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Michael Alaux

Research engineer at INRAE
73
Documents
Identifiants chercheurs
  • IdHAL michael-alaux
  • ORCID 0000-0001-9356-4072
  • Google Scholar : https://scholar.google.fr/citations?user=HWFnYV8AAAAJ
Site web
  • https://eng-urgi.versailles-grignon.hub.inrae.fr/about-us/team/michael-alaux

Publications

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SyntenyViewer: a comparative genomics-driven translational research tool

Raphael Flores , Cécile Huneau , Laura Burlot , Mathilde Lainé , Erik Kimmel
Database - The journal of Biological Databases and Curation, 2023, 2023, ⟨10.1093/database/baad027⟩
Article dans une revue hal-04099923v1
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Capturing Wheat Phenotypes at the Genome Level

Babar Hussain , Bala A Akpınar , Michael Alaux , Ahmed M Algharib , Deepmala Sehgal
Frontiers in Plant Science, 2022, 13, ⟨10.3389/fpls.2022.851079⟩
Article dans une revue hal-03740520v1
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Meeting the Challenges Facing Wheat Production: The Strategic Research Agenda of the Global Wheat Initiative

Peter Langridge , Michael Alaux , Nuno Felipe Almeida , Karim Ammar , Michael Baum
Agronomy, 2022, 12 (11), pp.2767. ⟨10.3390/agronomy12112767⟩
Article dans une revue hal-03942478v1
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Breeding for Economically and Environmentally Sustainable Wheat Varieties: An Integrated Approach from Genomics to Selection

Etienne Paux , Stéphane Lafarge , François Balfourier , Jérémy Derory , Gilles Charmet
Biology, 2022, 11 (1), pp.1-28. ⟨10.3390/biology11010149⟩
Article dans une revue hal-03529813v1
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RepetDB: a unified resource for transposable element references

Joëlle Amselem , Guillaume Cornut , Nathalie Choisne , Michael Alaux , Françoise Alfama Depauw
Mobile DNA, 2019, 10, pp.1-8. ⟨10.1186/s13100-019-0150-y⟩
Article dans une revue hal-02625212v1
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Applying FAIR principles to plant phenotypic data management in GnpIS

Cyril Pommier , Célia Michotey , Guillaume Cornut , Pierre Roumet , Eric Duchêne
Plant Phenomics, 2019, 2019, pp.1-15. ⟨10.34133/2019/1671403⟩
Article dans une revue hal-02624031v1
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Tracing the ancestry of modern bread wheats

Caroline Pont , Thibault Leroy , Michael Seidel , Alessandro Tondelli , Wandrille Duchemin
Nature Genetics, 2019, 51 (5), pp.905-911. ⟨10.1038/s41588-019-0393-z⟩
Article dans une revue hal-02154676v1
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Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data

Michael Alaux , Jane Rogers , Thomas Letellier , Raphaël Flores , Françoise Alfama
Genome Biology, 2018, 19 (1), pp.905-911. ⟨10.1186/s13059-018-1491-4⟩
Article dans une revue hal-02278879v1

Shifting the limits in wheat research and breeding using a fully annotated reference genome

. International Wheat Genome Sequencing Consortium (iwgsc) , Arnaud Bellec , Helene Berges , Sonia Vautrin , Michael Alaux
Science, 2018, 361 (6403), pp.7191. ⟨10.1126/science.aar7191⟩
Article dans une revue hal-01885399v1

Physical Map of the Short Arm of Bread Wheat Chromosome 3D

Kateřina Holušová , Jan Vrána , Barbora Balcárková , Zeev Frenkel , Benoît Darrier
PLANT GENOME, 2017, 10 (2), ⟨10.3835/plantgenome2017.03.0021⟩
Article dans une revue hal-01717923v1
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Combined Genomic and Genetic Data Integration of Major Agronomical Traits in Bread Wheat (Triticum aestivum L.)

