The Canadian VirusSeq Data Portal & Duotang: open resources for SARS-CoV-2 viral sequences and genomic epidemiology

Autor: Gill, Erin E., Jia, Baofeng, Murall, Carmen Lia, Poujol, Raphaël, Anwar, Muhammad Zohaib, John, Nithu Sara, Richardsson, Justin, Hobb, Ashley, Olabode, Abayomi S., Lepsa, Alexandru, Duggan, Ana T., Tyler, Andrea D., N'Guessan, Arnaud, Kachru, Atul, Chan, Brandon, Yoshida, Catherine, Yung, Christina K., Bujold, David, Andric, Dusan, Su, Edmund, Griffiths, Emma J., Van Domselaar, Gary, Jolly, Gordon W., Ward, Heather K. E., Feher, Henrich, Baker, Jared, Simpson, Jared T., Uddin, Jaser, Ragoussis, Jiannis, Eubank, Jon, Fritz, Jörg H., Gálvez, José Héctor, Fang, Karen, Cullion, Kim, Rivera, Leonardo, Xiang, Linda, Croxen, Matthew A., Shiell, Mitchell, Prystajecky, Natalie, Quirion, Pierre-Olivier, Bajari, Rosita, Rich, Samantha, Mubareka, Samira, Moreira, Sandrine, Cain, Scott, Sutcliffe, Steven G., Kraemer, Susanne A., Joly, Yann, Alturmessov, Yelizar, consortium, CPHLN, consortium, CanCOGeN, Academic, VirusSeq Data Portal, network, Health, Fiume, Marc, Snutch, Terrance P., Bell, Cindy, Lopez-Correa, Catalina, Hussin, Julie G., Joy, Jeffrey B., Colijn, Caroline, Gordon, Paul M. K., Hsiao, William W. L., Poon, Art F. Y., Knox, Natalie C., Courtot, Mélanie, Stein, Lincoln, Otto, Sarah P., Bourque, Guillaume, Shapiro, B. Jesse, Brinkman, Fiona S. L.

The COVID-19 pandemic led to a large global effort to sequence SARS-CoV-2 genomes from patient samples to track viral evolution and inform public health response. Millions of SARS-CoV-2 genome sequences have been deposited in global public repositori

Externí odkaz: http://arxiv.org/abs/2405.04734

How Far Can Camels Go? Exploring the State of Instruction Tuning on Open Resources

Autor: Wang, Yizhong, Ivison, Hamish, Dasigi, Pradeep, Hessel, Jack, Khot, Tushar, Chandu, Khyathi Raghavi, Wadden, David, MacMillan, Kelsey, Smith, Noah A., Beltagy, Iz, Hajishirzi, Hannaneh

In this work we explore recent advances in instruction-tuning language models on a range of open instruction-following datasets. Despite recent claims that open models can be on par with state-of-the-art proprietary models, these claims are often acc

Externí odkaz: http://arxiv.org/abs/2306.04751

Making Open Resources Discoverable: Collaborative Approaches for Enhanced Access.

Autor: Jia Mi¹

Publikováno v: International Journal of Librarianship. 2024, Vol. 8 Issue 4, p17-29. 13p.

More than Free Textbooks: Labor and Pedagogy in Implementing Open Resources in a Trigonometry Course.

Autor: Holloway, Caleb¹ caleb.holloway1@mail.wvu.edu

Publikováno v: Journal of Humanistic Mathematics. Jul2023, Vol. 13 Issue 2, p368-388. 21p.

The Canadian VirusSeq Data Portal & Duotang: open resources for SARS-CoV-2 viral sequences and genomic epidemiology.

