2-AIN-506 a 2-AIN-252: Seminár z bioinformatiky (2) a (4)
Leto 2021
Zoznam článkov

• Peter Ebert, Peter A. Audano, Qihui Zhu, Bernardo Rodriguez-Martin, David Porubsky, Marc Jan Bonder, Arvis Sulovari, Jana Ebler, Weichen Zhou, Rebecca {Serra Mari}, Feyza Yilmaz, Xuefang Zhao, PingHsun Hsieh, Joyce Lee, Sushant Kumar, Jiadong Lin, Tobias Rausch, Yu Chen, Jingwen Ren, Martin Santamarina, Wolfram Hops, Hufsah Ashraf, Nelson T. Chuang, Xiaofei Yang, Katherine M. Munson, Alexandra P. Lewis, Susan Fairley, Luke J. Tallon, Wayne E. Clarke, Anna O. Basile, Marta Byrska-Bishop, Andre Corvelo, Uday S. Evani, Tsung-Yu Lu, Mark J. P. Chaisson, Junjie Chen, Chong Li, Harrison Brand, Aaron M. Wenger, Maryam Ghareghani, William T. Harvey, Benjamin Raeder, Patrick Hasenfeld, Allison A. Regier, Haley J. Abel, Ira M. Hall, Paul Flicek, Oliver Stegle, Mark B. Gerstein, Jose M. C. Tubio, Zepeng Mu, Yang I. Li, Xinghua Shi, Alex R. Hastie, Kai Ye, Zechen Chong, Ashley D. Sanders, Michael C. Zody, Michael E. Talkowski, Ryan E. Mills, Scott E. Devine, Charles Lee, Jan O. Korbel, Tobias Marschall, Evan E. Eichler. Haplotype-resolved diverse human genomes and integrated analysis of structuralvariation. Science, 2021.
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• Mark S. Graham et al.. The effect of SARS-CoV-2 variant B.1.1.7 on symptomatology, re-infection and transmissibility. Technical Report 10.1101/2021.01.28.21250680, medRxiv,
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• Robert Challen, Ellen Brooks-Pollock, Jonathan M. Read, Louise Dyson, Krasimira Tsaneva-Atanasova, Leon Danon. Risk of mortality in patients infected with SARS-CoV-2 variant of concern202012/1: matched cohort study. BMJ, 372:n579. 2021.
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• Katharina Jahn, David Dreifuss, Ivan Topolsky, Anina Kull, Pravin Ganesanandamoorthy, Xavier Fernandez-Cassi, Carola Bänziger, Elyse Stachler, Lara Fuhrmann, Kim Philipp Jablonski, Chaoran Chen, Catharine Aquino, Tanja Stadler, Christoph Ort, Tamar Kohn, Timothy R. Julian, Niko Beerenwinkel. Detection of SARS-CoV-2 variants in Switzerland by genomic analysis of wastewater samples. Technical Report 10.1101/2021.01.08.21249379v1, medRxiv, 2021.
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• Susana Posada-Cespedes, David Seifert, Ivan Topolsky, Kim Philipp Jablonski, Karin J. Metzner, Niko Beerenwinkel. V-pipe: a computational pipeline for assessing viral genetic diversity fromhigh-throughput data. Bioinformatics, 2021.
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• Spyros Lytras, Joseph Hughes, Wei Xia, Xiaowei Jiang, David L Robertson. Exploring the natural origins of SARS-CoV-2. Technical Report, bioRxiv 2021.01.22.427830, 2021.
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• Alexander Payne, Nadine Holmes, Thomas Clarke, Rory Munro, Bisrat Debebe, Matthew Loose. Nanopore adaptive sequencing for mixed samples, whole exome capture and targeted panels. Technical Report bioRxiv, 10.1101/2020.02.03.926956,
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• Jana Ebler et al.. Pangenome-based genome inference. Technical Report 10.1101/2020.11.11.378133, bioRxiv, 2020.
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• Karel Brinda, Alanna Callendrello, Kevin C. Ma, Derek R. MacFadden, Themoula Charalampous, Robyn S. Lee, Lauren Cowley, Crista B. Wadsworth, Yonatan H. Grad, Gregory Kucherov, Justin O'Grady, Michael Baym, William P. Hanage. Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing. Nat Microbiol, 5(3):455-464. 2020.
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• Katrina A. Lythgoe. Within-host genomics of SARS-CoV-2. Technical Report bioRxiv, 2020.
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• Hongru Wang, Lenore Pipes, Rasmus Nielsen. Synonymous mutations and the molecular evolution of SARS-CoV-2 origins. Virus Evol, 7(1):veaa098. 2021.
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• Travis Gagie, Giovanni Manzini, Jouni Siren. Wheeler graphs: A framework for BWT-based data structures. Theoretical Computer Science, 698:67-78.
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• Emmanuel Noutahi, Magali Semeria, Manuel Lafond, Jonathan Seguin, Bastien Boussau, Laurent Gueguen, Nadia El-Mabrouk, Eric Tannier. Efficient Gene Tree Correction Guided by Genome Evolution. PLoS One, 11(8):e0159559. 2016.
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