Michael Alaux

Research engineer at INRAE

Documents

Researcher identifiers

michael-alaux
0000-0001-9356-4072
Google Scholar : https://scholar.google.fr/citations?user=HWFnYV8AAAAJ

Web site

https://eng-urgi.versailles-grignon.hub.inrae.fr/about-us/team/michael-alaux

Publications

	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⟩ Journal articles hal-04099923v1
	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⟩ Journal articles hal-03740520v1
	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⟩ Journal articles hal-03942478v1
	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⟩ Journal articles hal-03529813v1
	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⟩ Journal articles hal-02154676v1
	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⟩ Journal articles hal-02625212v1
	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⟩ Journal articles hal-02624031v1
	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⟩ Journal articles 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⟩ Journal articles 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⟩ Journal articles hal-01717923v1
	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⟩ Journal articles hal-02285542v1
	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⟩ Journal articles lirmm-01652022v2
	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⟩ Journal articles hal-02635899v1
	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⟩ Journal articles hal-01361976v1
	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⟩ Journal articles hal-01404714v1
	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⟩ Journal articles hal-02630859v1
	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⟩ Journal articles 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⟩ Journal articles hal-02640843v1
	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⟩ Journal articles hal-02638189v1
	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⟩ Journal articles hal-02648084v1
	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 The Plant Journal, 2013, pp.1-29. ⟨10.1111/tpj.12366⟩ Journal articles hal-00964421v1
	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⟩ Journal articles hal-00753407v1
	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⟩ Journal articles hal-02651830v1
	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⟩ Journal articles 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⟩ Journal articles 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⟩ Journal articles hal-00964135v1
	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⟩ Journal articles inria-00180136v1

	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 Conference papers hal-04537219v1
	WheatIS EWG annual meeting 2023 Michael Alaux PAG XXX - Plant and Animal Genome Conference, Jan 2023, San Diego, United States Conference papers hal-04536690v1
	WheatIS EWG updates Michael Alaux Wheat Initiative Jamboree, Oct 2022, Carlow, Ireland Conference papers hal-04536643v1
	Feedback from the wheat community: the case of the WheatIS Michael Alaux Grapedia kickoff meeting, Nov 2022, Online, Spain Conference papers hal-04536615v1
	WheatIS data discovery Michael Alaux PAG XXVII - Plant and Animal Genome Conference, Jan 2019, San Diego, United States Conference papers hal-04536596v1
	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 Conference papers hal-04536576v1
	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 Conference papers hal-03316569v1
	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 Conference papers hal-02340450v1
	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 Conference papers hal-02790227v1
	Updates on the WheatIS tools Michael Alaux PAG XXVI - Plant and Animal Genome Conference, Jan 2018, San Diego, United States Conference papers hal-04536526v1
	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 Conference papers hal-02788401v1
	Developing grapevine FAIR Data Cyril Pommier , Eric Duchêne , Thierry Lacombe , Timothée Flutre , Michael Alaux PAG Conference 2018, Jan 2018, San Diego, United States Conference papers hal-02738117v1
	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 Conference papers hal-02788141v1
	Making wheat data FAIR Anne-Francoise Adam-Blondon , Michael Alaux e-ROSA Workshop, Wageningen University and Research Centre (WUR). NLD., Jul 2017, Montpellier, France Conference papers hal-02787766v1
	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 Conference papers hal-02791168v1
	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 Conference papers hal-02306172v1
	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 Conference papers hal-01266518v1
	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 Conference papers 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 Conference papers hal-02740971v1
	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 Conference papers hal-02741662v1
	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 Conference papers hal-02739236v1
	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 Conference papers hal-02741780v1
	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 Conference papers hal-02742303v1
	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 Conference papers hal-02801480v1
	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 Conference papers hal-02795958v1
	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 Conference papers hal-02801067v1
	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 Conference papers hal-02796293v1
	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 Conference papers hal-02747374v1
	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 Conference papers hal-02806070v1
	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 Conference papers hal-02804578v1
	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 Conference papers hal-02807639v1
	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 Conference papers hal-02809032v1
	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 Conference papers hal-01019754v1
	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 Conference papers 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 Conference papers hal-02758372v1

	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⟩ Conference poster hal-03758083v1
	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⟩ Conference poster lirmm-02351000v1
	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 Conference poster hal-01606277v1
	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 Conference poster 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 Conference poster hal-02810186v1

	Wheat Data Integration and FAIRification: IWGSC, GrainGenes, Ensembl and Other Data Repositories Michael Alaux , Sarah Dyer , Taner Z Sen The Wheat Genome, Springer International Publishing, pp.13-25, inPress, Compendium of Plant Genomes, ⟨10.1007/978-3-031-38294-9_2⟩ Book sections hal-04316553v1
	Mining plant genomic and genetic data using the GnpIS information system Anne-Francoise Adam-Blondon , Michael Alaux , Sophie Durand , Thomas Letellier , Guillaume Merceron Aalt 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⟩ Book sections hal-03206731v1
	The Wheat Black Jack : advances towards sequencing the 21 chromosomes of the bread wheat genome Frédéric Choulet , Mario Caccamo , Jon Wright , Michael M. Alaux , Philippe Leroy Genomics of Plant Genetic Resources, Editions Springer, 704 p., 2014, 978-94-007-7571-8. ⟨10.1007/978-94-007-7572-5_17⟩ Book sections hal-02797297v1

	Ontology mapping for wheat trait information management Claire Nédellec , Sophie Aubin , Liliana Ibanescu , Clara Sauvion , Sonia Bravo Séminaire résidentiel INRAE Semantic Linked Data, 2023 Other publications hal-04420465v1

