2-AIN-505, 2-AIN-251: Seminar in Bioinformatics (1), (3)
Winter 2022
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

2022-09-21 Adrián Goga	Massimiliano Rossi, Marco Oliva, Ben Langmead, Travis Gagie, Christina Boucher. MONI: A Pangenomic Index for Finding Maximal Exact Matches. Journal of computational biology, 2022. link
2022-09-28 Andrej Baláž	Sebastian Schmidt, Jarno N. Alanko . Eulertigs: Minimum Plain Text Representation of k-mer Sets Without Repetitions in Linear Time. In WABI 2022, 2022. link
2022-10-05 Broňa Brejová	Yoshihiko Suzuki, Gene Myers. Accurate k-mer Classification Using Read Profiles. In WABI 2022, 2022. link
2022-10-12 Jana Černíková	Ragnar Groot Koerkamp, Pesho Ivanov. *Exact global alignment using A with seed heuristic and match pruning**. Technical Report 2022.09.19.508631, bioRxiv, 2022. link
2022-10-19	Video Svante Pääbo: Archaic Genomics, 2022 Linnaeus Lecture, Uppsala University
2022-10-26 Eva	Robert Edgar. Syncmers are more sensitive than minimizers for selecting conserved kmers inbiological sequences. PeerJ, 2021. link Abhinav Dutta, David Pellow, Ron Shamir. Parameterized syncmer schemes improve long-read mapping. Technical Report 2022.01.10.475696, bioRxiv, 2022. link
2022-11-02 Askar	Kristoffer Sahlin. Effective sequence similarity detection with strobemers. Genome research, 2021. link
2022-11-09 Luca Denti	Structural variation discovery in hard-to-call genomic regions using sample-specific strings from accurate long-reads (preprint)
2022-11-16	No seminar
2022-11-23 Klara	Clément Agret, Bastien Cazaux, Antoine Limasset. Toward optimal fingerprint indexing for large scale genomics. Technical Report 2021.11.04.467355, bioRxiv, link
2022-11-30 Alessia	Wontack Han, Haixu Tang, Yuzhen Ye. Locality-Sensitive Hashing-Based k-Mer Clustering for Identification ofDifferential Microbial Markers Related to Host Phenotype. Journal of computational biology : a journal of computational molecular cell biology, 2022. link
2022-12-07 Veronika	Yutong Qiu, Carl Kingsford. The Effect of Genome Graph Expressiveness on the Discrepancy Between Genome Graph Distance and String Set Distance. Technical Report 2022.02.18.481102, bioRxiv, 2022. link
2022-12-14 Juraj	Arun Das, Michael C. Schatz. Sketching and sampling approaches for fast and accurate long read classification. BMC bioinformatics, 2022. link
2023 Matej	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