2-AIN-506, 2-AIN-252: Seminar in Bioinformatics (2), (4)
Summer 2024
Schedule

Time and place:
Wednesday 17:20, I-23 or online in MS Teams.
Instructors:
doc. Mgr. Tomáš Vinař, PhD	M-163,

doc. Mgr. Broňa Brejová, PhD	M-163,

Seminar schedule:
Short talk schedule

2024-02-21 no seminar
2024-02-29 Tomáš Vinař	Genomic data in the All of Us Research Program. Nature, 2024. link
2024-03-06 Filip Kerák	Teshome Tilahun Bizuayehu, Kornel Labun, Martin Jakubec, Kirill Jefimov, Adnan Muhammad Niazi, Eivind Valen. Long-read single-molecule RNA structure sequencing using nanopore. Nucleic acids research, 2022. link
2024-03-13 Alessia Petescia	Jonas A. Sibbesen, Jordan M. Eizenga, Adam M. Novak, Jouni Siren, Xian Chang, Erik Garrison, Benedict Paten. Haplotype-aware pantranscriptome analyses using spliced pangenome graphs. Nature methods, 2023. link
2024-03-20 Juraj Vašut	Xiaojing An, Priyanka Ghosh, Patrick Keppler, Sureyya Emre Kurt, Sriram Krishnamoorthy, Ponnuswamy Sadayappan, Aravind Sukumaran Rajam, Umit V. Catalyurek, Ananth Kalyanaraman. BOA: A partitioned view of genome assembly. iScience, 2022. link
2024-03-27 no seminar
2024-04-03 Marek Kajan	Jennifer Klunk, Tauras P. Vilgalys, Christian E. Demeure, Xiaoheng Cheng, Mari Shiratori, Julien Madej, Remi Beau, Derek Elli, Maria I. Patino, Rebecca Redfern, Sharon N. DeWitte, Julia A. Gamble, Jesper L. Boldsen, Ann Carmichael, Nukhet Varlik, Katherine Eaton, Jean-Christophe Grenier, G. Brian Golding, Alison Devault, Jean-Marie Rouillard, Vania Yotova, Renata Sindeaux, Chun Jimmie Ye, Matin Bikaran, Anne Dumaine, Jessica F. Brinkworth, Dominique Missiakas, Guy A. Rouleau, Matthias Steinrucken, Javier Pizarro-Cerda, Hendrik N. Poinar, Luis B. Barreiro. Evolution of immune genes is associated with the Black Death. Nature, 2022. See also follow-up discussion Barton A. R. et al. . link
2024-04-10 Broňa Brejová	Hussein A. Hejase, Ziyi Mo, Leonardo Campagna, Adam Siepel. A Deep-Learning Approach for Inference of Selective Sweeps from the Ancestral Recombination Graph. Molecular biology and evolution, 2022. link
2024-04-17 Adrián Király	Can Firtina, Nika Mansouri Ghiasi, Joel Lindegger, Gagandeep Singh, Meryem Banu Cavlak, Haiyu Mao, Onur Mutlu. RawHash: enabling fast and accurate real-time analysis of raw nanopore signals for large genomes. Bioinformatics, 2023. link
2024-04-24 Adrián Goga	Vikram S. Shivakumar, Omar Y. Ahmed, Sam Kovaka, Mohsen Zakeri, Ben Langmead. Sigmoni: classification of nanopore signal with a compressed pangenome index. bioRxiv, 2023. link
2024-05-01 no seminar
2024-05-08 no seminar
2024-05-15 Andrej Baláž	Karel Brinda, Leandro Lima, Simone Pignotti, Natalia Quinones-Olvera, Kamil Salikhov, Rayan Chikhi, Gregory Kucherov, Zamin Iqbal, Michael Baym. Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression. bioRxiv, 2023. link