======DILS Seminar======
=====Summer Semester 2026=====

**Tuesdays, 14:15**

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**Hybrid: U10-116 and online via Zoom.**

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This doctoral research seminar of the DILS graduate school is dedicated to PhD students of the Bielefeld Institute for Bioinformatics Infrastructure (BIBI) and friends. Guests are welcome.

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This semester, we explore the landscape of PhD theses -- comparing monographs to cumulative theses, theses from different fields, theses from different universities/countries etc.

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^ Date ^ Topic ^ Name ^
| 14.04. | Orga | all |
|            | Bayesian modeling | Niccolò |
| 21.04. | Selection & distribution of theses, collecting questions | all |
|            | [[https://theses.gla.ac.uk/74685/|Christie, David Alan (1998) Genome Rearrangement Problems, University of Glasgow.]]  How to present to not having solved a problem (Chapter 3) and motivate a putatively irrelevant result (Chapter 1.1, second last paragraph). | Leonard |
| 28.04. | Application talks in U10-146 and online ||
|             | 13:00 Franziska, 13:30 Mads, break,  15:00 Xaver ||
| 05.05. | [[https://dspace.mit.edu/handle/1721.1/11174|Shannon, Claude Elwood (1940) An algebra for theoretical genetics, MIT]]  | Niccolò |
| 12.05. | [[https://www.repository.cam.ac.uk/items/28ecf40c-61e9-46a2-828d-8dbf911c2e67|Garg, Manik (2022) Prognostic biomarker discovery from omics data using machine learning approaches ]] Cumulative thesis, European Bioinformatics Institute, University of Cambridge| Max |
| 19.05. | [[https://researchrepository.ru.ac.za/items/ed07161e-8aa7-4b6d-acd8-907a554ad76e| Nabatanzi, Margaret (2022).]] Bioinformatics Tool and Web Server Development Focusing on Structural Bioinformatics Applications. Rhodes University, South Africa  | Daniel |
| 26.05. | [[https://www.mic.uni-luebeck.de/fileadmin/mic/publications/2023/kanter_small.pdf | Kanter, Frederic Georg (2023). Deep Learning for Mass Spectrometry Imaging and Image Registration. University of Lübeck.]] | Ann-Cathrin |
| 02.06. |  | Andreas |
| 09.06. | [[https://research.chalmers.se/publication/537029/file/537029_Fulltext.pdf|del Castillo Cerecer, I. D. (2023). A systems biology understanding of protein constraints in the metabolism of budding yeasts. Chalmers Tekniska Hogskola, Sweden.]] | Emanuel |
| 16.06. |  |  Addie |
| 23.06. | [[https://utheses.univie.ac.at/detail/62579#|Rescheneder, P. (2022). Fast, accurate and user-friendly alignment of short and long read data with high mismatch rates, Vienna.]] How to base a thesis on your nature publications. | Muhammad |
| 30.06. | [[https://pub.uni-bielefeld.de/download/3000996/3000997/Dissertation_Cassandra_K%C3%B6nigs_final.pdf|Königs, C. (2025). PharMeBINet: a general-Purpose approach for the integration of heterogeneous biomedical data Sources and its application to drug-drug interaction prediction,  Universität Bielefeld.]] | Vanessa |
| 07.07. | [[https://pure.uva.nl/ws/files/52999217/Thesis_complete_.pdf|Czaja, B.E. (2020). Cell resolved blood flow modeling with the Lattice Boltzmann method, Amsterdam.]] | Benjamin S |
| 14.07. |  | Leonie |
| 21.07. | Metagenomic data stratified using artificial intelligence by Jakob Nybo Nissen | Benedikt |

== Suggestions ==

  * [[https://pub.uni-bielefeld.de/download/2968940/2968941/PhD_Thesis_Sebastian_Juenemann.pdf|Jünemann, S. (2023). Quality is a Myth - Assessing and Addressing Errors in Sequencing Data. Bielefeld.]] How to structure data, methods, results, discussion.
  * [[https://pub.uni-bielefeld.de/download/2914059/2914060/Jan-Philipp_Schwarzhans_Doktorarbeit_Final.pdf|Schwarzhans, J. P. (2017). Systematic investigation into the clonal variability of the non-conventional yeast Pichia pastoris. Bielefeld.]] An example of a cumulative thesis in biotechnology.