	Mapping bread wheat trait ontologies for semantic interoperability Claire Nédellec , Sophie Aubin , Clara Sauvion , Liliana Ibanescu , Sonia Bravo 2024 Preprints, Working Papers, ... hal-04717147v1
	AGENT Guidelines for dataflow Anne-Françoise Adam-Blondon , Michael Alaux , Matthijs Brouwer , Paul Kersey , Matthias Lange 2024 Preprints, Working Papers, ... hal-04822902v1

	URGI Plant Bioinformatics Facility (PlantBioinfoPF) data management plan Célia Michotey , Michael Alaux , Raphaël Flores , Anne-Françoise Adam-Blondon INRAE. 2024 Reports hal-04646807v1
	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 Reports hal-04505409v1
	Rapport de synthèse du chantier DOI Windpouire Esther Dzale Yeumo , Lydie Soler , Michael M. Alaux , Robert R. Bossy , Sebastien Carrere [0] 2014, 47 p Reports hal-02801364v1

	FAIDARE - FAIR Data-finder for Agronomic REsearch Cyril Pommier , Célia Michotey , Raphaël Flores , Michael Alaux , Guillaume Cornut 2018, ⟨swh:1:dir:23a1de0c4fc2ce7945d06be2edd0086e1f6b0ab8;origin=https://forgemia.inra.fr/urgi-is/data-discovery.git;visit=swh:1:snp:f2b8aaeb16cb22ac2eddbb669cd72ff956e33efd;anchor=swh:1:rev:ccc4e3ae99fb7f063e356919498e8732efc4bfd2⟩ Software hal-04638310v1

Michael Alaux

Publications

SyntenyViewer: a comparative genomics-driven translational research tool

Capturing Wheat Phenotypes at the Genome Level

Meeting the Challenges Facing Wheat Production: The Strategic Research Agenda of the Global Wheat Initiative

Breeding for Economically and Environmentally Sustainable Wheat Varieties: An Integrated Approach from Genomics to Selection

Tracing the ancestry of modern bread wheats

RepetDB: a unified resource for transposable element references

Applying FAIR principles to plant phenotypic data management in GnpIS

Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data

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

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

Combined Genomic and Genetic Data Integration of Major Agronomical Traits in Bread Wheat (Triticum aestivum L.)

Developing data interoperability using standards: A wheat community use case

TransPLANT resources for triticeae genomic data

Reconciling the evolutionary origin of bread wheat (Triticum aestivum)

Towards an open grapevine information system

High-throughput physical map anchoring via BAC-pool sequencing

Genome interplay in the grain transcriptome of hexaploid bread wheat

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

Structural and Functional Partitioning of Bread Wheat Chromosome 3B

GnpIS: an information system to integrate genetic and genomic data from plants and fungi

Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes

TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes.

Chado controller: advanced annotation management with a community annotation system

Cabomba as a model for studies of early angiosperm evolution.

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

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

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.

IWGSC data repository news and overview of the plans for the WheatIS

WheatIS EWG annual meeting 2023

WheatIS EWG updates

Feedback from the wheat community: the case of the WheatIS

WheatIS data discovery

Linking the International Wheat Genome Sequencing Consortium Bread Wheat Reference Genome Sequence to Wheat Genetic and Phenomic Data

Developing infrastructures for FAIR data in plant biology

BreedWheat GWAS data in GnpIS information system

Improving the « FAIRness » of Inra’s data for plant biology and breeding

Updates on the WheatIS tools

The IWGSC Data repository and wheat data resources hosted at URGI: Overview and perspectives

Developing grapevine FAIR Data

The IWGSC Reference genome browser, data mining and beyond

Making wheat data FAIR

Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRA

Sequencing and Analysis of Wheat Chromosome 1B

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

Contribution to a European roadmap for data standardisation in Plant Science at URGI-INRA

A reference sequence of wheat chromosome 3B

IWGSC sequence repository : how to facilitate pseudomolecule assembly?

Phenotypic Data Exchange and Processing Using ISA-Tab Standard: transPLANT Project Use Case with GnpIS.Ephesis and Bii

Grape@GnpIS: Overview of the GnpIS grape genomics and genetics integrative resource

A reference sequence of wheat chromosome 3B

IWGSC Sequence repository at URGI: New features and blast tool

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

Plant biology open data interoperability in the big data era

URGI plant and fungi platform: distributed resources through GMOD tools

Sequencing and Assembling a Reference Sequence of the 1 Gb Wheat Chromosome 3B

IWGSC Sequence repository : new data and browsers

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

Towards a reference sequence of the 1 Gb wheat chromosome 3B

A strategy to assemble a reference sequence of the 1 Gb wheat chromosome 3B

URGI genome annotation system:an integrated system for structural and functional genome annotation

Sequencing and analyses of the hexaploid wheat chromosome 3B

GnpAnnot community annotation system: features, qualifiers, values

Data FAIRification in a cross-institutional governance framework : recommendations from the ANR-BRIDGE project

D2KAB project taking off: Data to Knowledge in Agronomy and Biodiversity

Findable, Accessible, Interoperable and Reusable data linked to genetic resources for plant biology and breeding at INRA

BreedWheat genotyping and phenotyping data in GnpIS information system

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

Wheat Data Integration and FAIRification: IWGSC, GrainGenes, Ensembl and Other Data Repositories

Mining plant genomic and genetic data using the GnpIS information system

The Wheat Black Jack : advances towards sequencing the 21 chromosomes of the bread wheat genome

Ontology mapping for wheat trait information management

Mapping bread wheat trait ontologies for semantic interoperability

AGENT Guidelines for dataflow

URGI Plant Bioinformatics Facility (PlantBioinfoPF) data management plan

RDF Query interface from BrAPI web service source

Rapport de synthèse du chantier DOI

FAIDARE - FAIR Data-finder for Agronomic REsearch