Authors: Christopher J. Mungall
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Journal Article

A change language for ontologies and knowledge graphs

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Harshad Hegde, Jennifer Vendetti, Damien Goutte-Gattat, J Harry Caufield, John B Graybeal, Nomi L Harris, Naouel Karam, Christian Kindermann, Nicolas Matentzoglu, James A Overton, Mark A Musen, Christopher J Mungall
Database, Volume 2025, 2025, baae133, https://doi.org/10.1093/database/baae133
Published: 22 January 2025
Journal Article

Automated annotation of scientific texts for ML-based keyphrase extraction and validation

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Oluwamayowa O Amusat, Harshad Hegde, Christopher J Mungall, Anna Giannakou, Neil P Byers, Dan Gunter, Kjiersten Fagnan, Lavanya Ramakrishnan
Database, Volume 2024, 2024, baae093, https://doi.org/10.1093/database/baae093
Published: 27 September 2024
Journal Article

Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies

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Nicolas Matentzoglu, Damien Goutte-Gattat, Shawn Zheng Kai Tan, James P Balhoff, Seth Carbon, Anita R Caron, William D Duncan, Joe E Flack, Melissa Haendel, Nomi L Harris, William R Hogan, Charles Tapley Hoyt, Rebecca C Jackson, HyeongSik Kim, Huseyin Kir, Martin Larralde, Julie A McMurry, James A Overton, Bjoern Peters … David Osumi-Sutherland
Database, Volume 2022, 2022, baac087, https://doi.org/10.1093/database/baac087
Published: 08 October 2022
Journal Article

A roadmap for the functional annotation of protein families: a community perspective

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Valérie de Crécy-lagard, Rocio Amorin de Hegedus, Cecilia Arighi, Jill Babor, Alex Bateman, Ian Blaby, Crysten Blaby-Haas, Alan J Bridge, Stephen K Burley, Stacey Cleveland, Lucy J Colwell, Ana Conesa, Christian Dallago, Antoine Danchin, Anita de Waard, Adam Deutschbauer, Raquel Dias, Yousong Ding, Gang Fang … Jin Xu
Database, Volume 2022, 2022, baac062, https://doi.org/10.1093/database/baac062
Published: 12 August 2022
Journal Article

A Simple Standard for Sharing Ontological Mappings (SSSOM)

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Nicolas Matentzoglu, James P Balhoff, Susan M Bello, Chris Bizon, Matthew Brush, Tiffany J Callahan, Christopher G Chute, William D Duncan, Chris T Evelo, Davera Gabriel, John Graybeal, Alasdair Gray, Benjamin M Gyori, Melissa Haendel, Henriette Harmse, Nomi L Harris, Ian Harrow, Harshad B Hegde, Amelia L Hoyt … Christopher J Mungall
Database, Volume 2022, 2022, baac035, https://doi.org/10.1093/database/baac035
Published: 25 May 2022
Journal Article

OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies

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Rebecca Jackson, Nicolas Matentzoglu, James A Overton, Randi Vita, James P Balhoff, Pier Luigi Buttigieg, Seth Carbon, Melanie Courtot, Alexander D Diehl, Damion M Dooley, William D Duncan, Nomi L Harris, Melissa A Haendel, Suzanna E Lewis, Darren A Natale, David Osumi-Sutherland, Alan Ruttenberg, Lynn M Schriml, Barry Smith … Bjoern Peters
Database, Volume 2021, 2021, baab069, https://doi.org/10.1093/database/baab069
Published: 26 October 2021
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

FAIR principles and the IEDB: short-term improvements and a long-term vision of OBO-foundry mediated machine-actionable interoperability

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Randi Vita, James A Overton, Christopher J Mungall, Alessandro Sette, Bjoern Peters
Database, Volume 2018, 2018, bax105, https://doi.org/10.1093/database/bax105
Published: 19 February 2018
Journal Article

Modeling biochemical pathways in the gene ontology

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David P. Hill, Peter D’Eustachio, Tanya Z. Berardini, Christopher J. Mungall, Nikolai Renedo, Judith A. Blake
Database, Volume 2016, 2016, baw126, https://doi.org/10.1093/database/baw126
Published: 01 September 2016
Journal Article

Standardized description of scientific evidence using the Evidence Ontology (ECO)

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Marcus C. Chibucos, Christopher J. Mungall, Rama Balakrishnan, Karen R. Christie, Rachael P. Huntley, Owen White, Judith A. Blake, Suzanna E. Lewis, Michelle Giglio
Database, Volume 2014, 2014, bau075, https://doi.org/10.1093/database/bau075
Published: 21 July 2014