2-AIN-506, 2-AIN-252: Seminar in Bioinformatics (2), (4)
Leto 2023
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

2023-02-15 Matej Fedor	Jens-Uwe Ulrich, Ahmad Lutfi, Kilian Rutzen, Bernhard Y. Renard. ReadBouncer: Precise and Scalable Adaptive Sampling for Nanopore Sequencing. Technical Report 2022.02.01.478636, bioRxiv, 2022. link
2023-02-22 no seminar
2023-03-01 Andrej Baláž	Travis Gagie, Gonzalo Navarro, Nicola Prezza. Fully functional suffix trees and optimal text searching in BWT-runs bounded space. Journal of the ACM, 2020. link
2023-03-08 Askar Gafurov	Fragmentomics
2023-03-15 Veronika Tordová	Lianrong Pu, Ron Shamir. 4CAC: 4-class classification of metagenome assemblies using machine learning and assembly graphs. bioRxiv 2023.01.20.524935, 2023. link
2023-03-22 Eva Herencsárová	Heng Li, Xiaowen Feng, Chong Chu. The design and construction of reference pangenome graphs with minigraph. Genome biology, 2020. link
2023-03-29 Martina Babinská	Julian Padro, Diego N. {De Panis}, Pierre Luisi, Hernan Dopazo, Sergio Szajnman, Esteban Hasson, Ignacio M. Soto. Ortholog genes from cactophilic Drosophila provide insight into human adaptation to hallucinogenic cacti. Sci Rep, 2022. link
2023-04-05 Dávid Barbora	Jun Ma, Manuel Cáceres, Leena Salmela, Veli Mäkinen, Alexandru I. Tomescu. Chaining for Accurate Alignment of Erroneous Long Reads to Acyclic Variation Graphs. Technical Report 2022.01.07.475257, bioRxiv, 2022. link
2023-04-12 Klára Sládečková	Tuukka Norri, Bastien Cazaux, Saska Donges, Daniel Valenzuela, Veli Makinen. Founder Reconstruction Enables Scalable and Seamless Pangenomic Analysis. Bioinformatics, 2021. link
2023-04-19 no seminar
2023-04-26 Alessia Petescia	Timour Baslan, Sam Kovaka, Fritz J. Sedlazeck, Yanming Zhang, Robert Wappel, Sha Tian, Scott W. Lowe, Sara Goodwin, Michael C. Schatz. High resolution copy number inference in cancer using short-molecule nanopore sequencing. Nucleic acids research, 2021. link
2023-05-03 Adrián Goga	Christina Boucher, Dominik Köppl, Herman Perera, Massimiliano Rossi. Accessing the Suffix Array via ϕ-1-Forest. In SPIRE 2022, link
2023-05-10 Juraj Vašut	Marcel Martin, Murray Patterson, Shilpa Garg, Sarah O Fischer, Nadia Pisanti, Gunnar W Klau, Alexander Schöenhuth, Tobias Marschall. WhatsHap: fast and accurate read-based phasing. Technical Report 10.1101/085050, bioRxiv, 2016. link
2023-06-07 Jorge Eduardo Avila Cartes	Encoding biological sequences in the complex space