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BP: Fachverband Biologische Physik

BP 21: Poster IIIb

BP 21.2: Poster

Wednesday, March 20, 2024, 11:00–14:30, Poster C

Expanding the scope of bulk experiments by ensemble signal decomposition — •Nadin Haase, Simon Christ, and Sophia Rudorf — Institute of Cell Biology and Biophysics, Leibniz University Hannover, Germany

Compared to single-molecule experiments, ensemble or bulk methods are relatively time- and cost-efficient, and signal decomposition can help to expand their scope. Previously, we developed a detailed Markov model that incorporates the most central aspects of mRNA translation. Recently, we used our Markov model of translation to decompose fluorescent signatures of translating ribosomes in in-vitro ensemble experiments, revealing hidden kinetic information on the early phase of mRNA translation. Here, we investigate the limits of this method in terms of translation rates and the number of consecutive elongation cycles. Specifically, we show that the decomposition of a noisy ensemble signal generated by ribosomes translating mRNAs with more than just 5 codons represents already an ill-posed problem. We demonstrate that this problem can be treated with regularization to obtain translation state-specific information. Our results may aid in the extraction of information from bulk experiments to study the dynamics not only of translating ribosomes but also of other processive enzymes.

Keywords: Translation; Markov model; Signal decomposition; Overfitting; Regularization