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36

Romain DAVID,


Research fellow - Data Manager at ERINHA AISBL (European Research Infrastructure on Highly Pathogenic Agents)

  • Developing a data management plan for ERINHA
  • Implementing ERINHA data catalogue,
  • Developing cloud-compatible, FAIR-compliant data resources,
  • Ensuring data security, including restricting access to certain data as necessary, data recovery, secure storage and methodologies for the transfer of sensitive data,
  • Identifying and implementing relevant e-tools and e-infrastructures for ERINHA data management
  • Co-chair du R.D.A. IG Group SHARC (SHAring for Rewarding and Credits Interest Group in Research Data Alliance)

before Research fellow at INRAE (Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement) MISTEA laboratory (UMR Mathématiques, Informatique et STatistique pour l'Environnement et l'Agronomie)

  • Interoperability improvment for platforms (Phenotyping Hybrid Information System), ensure links between actors of different disciplines.
  • Develop activities on the development, adoption, choice and implementation of ontologies and standards,
  • Take part in the development of domain standards.
  • Co-chair du R.D.A. IG Group SHARC (SHAring for Rewarding and Credits Interest Group in Research Data Alliance)

before Ph.D. Océanography - Data mining at the Ecology and Environment Institute of the CNRS.
IMBE (UMR 7263) laboratory

Area of ​​activity

My work concerns large-scale observation systems of terrestrial and marine (agro)ecosystems and information systems and the dissemination of biodiversity knowledge coupled with them. I am particularly interested in new methods of data mining and data representation in the form of graphs. This formalization of knowledge makes it possible to envisage the use of new methods to analyze heterogeneous data, to propose scientific questions emerging from the data (and not the reverse, which is the classical scientific approach), and to make Scenario proposals dependent on contextual variables that can be used in the area of ​​decision support. I wish to continue to invest in the development of multidisciplinary research programs and partnerships involving scientists and public actors. FAIR data management and open science addict and "Data Management Plan with FAIR Compliance" evangelizer.

Themes and interests

Biodiversity Informatics, Databases, Distributed Systems, Knowledge Representation, Scientific Data Management, Data management plan, Data mining, Data Community Development, Data Visualization, Information Dissemination, 

Coastal Ecology, Macro-ecology, Benthos, Marine Ecology, Biodiversity Assessment, Environmental Impact Assessment, Wildlife Ecology, Biological Oceanography, Ecological restoration, Natural Resource Management, Decision support systems

Recent and ongoing research programs

Ongoing

  • EOSC Life - EOSC-Life brings together the 13 Biological and Medical ‘ESFRI’ research infrastructures (BMS RIs) to create an open, digital and collaborative space for biological and medical research. The project will publish ‘FAIR’ data and a catalogue of services provided by participating RIs for the management, storage and reuse of data in the European Open Science Cloud (EOSC).
  • Erinha Advance - ERINHA Research Infrastructure was successfully set up and has now entered into its operational phase. ERINHA-Advance is a H2020-funded project which aims to continue supporting the successful operation of the ERINHA Research Infrastructure to ensure its long-term sustainability.
  • D2KAB - Data to Knowledge in Agronomy and Biodiveristy project create a framework to turn agronomy and biodiversity data into knowledge –semantically described, interoperable, actionable, open– and investigate scientific methods and tools to exploit this knowledge for applications in science & agriculture
  • PARSEC - The PARSEC project is designed to provide a unique opportunity for data and synthesis scientists to collaborate and exchange in real-time toward the goal of improving research outcomes, data sharing, and data reuse. It will also help pioneer new scientific and data science technologies aimed at improving both the management and conservation of global biodiversity.
  • Foosin - project is working to facilitate the progressive implementation of FAIR principles by data managers and producers in agriculture and agri-food. Improved data management will facilitate interdisciplinarity and reproducibility of work while reducing data duplication. We are particularly interested in the application of FAIR principles to semantic resources (ontologies, thesauri…) which are themselves key elements for making data more FAIR (Principle I2).
  • TRAFIC - Areas of potential high-interaction between marine traffic and marine mammals in French West Indies: this project aims at improving the knowledge on the pressure of maritime activities on the marine environment in the Caribbean Sea. In particular, a master internship focuses on studying the spatiotemporal co-occurrence between marine traffic and cetaceans.

