The Translational Data Catalog - discoverable biomedical datasets

Autor: Danielle Welter, Philippe Rocca-Serra, Valentin Grouès, Nirmeen Sallam, François Ancien, Abetare Shabani, Saeideh Asariardakani, Pinar Alper, Soumyabrata Ghosh, Tony Burdett, Susanna-Assunta Sansone, Wei Gu, Venkata Satagopam

Publikováno v: Scientific Data, Vol 10, Iss 1, Pp 1-9 (2023)

Abstract The discoverability of datasets resulting from the diverse range of translational and biomedical projects remains sporadic. It is especially difficult for datasets emerging from pre-competitive projects, often due to the legal constraints of

Externí odkaz: https://doaj.org/article/41e299f731bd434a903368f64896d95c

The FAIR Cookbook - the essential resource for and by FAIR doers

Autor: Philippe Rocca-Serra, Wei Gu, Vassilios Ioannidis, Tooba Abbassi-Daloii, Salvador Capella-Gutierrez, Ishwar Chandramouliswaran, Andrea Splendiani, Tony Burdett, Robert T. Giessmann, David Henderson, Dominique Batista, Ibrahim Emam, Yojana Gadiya, Lucas Giovanni, Egon Willighagen, Chris Evelo, Alasdair J. G. Gray, Philip Gribbon, Nick Juty, Danielle Welter, Karsten Quast, Paul Peeters, Tom Plasterer, Colin Wood, Eelke van der Horst, Dorothy Reilly, Herman van Vlijmen, Serena Scollen, Allyson Lister, Milo Thurston, Ramon Granell, the FAIR Cookbook Contributors, Susanna-Assunta Sansone

Publikováno v: Scientific Data, Vol 10, Iss 1, Pp 1-12 (2023)

Abstract The notion that data should be Findable, Accessible, Interoperable and Reusable, according to the FAIR Principles, has become a global norm for good data stewardship and a prerequisite for reproducibility. Nowadays, FAIR guides data policy a

Externí odkaz: https://doaj.org/article/ee1aae4367004e42bfdd9ed8a262bd13

A standardized framework for representation of ancestry data in genomics studies, with application to the NHGRI-EBI GWAS Catalog

Autor: Joannella Morales, Danielle Welter, Emily H. Bowler, Maria Cerezo, Laura W. Harris, Aoife C. McMahon, Peggy Hall, Heather A. Junkins, Annalisa Milano, Emma Hastings, Cinzia Malangone, Annalisa Buniello, Tony Burdett, Paul Flicek, Helen Parkinson, Fiona Cunningham, Lucia A. Hindorff, Jacqueline A. L. MacArthur

Publikováno v: Genome Biology, Vol 19, Iss 1, Pp 1-10 (2018)

Abstract The accurate description of ancestry is essential to interpret, access, and integrate human genomics data, and to ensure that these benefit individuals from all ancestral backgrounds. However, there are no established guidelines for the repr

Externí odkaz: https://doaj.org/article/b53a242795714ed48bb6d40e8fcf0f44

BPO: the Bioassay Protocol Ontology, a semantic approach to elevate the reusability of AMR-related drug discovery data

Autor: Yojana Gadiya, Rakel Arrazuria, Jon Ulf Hansen, Danielle Welter, Fuqi Xu, Philippe Rocca-Serra, Nick Juty, Philip Gribbon

Publikováno v: Yojana Gadiya

To enhance the reproducibility and usability of bioassays in antimicrobial resistance (AMR) associated antibacterial drug discovery and development, there is an increasing need for standardisation of bioassay metadata into machine-readable formats. S

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::294c6d99f7093ef4f80f690dbea38fee

Mondo: Unifying diseases for the world, by the world

Autor: Nicole A Vasilevsky, Nicolas A Matentzoglu, Sabrina Toro, Joseph E Flack, Harshad Hegde, Deepak R Unni, Gioconda F Alyea, Joanna S Amberger, Larry Babb, James P Balhoff, Taylor I Bingaman, Gully A Burns, Orion J Buske, Tiffany J Callahan, Leigh C Carmody, Paula Carrio Cordo, Lauren E Chan, George S Chang, Sean L Christiaens, Michel Dumontier, Laura E Failla, May J Flowers, H. Alpha Garrett, Jennifer L Goldstein, Dylan Gration, Tudor Groza, Marc Hanauer, Nomi L Harris, Jason A Hilton, Daniel S Himmelstein, Charles Tapley Hoyt, Megan S Kane, Sebastian Köhler, David Lagorce, Abbe Lai, Martin Larralde, Antonia Lock, Irene López Santiago, Donna R Maglott, Adriana J Malheiro, Birgit H M Meldal, Monica C Munoz-Torres, Tristan H Nelson, Frank W Nicholas, David Ochoa, Daniel P Olson, Tudor I Oprea, David Osumi-Sutherland, Helen Parkinson, Zoë May Pendlington, Ana Rath, Heidi L Rehm, Lyubov Remennik, Erin R Riggs, Paola Roncaglia, Justyne E Ross, Marion F Shadbolt, Kent A Shefchek, Morgan N Similuk, Nicholas Sioutos, Damian Smedley, Rachel Sparks, Ray Stefancsik, Ralf Stephan, Andrea L Storm, Doron Stupp, Gregory S Stupp, Jagadish Chandrabose Sundaramurthi, Imke Tammen, Darin Tay, Courtney L Thaxton, Eloise Valasek, Jordi Valls-Margarit, Alex H Wagner, Danielle Welter, Patricia L Whetzel, Lori L Whiteman, Valerie Wood, Colleen H Xu, Andreas Zankl, Xingmin Aaron Zhang, Christopher G Chute, Peter N Robinson, Christopher J Mungall, Ada Hamosh, Melissa A Haendel

There are thousands of distinct disease entities and concepts, each of which are known by different and sometimes contradictory names. The lack of a unified system for managing these entities poses a major challenge for both machines and humans that

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::eb95e9f275c4c5ac6590aa22f6896dbb
https://doi.org/10.1101/2022.04.13.22273750