Seqinspector: position-based navigation through the ChIP-seq data landscape to identify gene expression regulators. - Marcin Piechota; Michal Korostynski; Joanna Ficek; Andrzej Tomski; Ryszard Przewlocki (BMC Bioinform., 2016)

SCIM: universal single-cell matching with unpaired feature sets. - Stefan G. Stark; Joanna Ficek; Francesco Locatello; Ximena Bonilla; Stéphane Chevrier; Franziska Singer; Tumor Profiler Consortium; Gunnar Rätsch; Kjong-Van Lehmann (Bioinform., 2020)

WRSE - a non-parametric weighted-resolution ensemble for predicting individual survival distributions in the ICU. - Jonathan Heitz; Joanna Ficek; Martin Faltys; Tobias M. Merz; Gunnar Rätsch; Matthias Hüser (SPACA, 2021)