Recent

  • EPPN2020 - (UMR MISTEA part) European Plant Phénotyping Network (Horizon 2020 research and innovation programme under grant agreement No 731013)
  • IndexMeed - Indexing for Mining Ecological and Environmental Data : www.indexmed.eu (Funding 2016 - MI du CNRS)
  • GRAMINEES - GRAphe data Mining In Natural, Ecological and Environnemental Sciences (Funding GDR MaDICS)
  • EVACOR et EVACOR2 - EVAluation des services écosystémiques des habitats CORalligènes (1 et 2)
  • VIGI-GEEK - VIsualisation of Graph In transdisciplinary Global Ecology, Economy and Sociology data-Kernel  (Défi Imag'in, Funding MI du CNRS)
  • CHARLIE - CHAnger de Regard En Liant dans Indexmed l’Environnement et les Etoiles (PEPS Blanc, Funding INEE - CNRS)
  • CIGESMED - Coralligenous based Indicators to evaluate and monitor the "Good Environmental Status" of the MEDiterranean coastal waters (ANR conventions n° 12-SEAS-0001-01, 02 and 03 for France; GSRT - 12SEAS-12-C2 for Greece; TUBITAK Project No: 112Y393 for Turkey)
  • DEVOTES - DEVelopment Of innovative Tools for understanding marine biodiversity and assessing good Environmental Status www.devotes-project.eu (European Union's Seventh Framework Programme for research, technological development and demonstration under grant agreement n°308392)
  • Proteker - Effects of global change on the marine benthos and habitats in Kerguelen Islands. Establishment of a base line for ecological and genetic monitoring, protection and conservation. www.proteker.net (Programme IPEV 1044)

You will find the slides of the oral presentations - not accepted in hal on researchgate: Romain David on ResearchGate


Institut méditerranéen de biodiversité et d'écologie marine et continentale   

Theses1 document

  • Romain David. De la conception d'un système d'observation à large échelle au déploiement et à l'exploitation de son système d'information : application à l'observation des habitats coralligènes et à la colonisation de récifs artificiels (ARMS). Biodiversité et Ecologie. Aix Marseille Université, 2018. Français. ⟨tel-01839376⟩

