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Journal Article 2017

Autor: Jonquet, C. Toulet, A. Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Laporte, M-A. Musen, M.A. Pesce, V. Larmande, Pierre

Many vocabularies and ontologies are produced to represent and annotate agronomic data. However, those ontologies are spread out, in different formats, of different size, with different structures and from overlapping domains. Therefore, there is need for a common platform to receive and host the...

Enlace original: https://cgspace.cgiar.org/handle/10568/89904

Investigación en Agricultura
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Jonquet, C. ,  Toulet, A. ,  Arnaud, Elizabeth ,  Aubin, S. ,  Dzale-Yeumo, E. ,  Emonet, V. ,  Graybeal, J. ,  Laporte, M-A. ,  Musen, M.A. ,  Pesce, V. ,  Larmande, Pierre ,  [AgroPortal: a vocabulary and ontology repository for agronomy] ,  AgroPortal: a vocabulary and ontology repository for agronomy
Journal Article 2017

Autor: Garnier, E. Stahl, U. Laporte, M-A. Kattge, J. Mougenot, I. Kuhn, I. Laporte, B. Amiaud, B. Ahrestani, F.S. Bonisch, G. Bunker, D.E. Cornelissen, J.H.C. Díaz, S. Enquist, B.J. Gachet, S. Jaureguiberry, P. Kleyer, M. Lavorel, S. Maicher, L. Pérez Harguindeguy, N. Poorter, H. Schildhauer, M. Shipley, B. Violle, C. Weiher, E. Wirth, C. Wright, I.J. Klotz, S.
Enlace original: https://cgspace.cgiar.org/handle/10568/79467

Investigación en Agricultura
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Garnier, E. ,  Stahl, U. ,  Laporte, M-A. ,  Kattge, J. ,  Mougenot, I. ,  Kuhn, I. ,  Laporte, B. ,  Amiaud, B. ,  Ahrestani, F.S. ,  Bonisch, G. ,  Bunker, D.E. ,  Cornelissen, J.H.C. ,  Díaz, S. ,  Enquist, B.J. ,  Gachet, S. ,  Jaureguiberry, P. ,  Kleyer, M. ,  Lavorel, S. ,  Maicher, L. ,  Pérez Harguindeguy, N. ,  Poorter, H. ,  Schildhauer, M. ,  Shipley, B. ,  Violle, C. ,  Weiher, E. ,  Wirth, C. ,  Wright, I.J. ,  Klotz, S. ,  [Towards a thesaurus of plant characteristics: an ecological contribution] ,  Towards a thesaurus of plant characteristics: an ecological contribution
Book Chapter 2019

Autor: Remans, R. Villani, C. Estrada Carmona, N. Dimitri Juventia, S. Laporte, M-A. Dulloo, E. Jones, S.
Enlace original: https://cgspace.cgiar.org/handle/10568/106772

Investigación en Agricultura
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Remans, R. ,  Villani, C. ,  Estrada Carmona, N. ,  Dimitri Juventia, S. ,  Laporte, M-A. ,  Dulloo, E. ,  Jones, S. ,  [Comparison across countries] ,  Comparison across countries
Book Chapter 2019

Autor: Remans, R. Villani, C. Estrada Carmona, N. Dimitri Juventia, S. Laporte, M-A. Dulloo, E. Jones, S.
Enlace original: https://cgspace.cgiar.org/handle/10568/106771

Investigación en Agricultura
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Remans, R. ,  Villani, C. ,  Estrada Carmona, N. ,  Dimitri Juventia, S. ,  Laporte, M-A. ,  Dulloo, E. ,  Jones, S. ,  [Agrobiodiversity Index methodology in a nutshell] ,  Agrobiodiversity Index methodology in a nutshell
Journal Article 2017

Autor: Cooper, L. Meier, A. Laporte, M-A. Elser, J.L. Mungall, C. Sinn, B.T. Cavaliere, D. Carbon, S. Dunn, N.A. Smith, B. Qu, B. Preece, J. Zhang, E. Todorovic, S. Gkouto, G. Doonan, J.H. Stevenson, D.W. Arnaud, Elizabeth Jaiswal, P.

The Planteome project (http://www.planteome.org) provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics ...

Enlace original: https://cgspace.cgiar.org/handle/10568/89498

Investigación en Agricultura
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Cooper, L. ,  Meier, A. ,  Laporte, M-A. ,  Elser, J.L. ,  Mungall, C. ,  Sinn, B.T. ,  Cavaliere, D. ,  Carbon, S. ,  Dunn, N.A. ,  Smith, B. ,  Qu, B. ,  Preece, J. ,  Zhang, E. ,  Todorovic, S. ,  Gkouto, G. ,  Doonan, J.H. ,  Stevenson, D.W. ,  Arnaud, Elizabeth ,  Jaiswal, P. ,  [The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics] ,  The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics
Report 2018

Autor: Matentzoglu, N. Balhoff, J. Bello, S. Boerkoel, C. Bradford, Y. Carmody, L. Cooper, L. Grove, C. Harris, N. Köhler, S. Laporte, M-A. Laulederkind, S. Lee, R. Mazandu, G. McMurry, J. Mungall, C. Osumi-Sutherland, D. Pilgrim, C. Rageth, K. Robb, S. Robinson, P. Segerdell, E. Thessen, A. Vasilevsky, N. Zhang, X. Haendel, M.