Umar Quraishi , Caroline Pont , Qurat-Ul Ain , Raphaël Flores , Laura Burlot
Frontiers in Plant Science, 2017, 8, pp.1-12. ⟨10.3389/fpls.2017.01843⟩
Article dans une revue hal-02285542v1
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Developing data interoperability using standards: A wheat community use case

Esther Dzale Yeumo , Michaël Alaux , Elizabeth Arnaud , Sophie Aubin , Ute Baumann
F1000Research, 2017, 6 (1843), pp.1843. ⟨10.12688/f1000research.12234.1⟩
Article dans une revue lirmm-01652022v2

Reconciling the evolutionary origin of bread wheat (Triticum aestivum)

Moaine El Baidouri , Florent Murat , Maeva Veyssière , Mélanie Molinier , Raphaël-Gauthier Flores
New Phytologist, 2016, 213 (3), ⟨10.1111/nph.14113⟩
Article dans une revue hal-01361976v1
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Towards an open grapevine information system

Anne-Françoise Adam-Blondon , Michael Alaux , Cyril Pommier , D Cantu , Z-M Cheng
Horticulture research, 2016, 3, pp.16056. ⟨10.1038/hortres.2016.56⟩
Article dans une revue hal-01404714v1
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TransPLANT resources for triticeae genomic data

Manuel Spannagl , Michael M. Alaux , Matthias Lange , Dan M. Bolser , Kai Christian Bader
PLANT GENOME, 2016, 9 (1), 13 p. ⟨10.3835/plantgenome2015.06.0038⟩
Article dans une revue hal-02635899v1
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High-throughput physical map anchoring via BAC-pool sequencing

Katerina Cvikova , Federica Cattonaro , Michael M. Alaux , Nils Stein , Klaus F. X. Mayer
BMC Plant Biology, 2015, 15, ⟨10.1186/s12870-015-0429-1⟩
Article dans une revue hal-02630859v1
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Structural and Functional Partitioning of Bread Wheat Chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe
Science, 2014, 345 (6194), ⟨10.1126/science.1249721⟩
Article dans une revue hal-02638189v1

Genome interplay in the grain transcriptome of hexaploid bread wheat

Matthias Pfeifer , Karl G. Kugler , Simen R. Sandve , Bujie Zhan , Heidi Rudi
Science, 2014, 345 (6194), pp.287-287. ⟨10.1126/science.1250091⟩
Article dans une revue hal-02889033v1

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome

. International Wheat Genome Sequencing Consortium (iwgsc) , Michael M. Alaux , Françoise F. Alfama-Depauw , Frédéric Choulet , Loïc Couderc
Science, 2014, 345 (6194), pp.1251788. ⟨10.1126/science.1251788⟩
Article dans une revue hal-02640843v1
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GnpIS: an information system to integrate genetic and genomic data from plants and fungi

Delphine D. Steinbach , Michael M. Alaux , Joelle J. Amselem , Nathalie Choisne , Sophie S. Durand
Database - 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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Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes

Caroline C. Pont , Florent Murat , Sébastien S. Guizard , Raphaël-Gauthier R.-G. Flores , Séverine S. Foucrier
Plant Journal, 2013, pp.1-29. ⟨10.1111/tpj.12366⟩
Article dans une revue hal-00964421v1
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Chado controller: advanced annotation management with a community annotation system

Valention Guignon , Gaëtan Droc , Michael M. Alaux , Franc-Christophe Baurens , Olivier Garsmeur
Bioinformatics, 2012, 28 (7), pp.1054-1056. ⟨10.1093/bioinformatics/bts046⟩
Article dans une revue hal-02651830v1
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TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.

Philippe Leroy , Nicolas Guilhot , Hiroaki Sakai , Aurélien Bernard , Frédéric Choulet
Frontiers in Plant Science, 2012, 3, pp.5. ⟨10.3389/fpls.2012.00005⟩
Article dans une revue hal-00753407v1
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Cabomba as a model for studies of early angiosperm evolution.

Aurelie C M Vialette-Guiraud , Michael Alaux , Fabrice Legeai , Cedric Finet , Pierre Chambrier
Annals of Botany, 2011, 108 (4), pp.589-98. ⟨10.1093/aob/mcr088⟩
Article dans une revue hal-00855948v1

Physical mapping in large genomes: accelerating anchoring of BAC contigs to genetic maps through in silico analysis

Etienne Paux , Fabrice F. Legeai , Nicolas N. Guilhot , Anne-Francoise A.F. Adam-Blondon , Michael M. Alaux
Functional and Integrative Genomics, 2008, 8 (1), pp.29-32. ⟨10.1007/s10142-007-0068-1⟩
Article dans une revue hal-00964137v1

A Physical Map of the 1-Gigabase Bread Wheat Chromosome 3B

Etienne Paux , Pierre Sourdille , Jerome J. Salse , Cyrille C. Saintenac , Frédéric Choulet
Science, 2008, 322 (5898), pp.101-104. ⟨10.1126/science.1161847⟩
Article dans une revue hal-00964135v1
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The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.