Journal articles11 documents

  • Melih Ertan Çinar, Jean-Pierre Féral, Christos Arvanitidis, Romain David, Ergün Taşkin, et al.. Coralligenous assemblages along their geographical distribution: Testing of concepts and implications for management. Aquatic Conservation: Marine and Freshwater Ecosystems, Wiley, 2020, ⟨10.1002/aqc.3365⟩. ⟨hal-02892573⟩
  • Romain David, Maria Uyarra, Susana Carvalho, Holger Anlauf, Angel Borja, et al.. Lessons from photo analyses of Autonomous Reef Monitoring Structures as tools to detect (bio-)geographical, spatial, and environmental effects. Marine Pollution Bulletin, Elsevier, 2019, 141, pp.420-429. ⟨10.1016/j.marpolbul.2019.02.066⟩. ⟨hal-02061256⟩
  • Laure Thierry de Ville d'Avray, Dominique Ami, A. Chenuil, Romain David, Jean-Pierre Feral. Application of the ecosystem service concept at a small-scale: The cases of coralligenous habitats in the North-western Mediterranean Sea. Marine Pollution Bulletin, Elsevier, 2019, 138, pp.160-170. ⟨10.1016/j.marpolbul.2018.10.057⟩. ⟨hal-01933094⟩
  • Aurelien de Jode, Romain David, Anne Haguenauer, Abigail Cahill, Zinovia Erga, et al.. From seascape ecology to population genomics and back. Spatial and ecological differentiation among cryptic species of the red algae Lithophyllum stictiforme/L. cabiochiae, main bioconstructors of coralligenous habitats. Molecular Phylogenetics and Evolution, Elsevier, 2019, 137, pp.104-113. ⟨10.1016/j.ympev.2019.04.005⟩. ⟨hal-02125817⟩
  • Abigail Cahill, John Pearman, Angel Borja, Laura Carugati, Susana Carvalho, et al.. A comparative analysis of metabarcoding and morphology-based identification of benthic communities across different regional seas. Ecology and Evolution, Wiley Open Access, 2018, 8 (17), pp.8908-8920. ⟨10.1002/ece3.4283⟩. ⟨hal-01886882⟩
  • Stéphane Sartoretto, Thomas Schohn, Carlo Bianchi, Carla Morri, Joaquim Garrabou, et al.. An integrated method to evaluate and monitor the conservation state of coralligenous habitats: The INDEX-COR approach. Marine Pollution Bulletin, Elsevier, 2017, 120 (1-2), pp.222-231. ⟨10.1016/j.marpolbul.2017.05.020⟩. ⟨hal-01541141⟩
  • Romain David, Loup Bernard, Cyrille Blanpain, Alrick Dias, Jean-Pierre Feral, et al.. Visualisation de données sous forme de graphes en archéologie. Rencontre opérationnelle des archéologues d’ArkeoGIS et des écologues d’IndexMed . Digital Archaeology, iste open science, 2017, 17-1 (1). ⟨hal-01617580⟩
  • Abigail E. Cahill, Aurelien de Jode, Sophie Dubois, Zoheir Bouzaza, D. Aurelle, et al.. A multispecies approach reveals hot spots and cold spots of diversity and connectivity in invertebrate species with contrasting dispersal modes. Molecular Ecology, Wiley, 2017, 26 (23), pp.6563-6577. ⟨10.1111/mec.14389⟩. ⟨hal-01681650⟩
  • Romain David, Jean-Pierre Féral, Sophie Archambeau, Fanny Arnaud, David Auber, et al.. IndexMEED cases studies using "Omics" data with graph theory. Biodiversity Information Science and Standards, Sofia : Pensoft Publishers, 2017-, 2017, TDWG 2017 - Proceedings, 1 (2), pp.340-361. ⟨10.3897/tdwgproceedings.1.20740⟩. ⟨hal-01761535⟩
  • Vasilis Gerovasileiou, Thanos Dailianis, Emmanouela Panteri, Nikitas Michalakis, Giulia Gatti, et al.. CIGESMED for divers: Establishing a citizen science initiative for the mapping and monitoring of coralligenous assemblages in the Mediterranean Sea. Biodiversity Data Journal, Pensoft, 2016, 54 (e8692), ⟨10.3897/BDJ.4.e8692⟩. ⟨hal-01392025⟩
  • Roberto Danovaro, Laura Carugati, Berzano Marco, Abigail E. Cahill, Susana de Carvalho Spinola, et al.. Implementing and Innovating Marine Monitoring Approaches for Assessing Marine Environmental Status.. Frontiers in Marine Science, Frontiers Media, 2016, 3, pp.213. ⟨10.3389/fmars.2016.00213⟩. ⟨hal-01448726⟩

