un prototype de découvreur et visualiseur de données destiné à favoriser la réutilisation des échantillons et des données paléoenvironnementales en mettant à disposition les données essentielles à la capitalisation des connaissances d’études successives sur un même site. Les perspectives aujourd'hui sont grandes, le système modulaire qui commence à se dessiner doit permettre à chacun de trouver son compte, à son rythme, où opérationnel peut enfin rimer avec standardisation, traçabilité et interopérabilité tout en conservant une utilisabilité au plus proche des activités et besoins quotidiens des chercheurs et personnels d’accompagnement, afin d’opérer un virage en douceur vers des pratiques de la science dite « ouverte

Prevalence of and factors associated with extraintestinal manifestations and their remission in inflammatory bowel disease: the EXTRA prospective study from the GETAID

Abstract Background and aims: Extraintestinal manifestations (EIM) of inflammatory bowel disease (IBD) are challenging clinical situation. No prospective study assessed remission risk factors for EIMs. Study aimed to prospectively investigate the epidemiology, risk factors for EIM occurrence and EIM remission in a large IBD cohort. Methods: We conducted a cross-sectional study in 30 French referral centers. Between May to June 2021, all consecutive patients attending to hospital appointment were systematically invited to fill out a questionnaire. Results: A total of 1971 consecutive patients with IBD were analyzed. There were 1056 women (53.8%), and the median age of patients was 41 years [31; 54]. The median disease duration was 11 years [1; 18]. Overall, 544 (27.6%) had at least one EIM. In 20.2% of case, patient had multiple EIMs. The most frequent EIMs were rheumatological (19%) and dermatological (10%) manifestations. Immunosuppressant treatment (OR=2.56; p<0.001) was a risk factor for EIM, while the Montreal A3 classification (OR=0.61, p=0.023) and male gender (OR=0.61, p<0.001) were associated with a lower risk for EIM occurrence. IBD current clinical remission (OR=2.42; p<0.001) and smoking cessation (OR=2.98; p<0.001) were associated factors for EIM remission. Conversely, age at IBD diagnosis (OR=0.98; p<0.018) was associated with a lower risk of EIM remission. Conclusion: One quarter of patients had at least one EIM. Beyond factors associated with the presence of EIMs, patients with IBD current clinical remission and smoking cessation are more likely to achieve EIM remission, while increasing age at IBD diagnosis is associated with decreased chance of remission