Authors: Sook Jung
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Journal Article

BrAPI v2: real-world applications for data integration and collaboration in the breeding and genetics community

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Peter Selby, Rafael Abbeloos, Anne-Francoise Adam-Blondon, Francisco J Agosto-Pérez, Michael Alaux, Isabelle Alic, Khaled Al-Shamaa, Johan Steven Aparicio, Jan Erik Backlund, Aldrin Batac, Sebastian Beier, Gabriel Besombes, Alice Boizet, Matthijs Brouwer, Terry Casstevens, Arnaud Charleroy, Keo Corak, Chaney Courtney, Mariano Crimi … The BrAPI Consortium
Database, Volume 2025, 2025, baaf048, https://doi.org/10.1093/database/baaf048
Published: 24 September 2025
Journal Article

Building resource-efficient community databases using open-source software

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Sook Jung, Chun-Huai Cheng, Taein Lee, Katheryn Buble, Jodi Humann, Ping Zheng, Jing Yu, Dorrie Main
Database, Volume 2025, 2025, baaf005, https://doi.org/10.1093/database/baaf005
Published: 12 February 2025
Journal Article

Genotype and phenotype data standardization, utilization and integration in the big data era for agricultural sciences

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Cecilia H Deng, Sushma Naithani, Sunita Kumari, Irene Cobo-Simón, Elsa H Quezada-Rodríguez, Maria Skrabisova, Nick Gladman, Melanie J Correll, Akeem Babatunde Sikiru, Olusola O Afuwape, Annarita Marrano, Ines Rebollo, Wentao Zhang, Sook Jung, On behalf of the Genotype-Phenotype Working Group, AgBioData
Database, Volume 2023, 2023, baad088, https://doi.org/10.1093/database/baad088
Published: 11 December 2023
Journal Article

The Breeding Information Management System (BIMS): an online resource for crop breeding

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Sook Jung, Taein Lee, Ksenija Gasic, B. Todd Campbell, Jing Yu, Jodi Humann, Sushan Ru, Daniel Edge-Garza, Heidi Hough, Dorrie Main
Database, Volume 2021, 2021, baab054, https://doi.org/10.1093/database/baab054
Published: 20 August 2021
Journal Article

Tripal MegaSearch: a tool for interactive and customizable query and download of big data

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Sook Jung, Chun-Huai Cheng, Katheryn Buble, Taein Lee, Jodi Humann, Jing Yu, James Crabb, Heidi Hough, Dorrie Main
Database, Volume 2021, 2021, baab023, https://doi.org/10.1093/database/baab023
Published: 26 April 2021
Journal Article

Tripal and Galaxy: supporting reproducible scientific workflows for community biological databases

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Shawna Spoor, Connor Wytko, Brian Soto, Ming Chen, Abdullah Almsaeed, Bradford Condon, Nic Herndon, Heidi Hough, Sook Jung, Meg Staton, Jill Wegrzyn, Dorrie Main, F Alex Feltus, Stephen P Ficklin
Database, Volume 2020, 2020, baaa032, https://doi.org/10.1093/database/baaa032
Published: 04 July 2020
Journal Article

Tripal MapViewer: A tool for interactive visualization and comparison of genetic maps

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Katheryn Buble, Sook Jung, Jodi L Humann, Jing Yu, Chun-Huai Cheng, Taein Lee, Stephen P Ficklin, Heidi Hough, Bradford Condon, Margaret E Staton, Jill L Wegrzyn, Dorrie Main
Database, Volume 2019, 2019, baz100, https://doi.org/10.1093/database/baz100
Published: 05 November 2019
Journal Article

Tripal v3: an ontology-based toolkit for construction of FAIR biological community databases

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Shawna Spoor, Chun-Huai Cheng, Lacey-Anne Sanderson, Bradford Condon, Abdullah Almsaeed, Ming Chen, Anthony Bretaudeau, Helena Rasche, Sook Jung, Dorrie Main, Kirstin Bett, Margaret Staton, Jill L Wegrzyn, F Alex Feltus, Stephen P Ficklin
Database, Volume 2019, 2019, baz077, https://doi.org/10.1093/database/baz077
Published: 22 July 2019
Journal Article

