Contents

In this seminar, we will explore influential research papers on Algorithms in Bioinformatics. We will look at both the ground-breaking (classic) publications from earlier periods, as well as the state-of-the-art cutting-edge modern algorithms. Besides theoretical aspects, we also focus on practical aspects, such as software implementing these algorithms.

Topics include, but are not limited to, stringology in bioinformatics, sequence analysis, breakpoint distances, and other topics the participants find interesting.

Deadlines

Schedule

Date Topic Presenting
2024-10-07 Introduction/Organizational matters/Topic selection
2024-10-14
2024-10-21
2024-10-28 kmer counting Fabian Molls
2024-11-04 Phylogenetics: Maximum likelihood Mathis Wuelperm
2024-11-11 Genome r. Daniel Prib
2024-11-18 Haplotype matching Victoria
2024-11-25 Compression Jasper M.
2024-12-02 suffix arrays Evelin Lanert
2024-12-09 Blast Joyce Abigail Funk
2024-12-16 Barcoding Luca Schmidt
2024-12-23 holidays
2024-12-30 holidays
2025-01-06 holidays
2025-01-13
2025-01-20
2025-01-27 algo presentations

Literature

k-mer counting Deorowicz et al.
Phylogenetics: Neighbor-Joining Saitou & Nei
Genome rearrangement Bergeron et al.
Haplotype matching: PBWT Durbin
Compression Al-Okaily et al.
Suffix ararys Manber & Myers
BLAST Altschul et al.
Barcoding Herbert et al.