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  • The Inria's Research Teams produce an annual Activity Report presenting their activities and their results of the year. These reports include the team members, the scientific program, the software developed by the team and the new results of the year. The report also describes the grants, contracts and the activities of dissemination and teaching. Finally, the report gives the list of publications of the year.

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Section: Dissemination

Promoting Scientific Activities

Scientific Events Organisation

General Chair, Scientific Chair
  • Workshop on Systems Biology Chile-France, Co-organization (A. Siegel) [More details]

Scientific Events Selection

Member of the Conference Program Committees
  • SWAT4HCLS (2018) Semantic Web and Tools for Health Care and Life Sciences (O. Dameron)

  • BBCC (2018): Bioinformatica e Biologia Computazionale in Campania (O. Dameron)

  • JFO (2018): Journées Francophones sur les Ontologies (O. Dameron)

  • Journée IA et santé, organized by AFIA and AIM (O. Dameron)

  • JOBIM (2018): French conference of Bioinformatics (A. Siegel)

  • ISCB (2018) International Conference on Systems Biology (A. Siegel)

  • WCB (2018) Workshop on Constraint-based methods in Bioinformatics (A. Siegel)

  • BIOINFORMATICS (2018) (A. Siegel)

  • ICGI 2016: The 13th International Conference on Grammatical Inference [F. Coste]

Journal

Member of the Editorial Boards
  • O. Dameron is an associate editor of the Journal of Biomedical Semantics

  • A. Siegel is an academic editor of Genes (MDPI)

Reviewer - Reviewing Activities
  • Artificial Intelligence in Medicine

  • Briefings in Bioinformatics

  • Journal of Biomedical Semantics

  • Journal on Data Semantics

  • Journal of Theoretical Biology

  • Natural Computing

  • PLOS One

Invited Talks

  • Meziane Aite. Workshop France-Chile on Systems Biology. Tools for metabolic network comparison at genome- scale: application on algaes, Valparaiso, Chile.

  • Maxime Folschette. 4th Annual Meeting of the Bioss Workgroup (Journées annuelles du GT Bioss). GULA: Semantics-Free Learning of a Biological Regulatory Networks from a Synchronous, Asynchronous or Generalized State Graph. Marseille.

  • Clémence Frioux. Invited speaker of weekly seminar: Bioinformatics group at Laboratoire de Recherche en Informatique (LRI). Investigating host-microbiota cooperation with gap-filling optimization problems. Orsay.

  • Clémence Frioux. Invited speaker at UMR NUtriomics, Institute of Cardiometabolism and Nutrition (ICAN). Scalable and exhaustive screening of metabolic functions in microbiotas. Paris.

  • Clémence Frioux. Seminar in the Ecology group led by Pr. Pablo Marquet Universida Catolica de Chile. Scalable and exhaustive screening of metabolic functions in microbiotas. Santiago, Chile.

  • Clémence Frioux. Workshop France-Chile on Systems Biology. Scalable and exhaustive screening of metabolic functions in microbiotas. Valparaiso, Chile.

  • Clémence Frioux. Journées Scientifiques de Nantes. Scalable and exhaustive screening of metabolic functions in carried out by microbial consortia. Nantes.

  • Marine Louarn. Workshop France-Chile on Systems Biology. Integration of omics data for the specification of regulation networks in health; identification of regulatory mechanisms. Valparaiso, Chile.

  • Anne Siegel. National meeting of the French Society of Microbiology. Several aspects of artificial intelligence : which perspectives for microbiology?. Paris.

  • Anne Siegel. Century Seminar. Reasoning over biological systems with large-scale and incomplete data. Marseille.

  • Anne Siegel. Journées annuelles du GT Bioss. Learning boolean rules for the regulatory control of metabolism : a case study. Marseille.

  • Anne Siegel. Séminaire INRA-CATI. Metabolic network reconstruction for non-model organisms. INRA.

  • Anne Siegel. ECCB worshop Logical modeling of cellular networks. Learning boolean rules for the regulatory control of metabolism : a case study. Athens, Greece.

  • Anne Siegel. Workshop France-Chile on Systems Biology. Integrating and querying data with AskOmics. Valparaiso, Chile.

  • Nathalie Théret. Causality analysis of TGF-β-dependent signaling pathways. Workshop "Computational System Biology for Cancer", Paris.

  • Nathalie Théret. Computational modeling to identify biomarkers and targets Workshop DHU2020, Nantes, France

Leadership within the Scientific Community

  • Member of the steering committee of the International Conference on Grammatical Inference [F. Coste]

  • The team was involved in the foundation of a national working group on the symbolic study of dynamical systems named bioss [web access]. The group gathers more than 170 scientists, from computer science to biology. Three meetings were organized this year (Rennes, Marseille, Paris). The group is supported by two French National Research Networks: bioinformatics (GDR BIM : bioinformatique moléculaire) and informatics-mathematics (GDR IM : Informatique Mathématique).

Scientific Expertise

International expertise
  • Luxembourg, FNR. Core program [A. Siegel]

  • Senegal, CEA-MITIC (Centre d'Excellence Africain en Mathématiques, Informatique et TIC [O. Dameron, reviewed 1 project]

National responsibilities
  • Scientific program committee National Research Agency, CES 45 [A. Siegel]

  • Institutional boards for the recruitment and evaluation of researchers.

    • National Council of Universities, section 65 [O. Dameron, nominated member].

  • Recruitment committees.

    • Inria Senior Researchers [national committee, A. Siegel]

    • Inria Junior Researchers [Saclay, A. Siegel]

    • Assistant Professor [Univ. Marseille, A. Siegel]

National scientific boards
  • Animation of the Systems Biology working group of national infrastructure GDR IM and GDR BIM (Bioss, details above) [A. Siegel].

  • Board of directors of the French Society for biology of the extracellular matrix [N. Théret].

Local responsibilities
  • Scientific Advisory Board of Biogenouest [N. Théret]

  • IRISA laboratory (computer science department of Univ. Rennes 1) council [A. Siegel]

  • Responsability of the IRISA laboratory "Health-biology" cross-cutting axis [O. Dameron] [More details]

  • Elected member of the social action services (ASUR) of Univ. Rennes 1 [C. Belleannée]

  • Scientific committee of Univ. Rennes 1 school of medicine [O. Dameron, A. Siegel].

Research Administration

Inria Instances
  • Inria National evaluation board [A. Siegel, nominated member].

  • Equality and diversity Committee, Inria - Responsible of the working group focusing on recruitment procedures [A. Siegel].

Prospective working groups
  • "Big & Open Data en recherche à l’horizon 2040" foresight working group of PROSPER network [F. Coste].

Inria local instances
  • Gender equality commission, IRISA & Inria Rennes [A. Siegel, coordinator]

  • Inria-Rennes Computer science infrastructure users commission - CUMI-R commission [F. Coste]

  • Inria Rennes PHD recruitment (CORDIs) [C. Belleannée]