Classic Papers on Algorithms in Bioinformatics (2S)

ekvv TBA Bohnenkämper Summer 2023 (Monday, 16-18 in U10-146)


The students will read influential research papers on Algorithms in Bioinformatics from earlier periods. The focus this semester is going to be on Comparative Genomics. Each student will select one such paper and give a preferably concise oral presentation (~ 25 min). They will subsequently write a summary of their chosen paper. Whether the summary passes or not is decided primarily on its clarity and completeness, not its length.

Both the presentation and the summary are requested to be in English as it is the dominant language of the research in this area.

In the initial sessions after the assignment of topics, we will discuss the papers as a group and resolve any questions or difficulties together. Optionally (depending on the experience of the students), we will also cover an aspect of scientific reading and writing in each of these sessions.

The class will be held in person in U10-146 as long as the current situation is favorable enough. On student request or resulting from a change in the situation, the class may be transferred to a hybrid or Zoom class.


  • The written summary is to be handed in at most two weeks after the presentation.
  • If you are unsure whether your presentation fits the format, you should make an appointment with me approximately one week before the presentation.


Date Topic presented by
10.04. (Leonard away)
17.04. (Leonard away)
24.04. Organizational Matters/Reading Articles Leonard
01.05. (May day)
08.05. Topic Selection/Writing/Talking Leonard

Suggested Literature

Stringology in Bioinformatics

Reversal Model

DCJ (-Indel) Model

Breakpoint and other distances

Your own ideas?