PHENOMIN, as a large scale national infrastructure for Biotechnology and Health, provides services for all French laboratories and is also a major player in the international strategic phenogenomics effort. It aims at:
CELPHEDIA aims to develop innovative, standardized and massively parallel technological approaches, in order to accelerate the understanding of the genome and the generation of human or animal disease models and to guarantee efficiency and reliability, thus facilitating national or international access to the models of interest. CELPHEDIA is composed of 15 centers, covering different animal models: rodents, non mammalians and non-human primates.
CELPHEDIA has several scientific objectives:
PHENOMIN teams are leading several CELPHEDIA working groups, thus disseminating their knowledge and expertise over the French territory and for the benefit of different animal models.
PHENOMIN is contributing to INFRAFRONTIER and to the ESFRI-identified pan-European Infrastructure for functional genomics.
INFRAFRONTIER is the European Reasearch Infrastructure for phenotyping and archiving of model mammalian genomes. It provides access to first-class tools and data for biomedial research, and thereby contributes to improving the understanding of gene function in human health and disease using the mouse model.
INFRAFRONTIER aims at
The INFRAFRONTIER project has been identified as one of the six reasearch Infrastructure projects for biomedical research that was included in the first ESFRI Roadmap in 2006, which lists pan-European initiatives recommended for implemtation. To prepare the implementation phase and to coordinate the transnational activities of the national partners, the INFRAFRONTIER GmbH was established in Germany in 2013.
Raess, Michael, Ana Ambrosio de Castro, Valérie Gailus-Durner, Sabine Fessele, Martin Hrabě de Angelis, and the INFRAFRONTIER Consortium. 2016. INFRAFRONTIER: A European Resource for Studying the Functional Basis of Human Disease. Mammalian Genome 27 (7): 445–50. doi:10.1007/s00335-016-9642-y.
INFRAFRONTIER Consortium. 2015. INFRAFRONTIER–Providing Mutant Mouse Resources as Research Tools for the International Scientific Community. Nucleic Acids Research 43: D1171–D1175. doi:10.1093/nar/gku1193.INFRAFRONTIER _FactSheet2017 (1.8 MB)
PHENOMIN also participates in the International Mouse Phenotyping Consortium (IMPC) to build the first truly comprehensive, functional catalogue of a mammalian genome. This should fulfill a key item in the National Alliance for life sciences and health (AVIESAN) strategic plan that consists in applying mouse genetics to analyze disease mechanisms and using this knowledge for advanced fundamental research and human health.
The IMPC aims to harness the strength of mouse research programs and infrastructures of 18 mouse clinics worldwide in a strategic and coordinated effort to systematically phenotype knockout mice (20,000 genes). We undertake a broad-based, genome-wide study in order to provide the wider research community with a long-lasting resource of annotated mammalian gene function. Resulting high-throughput phenotyping data, as well as created mouse models, are freely available to the international scientific community through a Data Coordination Center.
As a key player in a strategic effort in IMPC consortium, PHENOMIN is committed to produce and phenotype 236 mutant lines by 2018. PHENOMIN is a leading member of IMPC through the coordination of the phenotyping group, which evaluates and implements the phenotyping pipeline with new tests. Furthermore, owing to its unique expertise in mouse immunology, PHENOMIN-CIPHE enables PHENOMIN to perform immunophenotyping of the hundreds of mouse mutants that are in the process of being generated.
Rozman J, Rathkolb B, Oestereicher MA, Schütt C, Ravindranath AC, Leuchtenberger S, Sharma S, Kistler M, Willershäuser M, Brommage R, Meehan TF, Mason J, Haselimashhadi H; IMPC Consortium, Hough T, Mallon AM, Wells S, Santos L, Lelliott CJ, White JK, Sorg T, Champy MF, Bower LR, Reynolds CL, Flenniken AM, Murray SA, Nutter LMJ, Svenson KL, West D, Tocchini-Valentini GP, Beaudet AL, Bosch F, Braun RB, Dobbie MS, Gao X, Herault Y, Moshiri A, Moore BA, Kent Lloyd KC, McKerlie C, Masuya H, Tanaka N, Flicek P, Parkinson HE, Sedlacek R, Seong JK, Wang CL, Moore M, Brown SD, Tschöp MH, Wurst W, Klingenspor M, Wolf E, Beckers J, Machicao F, Peter A, Staiger H, Häring HU, Grallert H, Campillos M, Maier H, Fuchs H, Gailus-Durner V, Werner T, Hrabe de Angelis M.
