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

Seminár:
Utorok 17:20
 
Vyučujúci:
doc. Mgr. Tomáš Vinař, PhD M-163,
 
 
doc. Mgr. Broňa Brejová, PhD M-163,
 
 
Oznamy:
Seminár začína 16.2.2021 prvou prezentáciou. Semináre budú prebiehať online na linke https://meet.google.com/czn-mpfg-ipx
 
Zoznam prezentácií:
16.2.2021
Tomáš Vinař

Hongru Wang, Lenore Pipes, Rasmus Nielsen. Synonymous mutations and the molecular evolution of SARS-CoV-2 origins. Virus Evol, 2021. link

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. link

23.2.2021
Askar Gafurov

Katrina A. Lythgoe. Within-host genomics of SARS-CoV-2. Technical Report bioRxiv, 2020. link

2.3.2021
seminár nebude
9.3.2021
Dominika Szabová

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. link

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. link

16.3.2021
Lukás Kiss

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, link

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, 2021. link

23.3.2021
Aďo Goga

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, 2020. link

30.3.2021
Samo Molčan

Jana Ebler et al.. Pangenome-based genome inference. Technical Report 10.1101/2020.11.11.378133, bioRxiv, 2020. link

6.4.2021
Matej Fedor

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, link

13.4.2021
Tomáš Jarábek

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. link

20.4.2021
Andrej Baláž

Travis Gagie, Giovanni Manzini, Jouni Siren. Wheeler graphs: A framework for BWT-based data structures. Theoretical Computer Science, link

27.4.2021
4.5.2021
11.5.2021
Dominika Mihálová

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, 2016. link