Growing and cultivating the forest genomics database, TreeGenes

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Taylor Falk, Nic Herndon, Emily Grau, Sean Buehler, Peter Richter, Sumaira Zaman, Eliza M Baker, Risharde Ramnath, Stephen Ficklin, Margaret Staton, Frank A Feltus, Sook Jung, Doreen Main, Jill L Wegrzyn
Database, Volume 2019, 2019, baz043, https://doi.org/10.1093/database/baz043
Published: 13 March 2019
Journal Article

Growing and cultivating the forest genomics database, TreeGenes

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Taylor Falk, Nic Herndon, Emily Grau, Sean Buehler, Peter Richter, Sumaira Zaman, Eliza M Baker, Risharde Ramnath, Stephen Ficklin, Margaret Staton, Frank A Feltus, Sook Jung, Doreen Main, Jill L Wegrzyn
Database, Volume 2018, 2018, bay084, https://doi.org/10.1093/database/bay084
Published: 18 September 2018
Journal Article

AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture

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Lisa Harper, Jacqueline Campbell, Ethalinda K S Cannon, Sook Jung, Monica Poelchau, Ramona Walls, Carson Andorf, Elizabeth Arnaud, Tanya Z Berardini, Clayton Birkett, Steve Cannon, James Carson, Bradford Condon, Laurel Cooper, Nathan Dunn, Christine G Elsik, Andrew Farmer, Stephen P Ficklin, David Grant … Doreen Main
Database, Volume 2018, 2018, bay088, https://doi.org/10.1093/database/bay088
Published: 18 September 2018
Journal Article

Extension modules for storage, visualization and querying of genomic, genetic and breeding data in Tripal databases

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Sook Jung, Taein Lee, Chun-Huai Cheng, Stephen Ficklin, Jing Yu, Jodi Humann, Dorrie Main
Database, Volume 2017, 2017, bax092, https://doi.org/10.1093/database/bax092
Published: 09 December 2017
Journal Article

Chado use case: storing genomic, genetic and breeding data of Rosaceae and Gossypium crops in Chado

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Sook Jung, Taein Lee, Stephen Ficklin, Jing Yu, Chun-Huai Cheng, Dorrie Main
Database, Volume 2016, 2016, baw058, https://doi.org/10.1093/database/baw058
Published: 02 May 2016
Journal Article

Chado use case: storing genomic, genetic and breeding data of Rosaceae and Gossypium crops in Chado

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Sook Jung, Taein Lee, Stephen Ficklin, Jing Yu, Chun-Huai Cheng, Dorrie Main
Database, Volume 2016, 2016, baw010, https://doi.org/10.1093/database/baw010
Published: 17 March 2016
Journal Article

Addition of a breeding database in the Genome Database for Rosaceae

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Kate Evans, Sook Jung, Taein Lee, Lisa Brutcher, Ilhyung Cho, Cameron Peace, Dorrie Main
Database, Volume 2013, 2013, bat078, https://doi.org/10.1093/database/bat078
Published: 18 November 2013
Journal Article

Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases

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Lacey-Anne Sanderson, Stephen P. Ficklin, Chun-Huai Cheng, Sook Jung, Frank A. Feltus, Kirstin E. Bett, Dorrie Main
Database, Volume 2013, 2013, bat075, https://doi.org/10.1093/database/bat075
Published: 25 October 2013
Journal Article

The Chado Natural Diversity module: a new generic database schema for large-scale phenotyping and genotyping data

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Sook Jung, Naama Menda, Seth Redmond, Robert M. Buels, Maren Friesen, Yuri Bendana, Lacey-Anne Sanderson, Hilmar Lapp, Taein Lee, Bob MacCallum, Kirstin E. Bett, Scott Cain, Dave Clements, Lukas A. Mueller, Dorrie Main
Database, Volume 2011, 2011, bar051, https://doi.org/10.1093/database/bar051
Published: 15 December 2011
Journal Article

Tripal: a construction toolkit for online genome databases

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Stephen P. Ficklin, Lacey-Anne Sanderson, Chun-Huai Cheng, Margaret E. Staton, Taein Lee, Il-Hyung Cho, Sook Jung, Kirstin E. Bett, Doreen Main
Database, Volume 2011, 2011, bar044, https://doi.org/10.1093/database/bar044
Published: 29 September 2011