Olivier Jaillon , Jean-Marc Aury , Benjamin Noel , Alberto Policriti , Christian Clepet
Nature, 2007, 449 (7161), pp.463-7. ⟨10.1038/nature06148⟩
Article dans une revue inria-00180136v1
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WheatIS EWG annual meeting 2023

Michael Alaux
PAG XXX - Plant and Animal Genome Conference, Jan 2023, San Diego, United States
Communication dans un congrès hal-04536690v1
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IWGSC data repository news and overview of the plans for the WheatIS

Michael Alaux
PAG XXX - Plant and Animal Genome Conference, Jan 2023, San Diego, United States
Communication dans un congrès hal-04537219v1
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WheatIS EWG updates

Michael Alaux
Wheat Initiative Jamboree, Oct 2022, Carlow, Ireland
Communication dans un congrès hal-04536643v1
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Feedback from the wheat community: the case of the WheatIS

Michael Alaux
Grapedia kickoff meeting, Nov 2022, Online, Spain
Communication dans un congrès hal-04536615v1
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Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data

Michael Alaux
PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States
Communication dans un congrès hal-04536576v1
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WheatIS data discovery

Michael Alaux
PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States
Communication dans un congrès hal-04536596v1
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Developing infrastructures for FAIR data in plant biology

Cyril Pommier , Guillaume Cornut , Michael Alaux , Windpouire Esther Dzale Yeumo , Raphaël Flores
Gatersleben Research Conference - Applied Bioinformatics for crops (GRC2019), IPK, Mar 2019, Gatersleben, Germany
Communication dans un congrès hal-03316569v1
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Updates on the WheatIS tools

Michael Alaux
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States
Communication dans un congrès hal-04536526v1
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The IWGSC Data repository and wheat data resources hosted at URGI: Overview and perspectives

Michael Alaux , Jane Rogers , Thomas Letellier , Raphaël Flores , Cyril Pommier
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.32 slides
Communication dans un congrès hal-02788401v1

BreedWheat GWAS data in GnpIS information system

Mathilde Lainé , Thomas Letellier , Raphaël Flores , Nacer Mohellibi , Cyril Pommier
Eucarpia Cereal Section - Breeding cereals for sustainable agriculture, Mar 2018, Clermont-Ferrand, France
Communication dans un congrès hal-02340450v1
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Improving the « FAIRness » of Inra’s data for plant biology and breeding

Michael Alaux , Cyril Pommier , Esther Dzale Yeumo , Sophie Durand , Raphaël Flores
PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States. pp.14 slides
Communication dans un congrès hal-02790227v1

Developing grapevine FAIR Data

Cyril Pommier , Eric Duchêne , Thierry Lacombe , Timothée Flutre , Michael Alaux
PAG Conference 2018, Jan 2018, San Diego, United States
Communication dans un congrès hal-02738117v1

Making wheat data FAIR

Anne-Francoise Adam-Blondon , Michael Alaux
e-ROSA Workshop, Wageningen University and Research Centre (WUR). NLD., Jul 2017, Montpellier, France
Communication dans un congrès hal-02787766v1

The IWGSC Reference genome browser, data mining and beyond

Michael Alaux , Thomas Letellier , Françoise Alfama Depauw , Jane Rogers , Frédéric Choulet
PAG XXV - Plant and Animal Genome Conference, Jan 2017, San Diego, United States
Communication dans un congrès hal-02788141v1
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Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRA

Sophie Durand , Windpouire Esther Dzale Yeumo , Cyril Pommier , Michael Alaux , Guillaume Cornut
4. International Symposium on Genomics of Plant Genetic Resources, Sep 2017, Giessen, Germany. pp.17 slides
Communication dans un congrès hal-02791168v1

IWGSC Sequence Repository: Moving towards tools to facilitate data integration for the reference sequence of wheat

Michael Alaux , Thomas Letellier , Françoise Alfama-Depauw , Véronique Jamilloux , Jane Rogers
PAG XXIV - Plant and Animal Genome Conference, Jan 2016, San Diego, United States
Communication dans un congrès hal-01266518v1