Logical definitions, in particular those following the Entity-Quality approach, are increasingly used to drive automated classification of phenotypes and integrate phenotypes across species semantically. Over the years, the lack of consistent and widespread use of common standards resulted in con...

Enlace original: https://cgspace.cgiar.org/handle/10568/100816

Investigación en Agricultura
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Matentzoglu, N. ,  Balhoff, J. ,  Bello, S. ,  Boerkoel, C. ,  Bradford, Y. ,  Carmody, L. ,  Cooper, L. ,  Grove, C. ,  Harris, N. ,  Köhler, S. ,  Laporte, M-A. ,  Laulederkind, S. ,  Lee, R. ,  Mazandu, G. ,  McMurry, J. ,  Mungall, C. ,  Osumi-Sutherland, D. ,  Pilgrim, C. ,  Rageth, K. ,  Robb, S. ,  Robinson, P. ,  Segerdell, E. ,  Thessen, A. ,  Vasilevsky, N. ,  Zhang, X. ,  Haendel, M. ,  [Phenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Report] ,  Phenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Report
Conference Paper 2018

Autor: Endara L. Burleigh G. Cooper L. Jaiswal, P. Laporte, M-A.

Assembling large-scale phenotypic datasets for evolutionary and biodiversity studies of plants can be extremely difficult and time consuming. New semi-automated Natural Language Processing (NLP) pipelines can extract phenotypic data from taxonomic descriptions, and their performance can be enhanc...

Enlace original: https://cgspace.cgiar.org/handle/10568/100813

Investigación en Agricultura
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Endara L. ,  Burleigh G. ,  Cooper L. ,  Jaiswal, P. ,  Laporte, M-A. ,  [A Natural Language Processing Pipeline to extract phenotypic data from formal taxonomic descriptions with a focus on flagellate plants] ,  A Natural Language Processing Pipeline to extract phenotypic data from formal taxonomic descriptions with a focus on flagellate plants
Journal Article 2019

Autor: Selby, P. Abbeloos, R. Backlund, J.E. Guignon, V. Laporte, M-A. Rouard, M.

Modern genomic breeding methods rely heavily on very large amounts of phenotyping and genotyping data, presenting new challenges in effective data management and integration. Recently, the size and complexity of datasets have increased significantly, with the result that data is often stored on m...

Enlace original: https://cgspace.cgiar.org/handle/10568/103792

Investigación en Agricultura
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Selby, P. ,  Abbeloos, R. ,  Backlund, J.E. ,  Guignon, V. ,  Laporte, M-A. ,  Rouard, M. ,  [BrAPI - an application programming interface for plant breeding applications] ,  BrAPI - an application programming interface for plant breeding applications
Journal Article 2019

Autor: Pommier, C. Michotey, C. Cornut, G. Roumet, P. Duchêne, E. Flores, R. Lebreton, A. Alaux, M. Durand, S. Kimmel, E. Letellier, T. Merceron, G. Laine, M. Guerche, C. Loaec, M. Steinbach, D. Laporte, M-A. Arnaud, Elizabeth Quesneville, H. Adam-Blondon, Anne-Françoise

GnpIS is a data repository for plant phenomics that stores whole field and greenhouse experimental data including environment measures. It allows long-term access to datasets following the FAIR principles: Findable, Accessible, Interoperable, and Reusable, by using a flexible and original approac...

Enlace original: https://cgspace.cgiar.org/handle/10568/101440

Investigación en Agricultura
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Pommier, C. ,  Michotey, C. ,  Cornut, G. ,  Roumet, P. ,  Duchêne, E. ,  Flores, R. ,  Lebreton, A. ,  Alaux, M. ,  Durand, S. ,  Kimmel, E. ,  Letellier, T. ,  Merceron, G. ,  Laine, M. ,  Guerche, C. ,  Loaec, M. ,  Steinbach, D. ,  Laporte, M-A. ,  Arnaud, Elizabeth ,  Quesneville, H. ,  Adam-Blondon, Anne-Françoise ,  [Applying FAIR Principles to plant phenotypic data management in GnpIS] ,  Applying FAIR Principles to plant phenotypic data management in GnpIS
Conference Paper 2019

Autor: Remans, R. Villani, C. Jones, S. Smith, A. Laporte, M-A. Estrada Carmona, Natalia Arnaud, Elizabeth Dulloo, Ehsan China, R.
Enlace original: https://cgspace.cgiar.org/handle/10568/105515

Investigación en Agricultura
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Remans, R. ,  Villani, C. ,  Jones, S. ,  Smith, A. ,  Laporte, M-A. ,  Estrada Carmona, Natalia ,  Arnaud, Elizabeth ,  Dulloo, Ehsan ,  China, R. ,  [Measuring agricultural biodiversity for sustainable food systems] ,  Measuring agricultural biodiversity for sustainable food systems

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