Autor: Gill EE; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada., Jia B; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada., Murall CL; Department of Microbiology and Immunology, McGill University, Montreal, QC, Canada.; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Poujol R; Research Centre, Montréal Heart Institute, Montréal, QC, Canada., Anwar MZ; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada., John NS; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada., Richardsson J; Ontario Institute for Cancer Research, Toronto, ON, Canada., Hobb A; DNAstack, Toronto, ON, Canada., Olabode AS; Department of Pathology and Laboratory Medicine, Western University, ON Canada., Lepsa A; Ontario Institute for Cancer Research, Toronto, ON, Canada., Duggan AT; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Tyler AD; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., N'Guessan A; Département de Biochimie et Médecine Moléculaire, Université de Montréal, Montreal, QC, Canada.; McGill Genome Centre, McGill University, Montréal, QC, Canada., Kachru A; Ontario Institute for Cancer Research, Toronto, ON, Canada., Chan B; Ontario Institute for Cancer Research, Toronto, ON, Canada., Yoshida C; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Yung CK; Indoc Systems, Toronto, ON, Canada.; Ontario Institute for Cancer Research, Toronto, ON, Canada., Bujold D; Department of Human Genetics, McGill University, Montréal, QC, Canada.; Canadian Centre for Computational Genomics, Montréal, QC, Canada., Andric D; Ontario Institute for Cancer Research, Toronto, ON, Canada., Su E; Ontario Institute for Cancer Research, Toronto, ON, Canada., Griffiths EJ; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada., Van Domselaar G; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Jolly GW; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Ward HKE; DNAstack, Toronto, ON, Canada., Feher H; Ontario Institute for Cancer Research, Toronto, ON, Canada., Baker J; Ontario Institute for Cancer Research, Toronto, ON, Canada., Simpson JT; Ontario Institute for Cancer Research, Toronto, ON, Canada., Uddin J; Ontario Institute for Cancer Research, Toronto, ON, Canada., Ragoussis J; McGill Genome Centre, McGill University, Montréal, QC, Canada., Eubank J; Ontario Institute for Cancer Research, Toronto, ON, Canada., Fritz JH; Department of Microbiology and Immunology, McGill Research Center on Complex Traits (MRCCT), Dahdaleh Institute of Genomic Medicine (DIGM), McGill University, Montréal, QC, Canada., Gálvez JH; Ontario Institute for Cancer Research, Toronto, ON, Canada., Fang K; DNAstack, Toronto, ON, Canada., Cullion K; Ontario Institute for Cancer Research, Toronto, ON, Canada., Rivera L; Ontario Institute for Cancer Research, Toronto, ON, Canada., Xiang L; Ontario Institute for Cancer Research, Toronto, ON, Canada., Croxen MA; Alberta Precision Laboratories, Public Health Laboratory, Edmonton, AB, Canada.; Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, AB, Canada.; Li Ka Shing Institute of Virology, University of Alberta, Edmonton, AB, Canada.; Women and Children's Health Research Institute, University of Alberta, Edmonton, AB, Canada., Shiell M; Ontario Institute for Cancer Research, Toronto, ON, Canada., Prystajecky N; British Columbia Centre for Disease Control Public Health Laboratory, Vancouver, BC Canada.; Department of Pathology and Laboratory Medicine, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada., Quirion PO; Canadian Centre for Computational Genomics, Montréal, QC, Canada., Bajari R; Ontario Institute for Cancer Research, Toronto, ON, Canada., Rich S; Ontario Institute for Cancer Research, Toronto, ON, Canada., Mubareka S; Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada., Moreira S; Université de Montréal, Montréal, QC, Canada., Cain S; Ontario Institute for Cancer Research, Toronto, ON, Canada., Sutcliffe SG; Department of Microbiology and Immunology, McGill University, Montréal, QC, Canada., Kraemer SA; Aquatic Contaminants Research Division, ECCC, Montréal, QC, Canada.; McGill Genome Centre, McGill University, Montréal, QC, Canada., Joly Y; Centre of Genomics and Policy, McGill University, Montréal, QC, Canada., Alturmessov Y; Ontario Institute for Cancer Research, Toronto, ON, Canada., Consortium C; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada.; Department of Microbiology and Immunology, McGill University, Montreal, QC, Canada.; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada.; Research Centre, Montréal Heart Institute, Montréal, QC, Canada.; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada.; Ontario Institute for Cancer Research, Toronto, ON, Canada.; DNAstack, Toronto, ON, Canada.; Department of Pathology and Laboratory Medicine, Western University, ON Canada.; Département de Biochimie et Médecine Moléculaire, Université de Montréal, Montreal, QC, Canada.; McGill Genome Centre, McGill University, Montréal, QC, Canada.; Indoc Systems, Toronto, ON, Canada.; Department of Human Genetics, McGill University, Montréal, QC, Canada.; Canadian Centre for Computational Genomics, Montréal, QC, Canada.; Department of Microbiology and Immunology, McGill Research Center on Complex Traits (MRCCT), Dahdaleh Institute of Genomic Medicine (DIGM), McGill University, Montréal, QC, Canada.; Alberta Precision Laboratories, Public Health Laboratory, Edmonton, AB, Canada.; Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, AB, Canada.; Li Ka Shing Institute of Virology, University of Alberta, Edmonton, AB, Canada.; Women and Children's Health Research Institute, University of Alberta, Edmonton, AB, Canada.; British Columbia Centre for Disease Control Public Health Laboratory, Vancouver, BC Canada.; Department of Pathology and Laboratory Medicine, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.; Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.; Université de