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dc.creatorBaker, Dannon
dc.creatorvan den Beek, Marius
dc.creatorBlankenberg, Daniel
dc.creatorBouvier, Dave
dc.creatorChilton, John
dc.creatorCoraor, Nate
dc.creatorCoppens, Frederik
dc.creatorEguinoa, Ignacio
dc.creatorGladman, Simon
dc.creatorGrüning, Björn
dc.creatorKeener, Nicholas
dc.creatorLarivière, Delphine
dc.creatorLonie, Andrew
dc.creatorPond, Sergei
dc.creatorMaier, Wolfgang
dc.creatorNekrutenko, Anton
dc.creatorTaylor, James
dc.creatorWeaver, Steven
dc.date.accessioned2020-06-11T19:07:17Z
dc.date.available2020-06-11T19:07:17Z
dc.date.issued2020-08-13
dc.identifier.citationBaker D, van den Beek M, Blankenberg D, Bouvier D, Chilton J, Coraor N, et al. (2020) No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics. PLoS Pathog 16(8): e1008643. https://doi.org/10.1371/journal.ppat.1008643
dc.identifier.issn1553-7374
dc.identifier.doihttp://dx.doi.org/10.34944/dspace/214
dc.identifier.urihttp://hdl.handle.net/20.500.12613/230
dc.description.abstractThe current state of much of the Wuhan pneumonia virus (COVID-19) research shows a regrettable lack of data sharing and considerable analytical obfuscation. This impedes global research cooperation, which is essential for tackling public health emergencies, and requires unimpeded access to data, analysis tools, and computational infrastructure. Here we show that community efforts in developing open analytical software tools over the past ten years, combined with national investments into scientific computational infrastructure, can overcome these deficiencies and provide an accessible platform for tackling global health emergencies in an open and transparent manner. Specifically, we use all COVID-19 genomic data available in the public domain so far to (1) underscore the importance of access to raw data and to (2) demonstrate that existing community efforts in curation and deployment of biomedical software can reliably support rapid, reproducible research during global health crises. All our analyses are fully documented at https://github.com/galaxyproject/SARS-CoV-2.
dc.format.extent8 pages
dc.languageEnglish
dc.language.isoeng
dc.relation.ispartofCOVID-19 Research
dc.relation.haspartPLOS Pathogens, Vol. 16, Issue 8
dc.relation.isreferencedbyPLOS
dc.rightsAttribution CC BY
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectSARS CoV 2
dc.subjectGenome analysis
dc.subjectGenomics
dc.subjectCOVID 19
dc.subjectSARS
dc.subjectTransmissible gastroenteritis coronavirus
dc.subjectOpen source software
dc.subjectPreprocessing
dc.titleNo more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics
dc.typeText
dc.type.genreJournal article
dc.description.departmentBiology
dc.relation.doihttps://doi.org/10.1371/journal.ppat.1008643
dc.ada.noteFor Americans with Disabilities Act (ADA) accommodation, including help with reading this content, please contact scholarshare@temple.edu
dc.description.schoolcollegeTemple University. College of Science and Technology
dc.creator.orcid0000-0003-4817-4029
dc.creator.orcid0000-0002-6931-7191
dc.temple.creatorPond, Sergei L Kosakovsky
dc.temple.creatorWeaver, Steven
refterms.dateFOA2020-06-11T19:07:17Z


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