Sequencing and Analysis of Wheat Chromosome 1B

Frédéric Choulet , Hélène Rimbert , Ambre-Aurore Josselin , Benoît Darrier , Pierre Sourdille
Plant and Animal Genome XXIV Conference; IWGSC Standards and Protocoles Workshop, Jan 2016, San Diego, CA, United States
Communication dans un congrès hal-02306172v1
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Contribution to a European roadmap for data standardisation in Plant Science at URGI-INRA

Cyril Pommier , Michael M. Alaux , Windpouire Esther Dzale Yeumo , Guillaume Cornut , Sophie S. Durand
Plant Biology Europe EPSO / FESBP 2016 Congress, Jun 2016, Prague, Czech Republic
Communication dans un congrès hal-02794139v1

A reference sequence of wheat chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe
3. Plant Genomics Congress, May 2015, London, United Kingdom
Communication dans un congrès hal-02740971v1
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IWGSC sequence repository : how to facilitate pseudomolecule assembly?

Michael M. Alaux , Frédéric Choulet , Loïc Couderc , Françoise F. Alfama-Depauw , Véronique Jamilloux
PAG XXIII - Plant and Animal Genome Conference, Jan 2015, San Diego, United States
Communication dans un congrès hal-02741662v1
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Phenotypic Data Exchange and Processing Using ISA-Tab Standard: transPLANT Project Use Case with GnpIS.Ephesis and Bii

Cyril Pommier , Pawel Krajewski , Thomas Letellier , Hanna Cwiek , Célia Michotey
23. 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 resource

Nacer Mohellibi , Nathalie Choisne , Aminah A. Keliet , Daphné Verdelet , Françoise Alfama
23. Plant and Animal Genome (PAG XXIII), Jan 2015, San Diego, Californie, United States. pp.24 slides
Communication dans un congrès hal-02741780v1

IWGSC Sequence repository at URGI: New features and blast tool

Michael Alaux , Françoise Alfama Depauw , Loïc Couderc , Véronique Jamilloux , Claire Guerche
PAG XXII - Plant and Animal Genome, Jan 2014, San Diego, United States
Communication dans un congrès hal-02801480v1
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A reference sequence of wheat chromosome 3B

Frédéric Choulet , Adriana A. Alberti , Sébastien Theil , Natasha Marie Glover , Valérie Barbe
22. Conference on Plant and Animal Genome, Jan 2014, San Diego, United States
Communication dans un congrès hal-02742303v1

Information system for phenotype data: trait, trials and genotypes identification and integration

Cyril Pommier , Michael M. Alaux , Sophie S. Durand , Raphaël-Gauthier R.-G. Flores , Aminah A. Keliet
22. 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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Plant biology open data interoperability in the big data era

Anne-Francoise Adam-Blondon , Sophie S. Durand , Erik Kimmel , Raphaël-Gauthier R.-G. Flores , Cyril Pommier
Plant Biology Europe EPSO/FEPBS 2014, Jun 2014, Dublin, Germany
Communication dans un congrès hal-02801067v1
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URGI plant and fungi platform: distributed resources through GMOD tools

Joelle J. Amselem , Michael M. Alaux , Nathalie Choisne , Olivier Inizan , Nicolas Lapalu
Plant and Animal Genome conference XXII, GMOD session, Jan 2014, San Diego (CA), United States
Communication dans un congrès hal-02796293v1

IWGSC Sequence repository : new data and browsers

Michael Alaux , Loïc Couderc , Françoise Alfama Depauw , Véronique Jamilloux , Claire Guerche
12. IWGS (International Wheat Genetics Symposium), Kyoto University [Kyoto] (KU). JPN., Sep 2013, Yokohama, Japan
Communication dans un congrès hal-02806070v1
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Sequencing and Assembling a Reference Sequence of the 1 Gb Wheat Chromosome 3B

Frédéric Choulet , Sébastien Theil , Josquin Daron , Natasha Marie Glover , Nicolas N. Guilhot
IWGSC Wheat Genome Sequencing Strategy and Funding Workshop, International Wheat Genome Sequencing Consortium (IWGSC). USA., Apr 2013, Evry, France
Communication dans un congrès hal-02747374v1

IWGSC Sequence repository : Blast your favorite gene against the wheat survey sequence

Michael Alaux , Françoise Alfama-Depauw , Véronique Jamilloux , Raphaël Flores , Daphné Verdelet
PAG XXI - Plant and Animal Genome, Jan 2013, San Diego, United States
Communication dans un congrès hal-02804578v1
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Towards a reference sequence of the 1 Gb wheat chromosome 3B