Montréal, Montréal, QC, Canada.; Department of Microbiology and Immunology, McGill University, Montréal, QC, Canada.; Aquatic Contaminants Research Division, ECCC, Montréal, QC, Canada.; Centre of Genomics and Policy, McGill University, Montréal, QC, Canada.; Michael Smith Laboratories and Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, BC, Canada.; Genome Canada, 150 Metcalfe Street, Suite 2100, Ottawa, ON, Canada.; Research Centre, Montréal Heart Institute, Montréal, QC, Canada.; Mila-Québec AI institute, Montréal, QC, Canada.; Molecular Epidemiology and Evolutionary Genetics, BC Centre for Excellence in HIV/AIDS, Vancouver, BC, Canada.; Infectious Diseases, Department of Medicine, University of British Columbia, Vancouver, BC, Canada.; Bioinformatics Programme, University of British Columbia, Vancouver, BC, Canada.; Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada.; Centre for Health Genomics and Informatics, University of Calgary, Calgary, AB, Canada.; Department of Medical BioPhysics, University of Toronto, ON, Canada.; Department of Zoology & Biodiversity Research Centre, University of British Columbia, Vancouver BC Canada., Consortium C; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada.; Department of Microbiology and Immunology, McGill University, Montreal, QC, Canada.; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada.; Research Centre, Montréal Heart Institute, Montréal, QC, Canada.; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada.; Ontario Institute for Cancer Research, Toronto, ON, Canada.; DNAstack, Toronto, ON, Canada.; Department of Pathology and Laboratory Medicine, Western University, ON Canada.; Département de Biochimie et Médecine Moléculaire, Université de Montréal, Montreal, QC, Canada.; McGill Genome Centre, McGill University, Montréal, QC, Canada.; Indoc Systems, Toronto, ON, Canada.; Department of Human Genetics, McGill University, Montréal, QC, Canada.; Canadian Centre for Computational Genomics, Montréal, QC, Canada.; Department of Microbiology and Immunology, McGill Research Center on Complex Traits (MRCCT), Dahdaleh Institute of Genomic Medicine (DIGM), McGill University, Montréal, QC, Canada.; Alberta Precision Laboratories, Public Health Laboratory, Edmonton, AB, Canada.; Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, AB, Canada.; Li Ka Shing Institute of Virology, University of Alberta, Edmonton, AB, Canada.; Women and Children's Health Research Institute, University of Alberta, Edmonton, AB, Canada.; British Columbia Centre for Disease Control Public Health Laboratory, Vancouver, BC Canada.; Department of Pathology and Laboratory Medicine, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.; Sunnybrook Research Institute; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.; Université de Montréal, Montréal, QC, Canada.; Department of Microbiology and Immunology, McGill University, Montréal, QC, Canada.; Aquatic Contaminants Research Division, ECCC, Montréal, QC, Canada.; Centre of Genomics and Policy, McGill University, Montréal, QC, Canada.; Michael Smith Laboratories and Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, BC, Canada.; Genome Canada, 150 Metcalfe Street, Suite 2100, Ottawa, ON, Canada.; Research Centre, Montréal Heart Institute, Montréal, QC, Canada.; Mila-Québec AI institute, Montréal, QC, Canada.; Molecular Epidemiology and Evolutionary Genetics, BC Centre for Excellence in HIV/AIDS, Vancouver, BC, Canada.; Infectious Diseases, Department of Medicine, University of British Columbia, Vancouver, BC, Canada.; Bioinformatics Programme, University of British Columbia, Vancouver, BC, Canada.; Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada.; Centre for Health Genomics and Informatics, University of Calgary, Calgary, AB, Canada.; Department of Medical BioPhysics, University of Toronto, ON, Canada.; Department of Zoology & Biodiversity Research Centre, University of British Columbia, Vancouver BC Canada., Fiume M; DNAstack, Toronto, ON, Canada., Snutch TP; Michael Smith Laboratories and Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, BC, Canada., Bell C; Genome Canada, 150 Metcalfe Street, Suite 2100, Ottawa, ON, Canada., Lopez-Correa C; Genome Canada, 150 Metcalfe Street, Suite 2100, Ottawa, ON, Canada., Hussin JG; Département de Biochimie et Médecine Moléculaire, Université de Montréal, Montreal, QC, Canada.; Research Centre, Montréal Heart Institute, Montréal, QC, Canada.; Mila-Québec AI institute, Montréal, QC, Canada., Joy JB; Molecular Epidemiology and Evolutionary Genetics, BC Centre for Excellence in HIV/AIDS, Vancouver, BC, Canada.; Infectious Diseases, Department of Medicine, University of British Columbia, Vancouver, BC, Canada.; Bioinformatics Programme, University of British Columbia, Vancouver, BC, Canada., Colijn C; Department of Mathematics, Simon Fraser University, Burnaby, BC, Canada., Gordon PMK; Centre for Health Genomics and Informatics, University of Calgary, Calgary, AB, Canada., Hsiao WWL; Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, BC, Canada., Poon AFY; Department of Pathology and Laboratory Medicine, Western University, ON Canada., Knox NC; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada., Courtot M; Ontario Institute for Cancer Research, Toronto, ON, Canada.; Department of Medical BioPhysics, University of Toronto, ON, Canada., Stein L; Ontario Institute for Cancer Research, Toronto, ON, Canada., Otto SP; Department of Zoology & Biodiversity Research Centre, University of British Columbia, Vancouver BC Canada., Bourque G; Department of Human Genetics, McGill University, Montréal, QC, Canada.; Canadian Centre for Computational Genomics, Montréal, QC, Canada., Shapiro BJ; Department of Microbiology and Immunology, McGill University, Montréal, QC, Canada., Brinkman FSL; Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada.

Publikováno v: ArXiv [ArXiv] 2024 May 08. Date of Electronic Publication: 2024 May 08.