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Cyril Pommier
Plant research data engineer.
25
Documents
Identifiants chercheurs
- cyril-pommier
- 0000-0002-9040-8733
Présentation
Cyril Pommier is a bio-informatician with a multidisciplinary background in molecular biology and computer science. He worked four years on genomic databases and has been working since 2007 on plant data management in global data federations with a focus on crops phenomic. He builds bridges between plant experimentation in the field, molecular biology and computer science from information system development to data management frameworks. He is now in charge of data and federation in the URGI PlantBioinfoPF, an INRAE bioinformatic platform part of ELIXIR-fr. Cyril Pommier is also co leader of the Plant community of ELIXIR (https://elixir-europe.org/communities/plant-sciences), the European Infrastructure for life science and co leader the Information System of Phenom-EMPHASIS, the national infrastructure for plant phenotyping. He is leading the building of data repositories (https://doi.org/10.34133/2019/1671403), data portals (https://urgi.versailles.inrae.fr/faidare/) and co leads international plant data standards (MIAPPE https://www.miappe.org , BrAPI https://www.brapi.org).
Cyril Pommier is a bio-informatician with a multidisciplinary background in molecular biology and computer science. He worked four years on genomic databases and has been working since 2007 on plant data management in global data federations with a focus on crops phenomic. He builds bridges between plant experimentation in the field, molecular biology and computer science from information system development to data management frameworks. He is now in charge of data and federation in the URGI PlantBioinfoPF, an INRAE bioinformatic platform part of ELIXIR-fr. Cyril Pommier is also co leader of the Plant community of ELIXIR (https://elixir-europe.org/communities/plant-sciences), the European Infrastructure for life science and co leader the Information System of Phenom-EMPHASIS, the national infrastructure for plant phenotyping. He is leading the building of data repositories (https://doi.org/10.34133/2019/1671403), data portals (https://urgi.versailles.inrae.fr/faidare/) and co leads international plant data standards (MIAPPE https://www.miappe.org , BrAPI https://www.brapi.org).
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Enabling reusability of plant phenomic datasets with MIAPPE 1.1New Phytologist, 2020, 227 (1), pp.260-273. ⟨10.1111/nph.16544⟩
Article dans une revue
hal-02949641v1
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Applying FAIR principles to plant phenotypic data management in GnpISPlant Phenomics, 2019, 2019, pp.1-15. ⟨10.34133/2019/1671403⟩
Article dans une revue
hal-02624031v1
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Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic dataGenome Biology, 2018, 19 (1), pp.905-911. ⟨10.1186/s13059-018-1491-4⟩
Article dans une revue
hal-02278879v1
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GnpIS: an information system to integrate genetic and genomic data from plants and fungiDatabase - The journal of Biological Databases and Curation, 2013, 2013, pp.1-9. ⟨10.1093/database/bat058⟩
Article dans une revue
hal-02648084v1
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Plant Science Data Integration, from Building Community Standards to Defining a Consistent Data LifecycleTowards Responsible Plant Data Linkage: Data Challenges for Agricultural Research and Development, Springer International Publishing, pp.149-160, 2023, ⟨10.1007/978-3-031-13276-6_8⟩
Chapitre d'ouvrage
hal-03896793v1
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Mining plant genomic and genetic data using the GnpIS information systemAalt D.J van Dijk. Plant Genomics Databases. Methods and Protocols, 1533, Springer, 2017, Methods in Molecular Biology, 978-1-4939-6658-5. ⟨10.1007/978-1-4939-6658-5_5⟩
Chapitre d'ouvrage
hal-03206731v1
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Developing infrastructures for FAIR data in plant biologyGatersleben Research Conference - Applied Bioinformatics for crops (GRC2019), IPK, Mar 2019, Gatersleben, Germany
Communication dans un congrès
hal-03316569v1
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Data standards for plant phenotyping: MIAPPE and its implementations26. Plant and Animal Genome Conference (PAG XXVI), Jan 2018, San Diego, Californie, United States. pp.24 slides
Communication dans un congrès
hal-02789754v1
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Improving the « FAIRness » of Inra’s data for plant biology and breedingPAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.14 slides
Communication dans un congrès
hal-02790227v1
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The IWGSC Data repository and wheat data resources hosted at URGI: Overview and perspectivesPAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.32 slides
Communication dans un congrès
hal-02788401v1
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Developing grapevine FAIR DataPAG Conference 2018, Jan 2018, San Diego, United States
Communication dans un congrès
hal-02738117v1
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Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRA4. International Symposium on Genomics of Plant Genetic Resources, Sep 2017, Giessen, Germany. pp.17 slides
Communication dans un congrès
hal-02791168v1
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Contribution to a European roadmap for data standardisation in Plant Science at URGI-INRAPlant Biology Europe EPSO / FESBP 2016 Congress, Jun 2016, Prague, Czech Republic
Communication dans un congrès
hal-02794139v1
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GnpIS-Asso : A Generic Database for Managing and Exploiting Plant Genetic Association Studies Results Using High Throughput Genotyping and Phenotyping Data23. Plant and Animal Genome, Jan 2015, San Diego, United States
Communication dans un congrès
hal-01174322v1
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Phenotypic Data Exchange and Processing Using ISA-Tab Standard: transPLANT Project Use Case with GnpIS.Ephesis and Bii23. Plant and Animal Genome (PAG), Jan 2015, San Diego, United States
Communication dans un congrès
hal-02739236v1
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Grape@GnpIS: Overview of the GnpIS grape genomics and genetics integrative resource23. Plant and Animal Genome (PAG XXIII), Jan 2015, San Diego, Californie, United States. pp.24 slides
Communication dans un congrès
hal-02741780v1
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Information system for phenotype data: trait, trials and genotypes identification and integration22. Conference Plant and Animal Genome, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI). GBR., Jan 2014, San Diego, United States
Communication dans un congrès
hal-02795958v1
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A generic tool for managing and exploiting genetic association studies results using high throughput genotyping and phenotypingPlant Genomics Seminar 2012, Apr 2012, Pont-Royal en Provence, France
Communication dans un congrès
hal-01268379v1
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Learning path development for plant data managementELIXIR All Hands 2023, Jun 2023, Dublin, Ireland. f1000research.com, https://doi.org/10.7490/f1000research.1119444.1, 2023, ⟨10.7490/f1000research.1119444.1⟩
Poster de conférence
hal-04428391v1
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Research Data Management Toolkit (RDMkit): guidelines for plant phenotyping data management and sharing7th International Plant Phenotyping Symposium, Sep 2022, Wageningen, Netherlands. , 2022, ⟨10.5281/zenodo.7148792⟩
Poster de conférence
hal-03800325v1
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Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRACrop diversification in a changing world : Mobilizing the green gold of plant genetic resources, May 2017, Montpellier, France. , 2017, EUCARPIA Genetic Resources 2017
Poster de conférence
hal-01606277v1
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Forest tree GnpIS: an information system dedicated to forest tree genetics, genomics and phenomics35. New Phytologist Symposium, Jun 2015, Boston, United States. 2015
Poster de conférence
hal-02795537v1
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Rapport de synthèse du chantier DOI[0] 2014, 47 p
Rapport
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FAIR data PLANT PHENO 2023École thématique. FAIR data PLANT PHENO 2023, Paris, France. 2023
Cours
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Plant Data Managment for Phenotyping ExperimentsÉcole thématique. France. 2020
Cours
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