Frédéric Choulet , Sébastien Theil , Adriana A. Alberti , Valérie Barbe , Sophie Mangenot
16. Annual Advances in Genome Biology and Technology (AGBT), Feb 2012, Marco Island, Floride, United States
Communication dans un congrès hal-02807639v1
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A strategy to assemble a reference sequence of the 1 Gb wheat chromosome 3B

Frédéric Choulet , Sébastien Theil , Josquin Daron , Natasha Marie Glover , Nicolas N. Guilhot
TGAC/ESF-LESC workshop, Strategies for de novo assemblies of complex crop genomes, Genome Analysis Centre (TGAC). Norwich, GBR., Oct 2012, Norwich, United Kingdom
Communication dans un congrès hal-02809032v1
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URGI genome annotation system:an integrated system for structural and functional genome annotation

Joelle J. Amselem , Michael Alaux , Nathalie Choisne , Nicolas Lapalu , Baptiste Brault
12. Edition du colloque JOBIM : Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2011, Paris, France. 2 p
Communication dans un congrès hal-01019754v1
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Sequencing and analyses of the hexaploid wheat chromosome 3B

Frédéric Choulet , Etienne Paux , Philippe Leroy , Arnaud Couloux , Michaël Alaux
10. conference on Genome Informatics, Sep 2010, Hinxton, United Kingdom
Communication dans un congrès hal-02753841v1

GnpAnnot community annotation system: features, qualifiers, values

Stéphanie Sidibe-Bocs , Fabrice Legeai , Gaëtan Droc , Mathieu Rouard , Michael M. Alaux
3. International Biocuration Conference, Apr 2009, Berlin, Germany
Communication dans un congrès hal-02758372v1
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Data FAIRification in a cross-institutional governance framework : recommendations from the ANR-BRIDGE project

Pascal Aventurier , Michael Alaux , Céline Barthélémy , Pascal Bonnet , Hugo Catherine
RDA 19th Plenary meeting, part of International Data Week, Jun 2022, Seoul, South Korea. , 2022, ⟨10.5281/zenodo.6652404⟩
Poster de conférence hal-03758083v1
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D2KAB project taking off: Data to Knowledge in Agronomy and Biodiversity

Sophie Aubin , Anne-Francoise Adam-Blondon , Michael Alaux , Mouhamadou Ba , Stéphan Bernard
14th Research Data Alliance Plenary Conference (RDA P14), Best poster award, Oct 2019, Helsinki, Finland. , 2019, ⟨10.5281/zenodo.3520300⟩
Poster de conférence lirmm-02351000v1
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Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRA

Sophie Durand , Esther Dzale Yeumo , Cyril Pommier , Michaël Alaux , Guillaume Cornut
Crop 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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BreedWheat genotyping and phenotyping data in GnpIS information system

Marie Laine , Thomas Letellier , Raphaël-Gauthier R.-G. Flores , Loïc Couderc , Nacer Mohellibi
JOBIM 2015 - Journées Ouvertes Biologie Informatique Mathématiques, Jul 2015, Clermont-Ferrand, France. 2015
Poster de conférence hal-02801654v1

Wheat Crop Ontology: A Species Specific Trait Ontology. Use Case: The URGI Information System

Cyril Pommier , Michael M. Alaux , Erik Kimmel , Delphine Steinbach , Elizabeth Arnaud
Plant and Animal Genome, Jan 2013, San Diego, United States. 2013
Poster de conférence hal-02810186v1

Ontology mapping for wheat trait information management

Claire Nédellec , Sophie Aubin , Clara Sauvion , Sonia Bravo , Jacques Le Gouis
Séminaire résidentiel INRAE Semantic Linked Data, 2023
Autre publication scientifique hal-04420465v1
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RDF Query interface from BrAPI web service source

Cyril Pommier , Windpouire Esther Dzale Yeumo , Michael Alaux
INRAE. 2017, https://rd-alliance.org/sites/default/files/attachment/Creation%20of%20a%20Query%20interface%20for%20phenotyping%20data%20Final%20Report.pdf
Rapport hal-04505409v1
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Rapport de synthèse du chantier DOI

Windpouire Esther Dzale Yeumo , Lydie Soler , Michael M. Alaux , Robert R. Bossy , Sebastien Carrere
[0] 2014, 47 p
Rapport hal-02801364v1