Original title: Updates to the Alliance of Genome Resources Central Infrastructure Alliance of Genome Resources Consortium
Authors: Suzanne A. Aleksander,Anna V. Anagnostopoulos,Giulia Antonazzo,Valerio Arnaboldi,Helen Attrill,Andrés Becerra,Susan M. Bello,Olin Blodgett,Yvonne M. Bradford,Carol J. Bult,Scott Cain,Brian R. Calvi,Seth Carbon,Juancarlos Chan,Wen J. Chen,J. Michael Cherry,Jaehyoung Cho,Madeline A. Crosby,Jeffrey L. De Pons,Peter D’Eustachio,Stavros Diamantakis,Mary E. Dolan,Gilberto dos Santos,Sarah Dyer,Dustin Ebert,Stacia R. Engel,David Fashena,Malcolm Fisher,Saoirse Foley,Adam C. Gibson,Varun R. Gollapally,L. Sian Gramates,Christian A. Grove,Paul Hale,Todd Harris,G. Thomas Hayman,Yanhui Hu,Christina James-Zorn,Kamran Karimi,Kalpana Karra,Ranjana Kishore,Anne E. Kwitek,Stanley J. F. Laulederkind,Raymond Lee,Ian Longden,Manuel Luypaert,Nicholas Markarian,Steven J. Marygold,Beverley Matthews,Monica S. McAndrews,Gillian Millburn,Stuart Miyasato,Howie Motenko,Sierra Moxon,Hans-Michael Muller,Christopher J. Mungall,Anushya Muruganujan,Tremayne Mushayahama,Robert S. Nash,Paulo Nuin,Holly Paddock,Troy Pells,Norbert Perrimon,Christian Pich,Mark Quinton-Tulloch,Daniela Raciti,Sridhar Ramachandran,Joel E. Richardson,Susan Russo Gelbart,Leyla Ruzicka,Gary Schindelman,David R. Shaw,Gavin Sherlock,Ajay Shrivatsav,Amy Singer,Constance M. Smith,Cynthia L. Smith,Jennifer R. Smith,Lincoln Stein,Paul W. Sternberg,Christopher J. Tabone,Paul D. Thomas,Ketaki Thorat,Jyothi Thota,Monika Tomczuk,Vitor Trovisco,Marek A. Tutaj,Jose-Maria Urbano,Kimberly Van Auken,Ceri E. Van Slyke,Peter D. Vize,Qinghua Wang,Shuai Weng,Monte Westerfield,Laurens G. Wilming,Edith D. Wong,Adam Wright,Karen Yook,Pinglei Zhou,Aaron Zorn,Mark Zytkovicz
This article discusses the Alliance of Genome Resources (Alliance), a collaborative effort between multiple knowledge bases focused on the genetics and genomics of various model organisms. These knowledge bases are connected to their respective research communities and share a centralized software infrastructure.
The Alliance currently includes several model organisms, such as yeast, worms, flies, zebrafish, frogs, mice, rats, and the Gene Ontology Consortium. The goal of the project is to consolidate and analyze genetic knowledge, making it accessible to the scientific community through a web portal, direct downloads, and APIs.
Over the past two years, the Alliance has made significant developments. They have created tools for browsing genomes, downloading sequences, analyzing complex data, visualizing pathways, searching literature, and comparing sequences. Interactive data tables and a table of paralogs have also been added for a more user-friendly experience.
To cater to individual model organism communities, the Alliance has implemented species-specific “landing pages” and plans to add disease-specific portals in the future. They have also established a common forum for community discussion.
The article further discusses the progress made towards a centralized database for data curation, the underlying data modeling for harmonization, and the integration of Artificial Intelligence and Machine Learning (AI/ML) in their literature curation system.
Overall, the Alliance of Genome Resources is working towards a comprehensive and user-friendly platform for genetic and genomic research.
Original article: https://www.biorxiv.org/content/10.1101/2023.11.20.567935v1