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Submitted
Yeumo ED, Alaux M, Arnaud E, Aubin S, Baumann U, Buche P, Cooper L, Ćwiek-Kupczyńska H, Davey RP, Fulss RA et al..  Submitted.  Developing data interoperability using standards: A wheat community use case. 6:1843.
Guilhem S, Adrien P, Mathieu R, Julien F, Yann H, Fabien DB, Pierre L.  Submitted.  Gigwa v2 – Extended and improved genotype investigator. 8:giz051.
Cubry P, Tranchant-Dubreuil C, Thuillet A-C, Monat C, Ndjiondjop M-N, Labadie K, Cruaud C, Engelen S, Scarcelli N, Rhoné B et al..  Submitted.  The Rise and Fall of African Rice Cultivation Revealed by Analysis of 246 New Genomes. 28:2274–2282.e6. Abstract
Cohen-Boulakia S, Belhajjame K, Collin O, Chopard J, Froidevaux C, Gaignard A, Hinsen K, Larmande P, Bras YL, Lemoine F et al..  Submitted.  Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities. 75:284–298. Abstract
Harper L, Campbell J, Cannon EKS, Jung S, Poelchau M, Walls R, Andorf C, Arnaud E, Berardini TZ, Birkett C et al..  Submitted.  {AgBioData} consortium recommendations for sustainable genomics and genetics databases for agriculture. 2018 Abstract
Abbeloos R, Vasques Costa B, Edwards JD, Papoutsoglou E, Finkers R, Verouden M, Robbins K, Selby P, Glaser P, Sun Q et al..  Submitted.  {BrAPI} - an Application Programming Interface for Plant Breeding Applications. Abstract
2021
Sempéré G, Pétel A, Abbé M, Lefeuvre P, Roumagnac P, Mahé F, Baurens G, Filloux D.  2021.  metaXplor: an interactive viral and microbial metagenomic data manager. GigaScience. 10
2020
Martin G, Cardi C, Sarah G, Ricci S, Jenny C, Fondi E, Perrier X, Glaszmann J-C, D'Hont A, Yahiaoui N.  2020.  Genome ancestry mosaics reveal multiple and cryptic contributors to cultivated banana. The Plant Journal.
2019
Sempéré G, Pétel A, Rouard M, Frouin J, Hueber Y, de Bellis F, Larmande P.  2019.  Gigwa v2—Extended and improved genotype investigator. GigaScience. 8
Larmande P, Sempéré G, Pétel A, Rouard M, Frouin J, Hueber Y, De Bellis F, Larmande P.  2019.  Gigwa v2—Extended and improved genotype investigator. GigaScience.
Larmande P, Adrien P, Fabien DB, Guilhem S, Julien F, Mathieu R, Pierre L, Yann H.  2019.  Supporting data for {"}Gigwa v2 – Extended and improved genotype investigator{"}. GigaScience Database.
2017
Yeumo ED, Alaux M, Arnaud E, Aubin S, Baumann U, Buche P, Cooper L, Ćwiek-Kupczyńska H, Davey RP, Fulss RA et al..  2017.  Developing data interoperability using standards: A wheat community use case. F1000Research. 6:1843.
Argout X, Martin G, Droc G, Fouet O, Labadie K, Rivals E, Aury JM, Lanaud C.  2017.  The cacao Criollo genome v2.0: an improved version of the genome for genetic and functional genomic studies.. BMC genomics. 18(1):730. Abstract
Larmande P, Yeumo ED, Alaux M, Arnaud E, Aubin S, Baumann U, Buche P, Cooper L, Ćwiek-Kupczyńska H, Davey RP et al..  2017.  Developing data interoperability using standards: A wheat community use case [version 2; referees: 2 approved].
Cohen-Boulakia S, Belhajjame K, Collin O, Chopard J, Froidevaux C, Gaignard A, Hinsen K, Larmande P, Bras YL, Lemoine F et al..  2017.  Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities. Future Generation Computer Systems. 75:284-298.
2016
G S, F P, A D, M R, G S, P L.  2016.  Erratum to: Gigwa-Genotype investigator for genome-wide analyses.. GigaScience.
Petitot A-S, Dereeper A, Agbessi M, Da Silva C, Guy J, Ardisson M, Fernandez D.  2016.  Dual RNA-seq reveals Meloidogyne graminicola transcriptome and candidate effectors during the interaction with rice plants. Molecular plant pathology. 17:860–874.
Fischer I, Diévart A, Droc G, Dufayard JF, Chantret N.  2016.  Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms.. Plant physiology. :pp–01470.
Guignon V, Hueber Y, Rouard M, Bocs S, Couvin D, de Lamotte F, Droc G, Dufayard JF, El Hassouni N, Farcy C et al..  2016.  The South Green portal: A comprehensive resource for tropical and Mediterranean crop genomics. Current Plant Biology. 7:6–9.
Larmande P, G S, F P, A D, M R, G S, P L.  2016.  Gigwa-Genotype investigator for genome-wide analyses..
Larmande P, Yeumo ED, Fulss R, Alaux M, Aubin S, Arnaud E, Baumann U, Cooper L, Davey R, Laporte M-A et al..  2016.  Wheat Data Interoperability Guidelines, Ontologies and User Cases. Research Data Alliance.
2015
Khater F, Balestrino D, Charbonnel N, Dufayard JF, Brisse S, Forestier C.  2015.  In Silico Analysis of Usher Encoding Genes in Klebsiella pneumoniae and Characterization of Their Role in Adhesion and Colonization. PLOS ONE. 10(3):e0116215.
Monat C, Tranchant-Dubreuil C, Kougbeadjo A, Farcy C, Ortega-Abboud E, Amanzougarene S, Ravel S, Agbessi M, Orjuela-Bouniol J, Summo M et al..  2015.  TOGGLE: Toolbox for generic NGS analyses. JOBIM.
Monat C, Tranchant-Dubreuil C, Kougbeadjo A, Farcy C, Ortega-Abboud E, Amanzougarene S, Ravel S, Agbessi M, Orjuela-Bouniol J, Summo M et al..  2015.  TOGGLE: toolbox for generic NGS analyses. BMC Bioinformatics. 16:374. Abstract
G. S, F. P, A. D, M. R, G. S, P. L.  2015.  Gigwa: Genotype Inves1gator for Genome Wide Analyses Variant search interface.