2-AIN-505, 2-AIN-251: Seminar in Bioinformatics (1), (3)
Winter 2023
Schedule

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

doc. Mgr. Broňa Brejová, PhD	M-163,

Seminar schedule:

2023-09-20 no seminar
2023-09-27 Filip Kerák	Tri Dao, Albert Gu, Matthew Eichhorn, Atri Rudra, Christopher Re. Learning Fast Algorithms for Linear Transforms Using Butterfly Factorizations. Technical Report 1903.05895, arxiv, 2020. link
2023-10-04 Marek Kajan	Yanrong Ji, Zhihan Zhou, Han Liu, Ramana V. Davuluri. DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome. Bioinformatics, 2021. link
2023-10-11 Klára Sládečková	Ryan R. Wick, Kathryn E. Holt. Polypolish: Short-read polishing of long-read bacterial genome assemblies. PLoS Comput Biol, 2022. link
2023-10-18 Janka Černíková	Raffaella Rizzi, Stefano Beretta, Murray Patterson, Yuri Pirola, Marco Previtali, Gianluca Della Vedova, Paola Bonizzoni. Overlap graphs and de Bruijn graphs: data structures for de novo genome assembly in the big data era. Quantitative Biology, 2019. link
2023-10-25 Andrej Baláž	Chirag Jain. Coverage-preserving sparsification of overlap graphs for long-read assembly. Bioinformatics, 2023. link
2023-11-01 no seminar
2023-11-08 Juraj Vašut	Andrea Guarracino, Silvia Buonaiuto, Leonardo Gomes {de Lima}, Tamara Potapova, Arang Rhie, Sergey Koren, Boris Rubinstein, Christian Fischer, Jennifer L. Gerton, Adam M. Phillippy, Vincenza Colonna, Erik Garrison. Recombination between heterologous human acrocentric chromosomes. Nature, 2023. link
2023-11-15 Aďo Goga	Gonzalo Navarro. Indexing highly repetitive string collections, part I: repetitiveness measures. ACM Computing Surveys, 2021. link
2023-11-23 no seminar
2023-11-30 Júlia Lichmanová	Peter Ralph, Graham Coop. The geography of recent genetic ancestry across Europe. PLoS biology, 2013. link
2023-12-06 Alessia Petescia	Jorge Miguel Silva, Diogo Pratas, Tania Caetano, Sergio Matos. The complexity landscape of viral genomes. Gigascience, 2022. link
2023-12-13