Conference papers14 documents

  • Aurelien de Jode, Romain David, Jacky Dubar, J. Rostan, Dorian Guillemain, et al.. Community ecology of coralligenous assemblages using a metabarcoding approach. 3rd Mediterranean Symposium on the conservation of Coralligenous & other Calcareous Bio-Concretions, Specially Protected Areas Regional Activity Centre (SPA/RAC), Jan 2019, Antalya, Turkey. pp.41-45. ⟨hal-02048506⟩
  • Romain David, Anna Cohen Nabeiro, Aurélie Delavaud, Alison Specht. Developing crediting/rewarding mechanisms to foster resources (data and materials) sharing in Research: towards recommendations First draft of recommendations from the SHARC biodiversity research community . RDA 11th Plenary meeting, Mar 2018, Berlin, Germany. ⟨hal-01861827⟩
  • Víctor Méndez Muñoz, Anna Cohen-Nabeiro, Romain David, Vicente Ivars Camáñez, Alfons Nonell-Canals, et al.. Analysis on the Graph Techniques for Data-mining and Visualization of Heterogeneous Biodiversity Data Sets. Complexis 2017, Apr 2017, Porto, Portugal. pp.144 - 151, ⟨10.5220/0006379701440151⟩. ⟨hal-01541140⟩
  • Bénédicte Madon, Romain David, René Garello, Linwood Pendleton, Ronan Fablet. Strike-Alert: Towards Real-time, High Resolution Navigational Software for Whale Avoidance. SUSTECH 2017 : 5th annual IEEE Conference on Technologies for Sustainability, Nov 2017, Phoenix, United States. ⟨hal-01623903⟩
  • Romain David, Jean-Pierre Féral, Thierry Tatoni. Architecture, concepts et services d'un système d'indexation de données distribuées pour l'observation à large échelle en écologie marine. 32ème Conférence sur la Gestion de Données - Principes, Technologies et Applications, laboratoire d’Informatique et d’Automatique pour les Systèmes (LIAS), Nov 2016, POITIERS, France. ⟨hal-01426497⟩
  • Romain David, Jean-Pierre Feral, Anne Archambeau, Nicolas Bailly, Cyrille Blanpain, et al.. IndexMed projects: new tools using the CIGESMED DataBase on Coralligenous for indexing, visualizing and data mining based on graphs. 8th International Congress on Environmental Modelling and Software, Toulouse, France, Sabine Sauvage, José-Miguel Sánchez-Pérez, Andrea Rizzoli (Eds.), Jul 2016, Toulouse, France. pp.32. ⟨hal-01425559⟩
  • Romain David, Jean-Pierre Feral, Sophie Gachet, Alrick Dias, Cyrille Blanpain, et al.. A first prototype for indexing, visualizing and mining heterogeneous data in Mediterranean ecology: within the IndexMed consortium interdisciplinary framework. 11th International Conference on Signal-Image Technology & Internet-Based Systems (SITIS), Kokou Yetongnon, Albert Dipanda, University Of Bourgogne, France and Richard Chbeir, University of Pau, France, Nov 2015, Bangkok, Thailand. pp. 232-239, ⟨10.1109/SITIS.2015.119⟩. ⟨hal-01433600⟩
  • Melih Ertan Çinar, Jean-Pierre Feral, Christos Arvanitidis, Romain David, Taskin Ergun, et al.. Preliminary assessment of macrobenthic assemblages of coralligenous habitats across the Mediterranean Sea. 2nd Mediterranean Symposium on the conservation of Coralligenous & other Calcareous Bio-Concretions , RAC/ASP, Oct 2014, Portorož, Slovenia. pp.207-208. ⟨hal-01790493⟩
  • Romain David, Sophie Dubois, Zinovia Erga, Dorian Guillemain, Laure Thierry de Ville d'Avray, et al.. CIGESMED’s protocol and network (Coralligenous basEd. Indicators to evaluate and monitor the “Good Environmental Status” of Mediterranean coastal waters). 5th International Symposium Monitoring of Mediterranean coastal areas: problems and measurement techniques, CNR-IBIMET Firenze, Jun 2014, Livorno, Italy. pp.828-843. ⟨hal-01790542⟩
  • Sandrine Ruitton, Sebastien Personnic, Enric Ballesteros, Denise Bellan-Santini, Charles-Francois Boudouresque, et al.. An ecosystem-based approach to assess the status of the Mediterranean coralligenous habitat.. RAC/SPA 2nd Mediterranean Symp. on the Conservation of coralligenous and other calcareous bio-concretions, RAC/SPA, Oct 2014, Portorož Slovenia. pp.153-158. ⟨hal-01790546⟩
  • Jean-Pierre Feral, Christos Arvanitidis, Anne Chenuil-Maurel, Melih Ertan Çinar, Romain David, et al.. CIGESMED: Coralligenous based indicators to evaluate and monitor the "good environmental statut" of the Mediterranean coastal waters, a SeasEra project. 2nd Mediterranean Symposium on the conservation of Coralligenous & other Calcareous Bio-Concretions, Oct 2014, Portorož, Slovenia. ⟨hal-01620607⟩
  • Stéphane Sartoretto, Romain David, D. Aurelle, Anne Chenuil-Maurel, Dorian Guillemain, et al.. AN INTEGRATED APPROACH TO EVALUATE AND MONITOR THE CONSERVATION STATE OF CORALLIGENOUS BOTTOMS: THE INDEX-COR METHOD. Conference: 2nd Mediterranean Symposium on the conservation of Coralligenous & other Calcareous Bio-Concretions, Oct 2014, Portorož, Slovenia. ⟨10.13140/2.1.3180.6405⟩. ⟨hal-01620618⟩
  • Romain David, Christos Arvanitidis, Melih Ertan Ҫinar, Stéphane Sartoretto, A DoĞan, et al.. CIGESMED habitat's characterization: a simple ans reusable typology at the Mediterranean scale . RAC/ASP 2nd Mediterranean Symposium on the conservation of Coralligenous & other Calcareous Bio-Concretions, Oct 2014, Portorož, Slovenia. pp.211-212. ⟨hal-01620541⟩
  • Romain David, Christos Arvanitidis, Melih Ertan Çinar, Stéphane Sartoretto, Sophie Dubois, et al.. CIGESMED. Protocols: how to implement a multidisciplinary approach on a large scale for coralligenous habitats surveys. RAC/SPA 2nd Mediterranean Symp. on the Conservation of coralligenous and other calcareous bio-concretions, RAC/SPA, Oct 2014, Portorož, Slovenia. pp.66-71, ⟨10.13140/2.1.1895.0086⟩. ⟨hal-01620550⟩

