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Journal Article

A review on Gene Ontology evaluations

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Borja Pitarch, Mónica Chagoyen, Juan A G Ranea, Florencio Pazos
Database, Volume 2025, 2025, baaf058, https://doi.org/10.1093/database/baaf058
Published: 24 September 2025
Journal Article

Gene Loss DB: a curated database for gene loss in mammals—the cetacean collection

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Gonçalo Espregueira Themudo, Raquel Ruivo, Raul Valente, Nádia Artilheiro, Diogo Oliveira, Inês Amorim, Bernardo Pinto, Luís Filipe C Castro, Sergio Fernandes, Mónica Lopes-Marques
Database, Volume 2025, 2025, baaf065, https://doi.org/10.1093/database/baaf065
Published: 24 September 2025
Journal Article

SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population

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José M Moreno-Cabrera, Lidia Feliubadaló, Marta Pineda, Patricia Prada-Dacasa, Mireia Ramos-Muntada, Jesús Del Valle, Joan Brunet, Bernat Gel, María Currás-Freixes, Bruna Calsina, Milton E Salazar-Hidalgo, Marta Rodríguez-Balada, Bàrbara Roig, Sara Fernández-Castillejo, Mercedes Durán Domínguez, Mónica Arranz Ledo, Mar Infante Sanz, Adela Castillejo, Estela Dámaso … Conxi Lázaro
Database, Volume 2024, 2024, baae055, https://doi.org/10.1093/database/baae055
Published: 04 July 2024
Journal Article

CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literature

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Jorge Novoa, Javier López-Ibáñez, Mónica Chagoyen, Juan A G Ranea, Florencio Pazos
Database, Volume 2024, 2024, baae025, https://doi.org/10.1093/database/baae025
Published: 02 April 2024
Journal Article

Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium

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Jennifer L Clarke, Laurel D Cooper, Monica F Poelchau, Tanya Z Berardini, Justin Elser, Andrew D Farmer, Stephen Ficklin, Sunita Kumari, Marie-Angélique Laporte, Rex T Nelson, Rie Sadohara, Peter Selby, Anne E Thessen, Brandon Whitehead, Taner Z Sen
Database, Volume 2023, 2023, baad076, https://doi.org/10.1093/database/baad076
Published: 16 November 2023
Journal Article

Challenges and opportunities for mining adverse drug reactions: perspectives from pharma, regulatory agencies, healthcare providers and consumers

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Graciela Gonzalez-Hernandez, Martin Krallinger, Monica Muñoz, Raul Rodriguez-Esteban, Özlem Uzuner, Lynette Hirschman
Database, Volume 2022, 2022, baac071, https://doi.org/10.1093/database/baac071
Published: 02 September 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

MetaCOXI: an integrated collection of metazoan mitochondrial cytochrome oxidase subunit-I DNA sequences

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Bachir Balech, Anna Sandionigi, Marinella Marzano, Graziano Pesole, Monica Santamaria
Database, Volume 2022, 2022, baab084, https://doi.org/10.1093/database/baab084
Published: 05 February 2022
Journal Article

Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery

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Jean-Philippe F Gourdine, Matthew H Brush, Nicole A Vasilevsky, Kent Shefchek, Sebastian Köhler, Nicolas Matentzoglu, Monica C Munoz-Torres, Julie A McMurry, Xingmin Aaron Zhang, Peter N Robinson, Melissa A Haendel
Database, Volume 2019, 2019, baz114, https://doi.org/10.1093/database/baz114
Published: 18 November 2019
Journal Article

Improved annotation of the insect vector of citrus greening disease: biocuration by a diverse genomics community

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Surya Saha, Prashant S Hosmani, Krystal Villalobos-Ayala, Sherry Miller, Teresa Shippy, Mirella Flores, Andrew Rosendale, Chris Cordola, Tracey Bell, Hannah Mann, Gabe DeAvila, Daniel DeAvila, Zachary Moore, Kyle Buller, Kathryn Ciolkevich, Samantha Nandyal, Robert Mahoney, Joshua Van Voorhis, Megan Dunlevy … Susan J Brown
Database, Volume 2019, 2019, baz035, https://doi.org/10.1093/database/baz035
Published: 01 March 2019
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

Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data

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Jasmine Y Young, John D Westbrook, Zukang Feng, Ezra Peisach, Irina Persikova, Raul Sala, Sanchayita Sen, John M Berrisford, G Jawahar Swaminathan, Thomas J Oldfield, Aleksandras Gutmanas, Reiko Igarashi, David R Armstrong, Kumaran Baskaran, Li Chen, Minyu Chen, Alice R Clark, Luigi Di Costanzo, Dimitris Dimitropoulos … Stephen K Burley
Database, Volume 2018, 2018, bay002, https://doi.org/10.1093/database/bay002
Published: 07 February 2018
Journal Article

Improved annotation of the insect vector of citrus greening disease: biocuration by a diverse genomics community

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Surya Saha, Prashant S Hosmani, Krystal Villalobos-Ayala, Sherry Miller, Teresa Shippy, Mirella Flores, Andrew Rosendale, Chris Cordola, Tracey Bell, Hannah Mann, Gabe DeAvila, Daniel DeAvila, Zachary Moore, Kyle Buller, Kathryn Ciolkevich, Samantha Nandyal, Robert Mahoney, Joshua Van Voorhis, Megan Dunlevy … Susan J Brown
Database, Volume 2017, 2017, bax032, https://doi.org/10.1093/database/bax032
Published: 30 June 2017
Journal Article

WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata

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Tim E. Putman, Sebastien Lelong, Sebastian Burgstaller-Muehlbacher, Andra Waagmeester, Colin Diesh, Nathan Dunn, Monica Munoz-Torres, Gregory S. Stupp, Chunlei Wu, Andrew I. Su, Benjamin M. Good
Database, Volume 2017, 2017, bax025, https://doi.org/10.1093/database/bax025
Published: 24 March 2017
Journal Article

Small molecule annotation for the Protein Data Bank

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Sanchayita Sen, Jasmine Young, John M. Berrisford, Minyu Chen, Matthew J. Conroy, Shuchismita Dutta, Luigi Di Costanzo, Guanghua Gao, Sutapa Ghosh, Brian P. Hudson, Reiko Igarashi, Yumiko Kengaku, Yuhe Liang, Ezra Peisach, Irina Persikova, Abhik Mukhopadhyay, Buvaneswari Coimbatore Narayanan, Gaurav Sahni, Junko Sato … Marina A. Zhuravleva
Database, Volume 2014, 2014, bau116, https://doi.org/10.1093/database/bau116
Published: 23 November 2014
Journal Article

DATABASE, The Journal of Biological Databases and Curation, is now the official journal of the International Society for Biocuration

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Pascale Gaudet, Monica Munoz-Torres, Marc Robinson-Rechavi, Teresa Attwood, Alex Bateman, J. Michael Cherry, Renate Kania, Claire O'Donovan, Chisato Yamasaki
Database, Volume 2013, 2013, bat077, https://doi.org/10.1093/database/bat077
Published: 06 December 2013
Journal Article

Recent advances in biocuration: Meeting Report from the fifth International Biocuration Conference

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Pascale Gaudet, Cecilia Arighi, Frederic Bastian, Alex Bateman, Judith A. Blake, Michael J. Cherry, Peter D’Eustachio, Robert Finn, Michelle Giglio, Lynette Hirschman, Renate Kania, William Klimke, Maria Jesus Martin, Ilene Karsch-Mizrachi, Monica Munoz-Torres, Darren Natale, Claire O’Donovan, Francis Ouellette, Kim D. Pruitt … Raja Mazumder
Database, Volume 2012, 2012, bas036, https://doi.org/10.1093/database/bas036
Published: 29 October 2012