Location: Dale Bumpers National Rice Research Center
Title: BrAPI - An application programming interface for plant breeding applicationsAuthor
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ABBELOOS, RAFAEL - Flanders Institute Of Biotechnology (VIB) |
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BAUCHET, GUILLAUME - Boyce Thompson Institute |
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BENITES-ALFARO, OMAR - International Potato Center |
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Birkett, Clayton |
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CARCELLER, PIERRE - Centro De Cooperation Internationale En Recherche Agronomique Pour Le Development (CIRAD) |
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COSTA, BRUNO - Instituto De Biologia Experimental E Tecnologica |
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Edwards, Jeremy |
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FINKERS, RICHARD - Wageningen University And Research Center |
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GUIGNON, VALENTIN - Bioversity International |
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HOK, PUTHICK - Diversity Arrays Technology |
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KILIAN, ANDRZEJ - Diversity Arrays Technology |
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LAPORTE, MARIE-ANGELIQUE - Bioversity International |
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LEBAUER, DAVID - University Of Arizona |
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LYON, DAVID - Boyce Thompson Institute |
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MARSHALL, DAVID - The James Hutton Institute |
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Matthews, David |
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MILNE, IAIN - The James Hutton Institute |
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MORALES, NICOLAS - Boyce Thompson Institute |
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MUELLER, LUKAS - Boyce Thompson Institute |
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PAPOUTSOGLOU, EVANGELIA - Wageningen University And Research Center |
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PEARCE, BRIAN - Diversity Arrays Technology |
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PEREZ-MASIAS, IVAN - International Potato Center |
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RAMIREZ-GONZALEZ, RICARDO - John Innes Center |
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RAUBACK, SEBASTIAN - The James Hutton Institute |
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RIFE, TREVOR - Kansas State University |
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ROBBINS, KELLY - Cornell University |
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ROUARD, MATHIEU - Bioversity International |
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SELBY, PETER - Cornell University |
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SEMPERE, GUILHEM - Centro De Cooperation Internationale En Recherche Agronomique Pour Le Development (CIRAD) |
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SHAW, PAUL - The James Hutton Institute |
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GORDON, STEPHEN - The James Hutton Institute |
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USZYNSKI, GRZEGORZ - Diversity Arrays Technology |
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VEROUDEN, MAIKEL - Wageningen University And Research Center |
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BACKLUND, JAN - Dow Agrosciences |
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SALIDO, MARTIN - Leibniz Institute Of Plant Genetics And Crop Plant Research |
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CORNUT, GUILLAUME - French National Institute For Agricultural Research |
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GAO, STAR - Boyce Thompson Institute |
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PATRICK, KONIG - Leibniz Institute Of Plant Genetics And Crop Plant Research |
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LAGARE, JACK - International Rice Research Institute |
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LANGE, MATTHIAS - Leibniz Institute Of Plant Genetics And Crop Plant Research |
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LARMANDE, PIERRE - Institute For Research And Development (IRD) |
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NEVEU, PASCAL - French National Institute For Agricultural Research |
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PROMMIER, CYRIL - French National Institute For Agricultural Research |
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TAHORE, ABHISHEK - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India |
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SARMA, CHAITANYA - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India |
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SCHOLZ, UWE - Leibniz Institute Of Plant Genetics And Crop Plant Research |
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MISTRY, NAYMESH - Consultant |
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SIMON, REINHARD - Consultant |
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SOLDEVILLA, NAHUEL - Consultant |
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TOVAR, CLARYSABEL - Consultant |
Submitted to: Bioinformatics
Publication Type: Peer Reviewed Journal Publication Acceptance Date: 3/20/2019 Publication Date: 3/23/2019 Citation: Abbeloos, R., Bauchet, G., Benites-Alfaro, O., Birkett, C.L., Carceller, P., Costa, B.V., Edwards, J., Finkers, R., Guignon, V., Hok, P., Kilian, A., Laporte, M., Lebauer, D., Lyon, D., Marshall, D., Matthews, D.E., Milne, I., Morales, N., Mueller, L., Papoutsoglou, E., Pearce, B., Perez-Masias, I., Ramirez-Gonzalez, R.H., Rauback, S., Rife, T., Robbins, K., Rouard, M., Selby, P., Sempere, G., Shaw, P., Gordon, S., Uszynski, G., Verouden, M., Backlund, J.E., Salido, M.B., Cornut, G., Gao, S.Y., Patrick, K., Lagare, J.E., Lange, M., Larmande, P., Neveu, P., Prommier, C., Tahore, A., Sarma, C., Scholz, U., Mistry, N., Simon, R., Soldevilla, N., Tovar, C. 2019. BrAPI - An application programming interface for plant breeding applications. Bioinformatics. https://doi.org/10.1093/bioinformatics/btz190. DOI: https://doi.org/10.1093/bioinformatics/btz190 Interpretive Summary: Plant breeding benefits from combining large collections of information including genotyping, field trial observations, and geographic data. There is a need to quickly transfer data between plant breeding databases in a standardized way. To address this need, a community of researchers and computer scientists have developed the plant Breeding Application Programming Interface (BrAPI) to provide interoperability between online plant breeding data resources. BrAPI is a shared, open specification that has been designed and implemented by a global consortium of participants. The focus of the first version of BrAPI on providing services for connecting systems and retrieving basic breeding data including germplasm, study, observation, and molecular marker data. A number of BrAPI-enabled applications, termed BrAPPs, have been written, that take advantage of the emerging support of BrAPI by many databases. More information on BrAPI is available at https://brapi.org/. Technical Abstract: 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 multiple systems. As analyses of interest increasingly require aggregation of datasets from diverse sources, data exchange between disparate systems becomes a challenge. To facilitate interoperability among breeding applications, we present the public plant Breeding Application Programming Interface (BrAPI). BrAPI is a standardized web service Application Programming Interface (API) specification. The development of BrAPI is a collaborative, community-based initiative involving a growing global community of over a hundred participants representing several dozen institutions and companies. Development of such a standard is recognized as critical to a number of important large breeding system initiatives as a foundational technology. The focus of the first version of the API is on providing services for connecting systems and retrieving basic breeding data including germplasm, study, observation, and marker data. A number of BrAPI-enabled applications, termed BrAPPs, have been written, that take advantage of the emerging support of BrAPI by many databases. More information on BrAPI is available at https://brapi.org/. |