Poster communications3 documents

  • Romain David, Laurence Mabile, Mohamed Yahia, Anne Cambon-Thomsen, Anne-Sophie Archambeau, et al.. How to assess FAIRness to improve crediting and rewarding processes for data sharing? A step forward towards an extensive assessment grid. RDA 13th (P13) Plenary Meeting, Apr 2019, Philadelphia, United States. 2019, ⟨10.5281/ZENODO.2625721⟩. ⟨hal-02094678⟩
  • Romain David, Laurence Mabile, Mohamed Yahia, Anne Cambon-Thomsen, Anne-Sophie Archambeau, et al.. Operationalizing and evaluating the FAIRness concept for a good quality of data sharing in Research: the RDA-SHARC-IG (SHAring Rewards and Credit Interest Group). assemblée MaDICS 2018, Nov 2018, Strasbourg, France. 2018, ⟨10.5281/zenodo.1745374⟩. ⟨hal-01929834⟩
  • Romain David, Laurence Mabile, Mohamed Yahia, Anne Cambon-Thomsen, Anne-Sophie Archambeau, et al.. How to operationalize and to evaluate the FAIRness in the crediting and rewarding processes in data sharing: a first step towards a simplified assessment grid. JNSO 2018 - Journées Nationales de la Science Ouverte, Dec 2018, Paris, France. 2018. ⟨hal-01943521v2⟩

Book sections2 documents

  • Romain David, Sophie Dubois, Zinovia Erga, Dorian Guillemain, Laure Thierry de Ville d'Avray, et al.. CIGESMED’s protocol and network (Coralligenous based Indicators to evaluate and monitor the “Good Environmental Status” of Mediterranean coastal waters). CNR-IBIMET Proceedings of Fifth International Symposium MONITORING OF MEDITERRANEAN COASTAL AREAS: PROBLEMS AND MEASUREMENT TECHNIQUES, pp.828-843, 2014, 978-88-95597-19-5. ⟨hal-01620518⟩
  • Jean-Pierre Feral, Romain David. Zones côtières et développement durable : une équation à résoudre . A. Euzen, L. Eymard, F. Gaill. Le devéloppement durable à découvert, Le devéloppement durable à découvert (Chapter: 2-22), CNRS editions, pp.96-97, 2013, 978-2-271-07896-4. ⟨hal-01620564⟩

Other publications1 document

  • Chris Smith, Nadia Papadopoulou, Katerina Sevastou, Anita Franco, Heliana Teixeira, et al.. Report on identification of keystone species and processes across regional seas. 2014, pp.1-103. ⟨10.131140/2.1.2093.3929⟩. ⟨hal-01790558⟩

Preprints, Working Papers, ...2 documents

  • Laure Thierry de Ville d'Avray, Dominique Ami, Anne Chenuil, Romain David, Jean-Pierre Feral. Application of the Ecosystem Service Concept to a Local-Scale: The Cases of Coralligenous Habitats in the North-Western Mediterranean Sea. 2017. ⟨halshs-01624589⟩
  • Romain David, Jean-Pierre Feral, Cyrille Blanpain. Ecological Data Preservation in the context of IndexMed -PREDON 2015. 2015. ⟨hal-01620554⟩

Reports2 documents

  • Jean-Pierre Feral, Christos Arvanitidis, Anne Chenuil, Melih Ertan Çinar, Romain David, et al.. CIGESMED : Coralligenous based Indicators to evaluate and monitor the "Good Environmental Status" of the Mediterranean coastal waters. [Research Report] ANR. 2016, 107 pp. ⟨hal-01448881⟩
  • Giulia Gatti, Laure Thierry de Ville d'Avray, Romain David, Dimitriadis Charampalos, Vasilis Gerovasileiou, et al.. CIGESMED for divers - Citizen Science for CIGESMED. [Technical Report] IMBE Institut Méditerranéen de Biodiversité et d'Ecologie marine et continentale. 2016. ⟨hal-02156469⟩