Learning to Design RNA. - Frederic Runge; Danny Stoll; Stefan Falkner; Frank Hutter (ICLR (Poster), 2019)

Probabilistic Transformer: Modelling Ambiguities and Distributions for RNA Folding and Molecule Design. - Jörg K. H. Franke; Frederic Runge; Frank Hutter (NeurIPS, 2022)

Towards Automated Design of Riboswitches. - Frederic Runge; Jörg K. H. Franke; Frank Hutter (CoRR, 2023)

Scalable Deep Learning for RNA Secondary Structure Prediction. - Jörg K. H. Franke; Frederic Runge; Frank Hutter (CoRR, 2023)

Partial RNA design. - Frederic Runge; Jörg K. H. Franke; Daniel Fertmann; Rolf Backofen; Frank Hutter (Bioinform., 2024)

Rethinking Performance Measures of RNA Secondary Structure Problems. - Frederic Runge; Jörg K. H. Franke; Daniel Fertmann; Frank Hutter (CoRR, 2024)

KinPFN: Bayesian Approximation of RNA Folding Kinetics using Prior-Data Fitted Networks. - Dominik Scheuer; Frederic Runge; Jörg K. H. Franke; Michael T. Wolfinger; Christoph Flamm; Frank Hutter (ICLR, 2025)