An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates
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Published:2021-09-03
Issue:
Volume:10
Page:246
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ISSN:2046-1402
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Container-title:F1000Research
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language:en
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Short-container-title:F1000Res
Author:
Mc Cartney Ann M.ORCID, Mahmoud MedhatORCID, Jochum MichaelORCID, Agustinho Daniel PaivaORCID, Zorman Barry, Al Khleifat Ahmad, Dabbaghie Fawaz, K Kesharwani Rupesh, Smolka MoritzORCID, Dawood Moez, Albin Dreycey, Aliyev ElbayORCID, Almabrazi Hakeem, Arslan AhmedORCID, Balaji Advait, Behera Sairam, Billingsley Kimberley, L Cameron DanielORCID, Daw Joyjit, T. Dawson Eric, De Coster Wouter, Du HaoweiORCID, Dunn ChristopherORCID, Esteban Rocio, Jolly Angad, Kalra Divya, Liao ChunxiaoORCID, Liu Yunxi, Lu Tsung-Yu, M Havrilla James, M Khayat Michael, Marin Maximillian, Monlong JeanORCID, Price StephenORCID, Rafael Gener Alejandro, Ren Jingwen, Sagayaradj Sagayamary, Sapoval Nicolae, Sinner Claude, C. Soto DanielaORCID, Soylev Arda, Subramaniyan Arun, Syed Najeeb, Tadimeti Neha, Tater Pamella, Vats Pankaj, Vaughn Justin, Walker Kimberly, Wang Gaojianyong, Zeng QiandongORCID, Zhang ShangzheORCID, Zhao Tingting, Kille Bryce, Biederstedt Evan, Chaisson Mark, English Adam, Kronenberg Zev, J. Treangen Todd, Hefferon Timothy, Chin Chen-Shan, Busby Ben, J Sedlazeck FritzORCID
Abstract
In October 2020, 62 scientists from nine nations worked together remotely in the Second Baylor College of Medicine & DNAnexus hackathon, focusing on different related topics on Structural Variation, Pan-genomes, and SARS-CoV-2 related research. The overarching focus was to assess the current status of the field and identify the remaining challenges. Furthermore, how to combine the strengths of the different interests to drive research and method development forward. Over the four days, eight groups each designed and developed new open-source methods to improve the identification and analysis of variations among species, including humans and SARS-CoV-2. These included improvements in SV calling, genotyping, annotations and filtering. Together with advancements in benchmarking existing methods. Furthermore, groups focused on the diversity of SARS-CoV-2. Daily discussion summary and methods are available publicly at https://github.com/collaborativebioinformatics provides valuable insights for both participants and the research community.
Funder
FWO C3.ai Digital Transformation Institute COVID-19 award Intramural Research Program of the National Library of Medicine The Motor Neurone Disease Association NIH/NICHD Intramural Research Program of NHGRI NIHR Maudsley Biomedical Research Centre NIH NHMRC
Publisher
F1000 Research Ltd
Subject
General Pharmacology, Toxicology and Pharmaceutics,General Immunology and Microbiology,General Biochemistry, Genetics and Molecular Biology,General Medicine
Cited by
1 articles.
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