We will host guests, mostly online, in the seminar in Spring 2024. Between the public seminars, students will prepare their own presentations for class only. The themes for student presentations this semester will be Stringology (algorithms and data structures for k-mer processing, sequence compression, alignment, repeat detection, etc.) and scRNA/DNA-seq (single cell sequencing). Public seminar guests will be shared with a “sister seminar” at CEITEC, described here:

The Bioinformatics Seminar is a seminar series organized together with the Faculty of Informatics in the interdisciplinary fields of Bioinformatics, Biostatistics, and Computational Biology. The seminar series aims to invite exciting speakers working on current (state-of-the-art) bioinformatics problems. The goal is to broaden bioinformatics knowledge for scientists and students and promote mutual connections and interactions between bioinformaticians at MU. The seminars are held alternately at the CEITEC MU (E35/211) and FI MU (A319) and also streamed online every other Wednesday from 16:00.

Link to CEITEC Bioinformatics Seminar webpage

Please join us for the public talks below, either in person (see room numbers above) or using the MSTeams platform (click on the respective title below). All times are Central European (Prague, Vienna, Budapest). Contact lexa @ fi.muni.cz or vojtech.bystry @ ceitec.muni.cz for additional information.

21.2. 4 PM

FI MU
Introduction to the seminar
Students Only

28.2. 4 PM

Invited Talk (CEITEC) Panagiotis Alexiou, University of Malta
**
Development of ML powered microRNA target site prediction methods

6.3. 4 PM

FI MU Journal Club.
TBD
Student presentations (Students Only)

13.3. 4 PM

Invited Talk (online)
** » CANCELLED! « Jan Oppelt**
**
The complexity of mRNA degradation

20.3. 4 PM

Invited Talk (online)
Karol Pal, Makova Lab, Eberly College of Science, PennState, USA
Former FI MU student (Bioinformatics) and CEITEC doctoral student and staff scientist (Molecular Medicine) now as a post-doc at PennState in Kateryna Makova lab will come to tell us about his work.
Using the methods employed for generating the gapless assemblies of the human female genome and of the human Y chromosome, the Telomere-To-Telomere (T2T) Primates Consortium is building complete genome assemblies for a number of primate species. As part of this effort, we have recently assembled the T2T sequence of the X and Y chromosomes for five great apes (bonobo, chimpanzee, gorilla, Bornean and Sumatran orangutans) and one lesser ape, the siamang gibbon—all are endangered species. The distinct mating patterns of all studied species could be associated with the architecture of the quickly evolving Y chromosome.
The Complete Sequence of Ape Sex Chromosomes

27.3. 4 PM

FI MU Journal Club.
TBD
Student presentations (Students Only)

3.4. 4 PM

FI MU Journal Club.
TBD
Student presentations (Students Only)

10.4. 4 PM

Invited Talk (online)
** » CANCELLED! « Lukas Pravda, Exscientia Plc, Oxford, UK**
Former FI MU student (Bioinformatics) working at a pharmatech company will come and tell us about his experience doing bioinformatics outside academia. His talk will touch target identification, hit id, compound optimisation, as well as pipelines for generative design of molecules.
Machine learning and AI for drug design

17.4. 4 PM

FI MU Journal Club.
TBD
Student presentations (Students Only)

24.4. 4 PM

Invited Talk (CEITEC)
Sangeeta Kumari, University of Natural Resources and Life Sciences, Vienna
*CCSfind, a new tool for building comprehensive databases from experimental IM-MS measurements of small molecules. CCSfind allows predicted ion species to be chosen for input chemical formulae, which are then targeted by CCSfind after parsing open source mzML input files to provide a unified set of results within a single data processing step. CCSfind can handle both chromatographically separated isomers and IM separation of isomeric ions (e.g., “protomers” or conformers of the same ion species) with simple user control over the output for new database entries in SQL format.

The lecture is part of the Bioinformatics Seminar Series, which aims to invite exciting speakers working on the current state-of-the-art bioinformatics problems.*
CCSfind: A tool for chemically informed LC-IM-MS database building

15.5. 4 PM

FI MU Journal Club.
TBD
Student presentations (Students Only)

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