From raw sensor and automated data to genetic evaluation and validation in the cloud

D. Schokker; I.N. Athanasiadis; M. Poppe; J. ten Napel; C. Kamphuis; R.F. Veerkamp

doi:10.3920/978-90-8686-940-4_359

From raw sensor and automated data to genetic evaluation and validation in the cloud

D. Schokker^*, I.N. Athanasiadis, M. Poppe, J. ten Napel, C. Kamphuis, R.F. Veerkamp

^*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › Academic

Abstract

Precision livestock farming tools, such as sensor and automation techniques, enable animal breeders to define novel traits. New challenges are data storage and handling and the development of genetic evaluation. Traditionally, the development of genetic evaluation for novel traits requires several steps, i.e. data curation, trait definition, variance component estimation (ASReml), genetic evaluation (MiXBLUP), and validation of the estimated breeding values (EBVs), requiring many iterations to optimize the genetic evaluations. We combined these steps in a cloud solution to make this entire process more efficient. An experiment was run with 1,782,373,113 daily milk yield records of 1,120,550 cows, all the way from data curation to trait definition and validation of the EBV. The resulting wall-time, i.e. elapsed actual time from start to finish ofthe entire process, was ~23 hours. The flexible cloud solution can be easily modified or adapted to develop novel traits.

Original language	English
Title of host publication	Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)
Subtitle of host publication	Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges
Editors	R.F. Veerkamp, Y. de Haas
Place of Publication	Wageningen
Publisher	Wageningen Academic Publishers
Pages	1502-1505
ISBN (Electronic)	9789086869404
DOIs	https://doi.org/10.3920/978-90-8686-940-4_359
Publication status	Published - 2022
Event	World Congress on Genetics Applied to Livestock Production: WCGALP 2022 - Rotterdam, Netherlands Duration: 3 Jul 2022 → 8 Jul 2022

Conference/symposium

Conference/symposium	World Congress on Genetics Applied to Livestock Production: WCGALP 2022
Country/Territory	Netherlands
City	Rotterdam
Period	3/07/22 → 8/07/22

Access to Document

10.3920/978-90-8686-940-4_359Licence: CC BY

https://edepot.wur.nl/588191Licence: CC BY

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Schokker, D., Athanasiadis, I. N., Poppe, M., ten Napel, J., Kamphuis, C., & Veerkamp, R. F. (2022). From raw sensor and automated data to genetic evaluation and validation in the cloud. In R. F. Veerkamp, & Y. de Haas (Eds.), Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges (pp. 1502-1505). Article 359 Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-940-4_359

Schokker, D. ; Athanasiadis, I.N. ; Poppe, M. et al. / From raw sensor and automated data to genetic evaluation and validation in the cloud. Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. editor / R.F. Veerkamp ; Y. de Haas. Wageningen : Wageningen Academic Publishers, 2022. pp. 1502-1505

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title = "From raw sensor and automated data to genetic evaluation and validation in the cloud",

abstract = "Precision livestock farming tools, such as sensor and automation techniques, enable animal breeders to define novel traits. New challenges are data storage and handling and the development of genetic evaluation. Traditionally, the development of genetic evaluation for novel traits requires several steps, i.e. data curation, trait definition, variance component estimation (ASReml), genetic evaluation (MiXBLUP), and validation of the estimated breeding values (EBVs), requiring many iterations to optimize the genetic evaluations. We combined these steps in a cloud solution to make this entire process more efficient. An experiment was run with 1,782,373,113 daily milk yield records of 1,120,550 cows, all the way from data curation to trait definition and validation of the EBV. The resulting wall-time, i.e. elapsed actual time from start to finish ofthe entire process, was ~23 hours. The flexible cloud solution can be easily modified or adapted to develop novel traits.",

author = "D. Schokker and I.N. Athanasiadis and M. Poppe and {ten Napel}, J. and C. Kamphuis and R.F. Veerkamp",

year = "2022",

doi = "10.3920/978-90-8686-940-4_359",

language = "English",

pages = "1502--1505",

editor = "R.F. Veerkamp and {de Haas}, Y.",

booktitle = "Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)",

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note = "World Congress on Genetics Applied to Livestock Production: WCGALP 2022 ; Conference date: 03-07-2022 Through 08-07-2022",

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Schokker, D , Athanasiadis, IN, Poppe, M, ten Napel, J , Kamphuis, C & Veerkamp, RF 2022, From raw sensor and automated data to genetic evaluation and validation in the cloud. in RF Veerkamp & Y de Haas (eds), Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges., 359, Wageningen Academic Publishers, Wageningen, pp. 1502-1505, World Congress on Genetics Applied to Livestock Production: WCGALP 2022, Rotterdam, Netherlands, 3/07/22. https://doi.org/10.3920/978-90-8686-940-4_359

From raw sensor and automated data to genetic evaluation and validation in the cloud. / Schokker, D.; Athanasiadis, I.N.; Poppe, M. et al.
Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. ed. / R.F. Veerkamp; Y. de Haas. Wageningen: Wageningen Academic Publishers, 2022. p. 1502-1505 359.

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › Academic

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AU - Schokker, D.

AU - Athanasiadis, I.N.

AU - Poppe, M.

AU - ten Napel, J.

AU - Kamphuis, C.

AU - Veerkamp, R.F.

PY - 2022

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N2 - Precision livestock farming tools, such as sensor and automation techniques, enable animal breeders to define novel traits. New challenges are data storage and handling and the development of genetic evaluation. Traditionally, the development of genetic evaluation for novel traits requires several steps, i.e. data curation, trait definition, variance component estimation (ASReml), genetic evaluation (MiXBLUP), and validation of the estimated breeding values (EBVs), requiring many iterations to optimize the genetic evaluations. We combined these steps in a cloud solution to make this entire process more efficient. An experiment was run with 1,782,373,113 daily milk yield records of 1,120,550 cows, all the way from data curation to trait definition and validation of the EBV. The resulting wall-time, i.e. elapsed actual time from start to finish ofthe entire process, was ~23 hours. The flexible cloud solution can be easily modified or adapted to develop novel traits.

AB - Precision livestock farming tools, such as sensor and automation techniques, enable animal breeders to define novel traits. New challenges are data storage and handling and the development of genetic evaluation. Traditionally, the development of genetic evaluation for novel traits requires several steps, i.e. data curation, trait definition, variance component estimation (ASReml), genetic evaluation (MiXBLUP), and validation of the estimated breeding values (EBVs), requiring many iterations to optimize the genetic evaluations. We combined these steps in a cloud solution to make this entire process more efficient. An experiment was run with 1,782,373,113 daily milk yield records of 1,120,550 cows, all the way from data curation to trait definition and validation of the EBV. The resulting wall-time, i.e. elapsed actual time from start to finish ofthe entire process, was ~23 hours. The flexible cloud solution can be easily modified or adapted to develop novel traits.

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M3 - Conference paper

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BT - Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)

A2 - Veerkamp, R.F.

A2 - de Haas, Y.

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ER -

Schokker D , Athanasiadis IN, Poppe M, ten Napel J , Kamphuis C , Veerkamp RF. From raw sensor and automated data to genetic evaluation and validation in the cloud. In Veerkamp RF, de Haas Y, editors, Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP): Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges. Wageningen: Wageningen Academic Publishers. 2022. p. 1502-1505. 359 doi: 10.3920/978-90-8686-940-4_359

From raw sensor and automated data to genetic evaluation and validation in the cloud

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