Nat Commun. 2018 Jan 18;9(1):288. doi: 10.1038/s41467-017-01995-2.
Meehan TF, Conte N, West DB, Jacobsen JO, Mason J, Warren J, Chen CK, Tudose I, Relac M, Matthews P, Karp N, Santos L, Fiegel T, Ring N, Westerberg H, Greenaway S, Sneddon D, Morgan H, Codner GF, Stewart ME, Brown J, Horner N; International Mouse Phenotyping Consortium, Haendel M, Washington N, Mungall CJ, Reynolds CL, Gallegos J, Gailus-Durner V, Sorg T, Pavlovic G, Bower LR, Moore M, Morse I, Gao X, Tocchini-Valentini GP, Obata Y, Cho SY, Seong JK, Seavitt J, Beaudet AL, Dickinson ME, Herault Y, Wurst W, de Angelis MH, Lloyd KCK, Flenniken AM, Nutter LMJ, Newbigging S, McKerlie C, Justice MJ, Murray SA, Svenson KL, Braun RE, White JK, Bradley A, Flicek P, Wells S, Skarnes WC, Adams DJ, Parkinson H, Mallon AM, Brown SD, Smedley D.
Nat Genet. 2017 Jun 26.
Karp NA, Mason J, Beaudet AL, Benjamini Y, Bower L, Braun RE, Brown SDM, Chesler EJ, Dickinson ME, Flenniken AM, Fuchs H, Angelis MH, Gao X, Guo S, Greenaway S, Heller R, Herault Y, Justice MJ, Kurbatova N, Lelliott CJ, Lloyd KCK, Mallon AM, Mank JE, Masuya H, McKerlie C, Meehan TF, Mott RF, Murray SA, Parkinson H, Ramirez-Solis R, Santos L, Seavitt JR, Smedley D, Sorg T, Speak AO, Steel KP, Svenson KL; International Mouse Phenotyping Consortium, Wakana S, West D, Wells S, Westerberg H, Yaacoby S, White JK.
Nat Commun. 2017 Jun 26;8:15475
Dickinson ME, Flenniken AM, Ji X, Teboul L, Wong MD, White JK, Meehan TF, Weninger WJ, Westerberg H, Adissu H, Baker CN, Bower L, Brown JM, Caddle LB, Chiani F, Clary D, Cleak J, Daly MJ, Denegre JM, Doe B, Dolan ME, Edie SM, et al.
Nature. 2016 Sep 14;537(7621):508-514
At the G7 Science meeting on 27 and 28 September 2017 in Turin, the ministers of higher education and research in these countries identified two projects, including the International Mouse Phenotyping Consortium (IMPC), as models of international scientific collaboration.
The group of senior officials (GSO) proactively works to identify opportunities for international collaboration among Research Infrastructures that are proposed by its members: it has identified five Case Studies in 2015 and has carried out an analysis on their potential as Research Infrastructures for global collaboration. A specific roadmap for implementation has been identified for two of the Case Studies, including the IMPC.
The updated GSO Framework contains a refined definition of global Excellence-driven Access to global research infrastructures that recognises scientific merit as the principal criterion of access. The GSO is also currently addressing the global Open Research Data issue including the key criteria for data management, data quality control and access to data, and sketching a preliminary set of potential guidelines for implementation by global research infrastructures that builds on the results and good practices of, among others, the Research Data Alliance.
Within the IPMC, which brings together 18 international laboratories, PHENOMIN takes part to a large-scale project: to address the challenge of developing an encyclopedia of mammalian gene function. The IMPC envisages a ten year programme to undertake a broad-based, systematic genome-wide phenotyping project of knockout mice generated from the embryonic stem cell mutant resources. It is the responsibility to PHENOMIN to generate 266 mouse lines, thanks to the technology such as CRISPR/Cas9 for instance, all to be characterized.
At the same time, PHENOMIN also pursues the objective of supporting researchers and identifying drug candidates thanks to the murine models of human pathologies.