Analyzing synergistic and non-synergistic interactions in signalling pathways using Boolean Nested Effect Models. - Martin Pirkl; Elisabeth Hand; Dieter Kube; Rainer Spang (Bioinform., 2016)

Inferring modulators of genetic interactions with epistatic nested effects models. - Martin Pirkl; Madeline Diekmann; Marlies van der Wees; Niko Beerenwinkel; Holger Fröhlich; Florian Markowetz (PLoS Comput. Biol., 2017)

Single cell network analysis with a mixture of Nested Effects Models. - Martin Pirkl; Niko Beerenwinkel (Bioinform., 2018)

Inferring perturbation profiles of cancer samples. - Martin Pirkl; Niko Beerenwinkel (Bioinform., 2021)

Identifying cancer pathway dysregulations using differential causal effects. - Kim Philipp Jablonski; Martin Pirkl; Domagoj Cevid; Peter Bühlmann; Niko Beerenwinkel (Bioinform., 2022)

Incorporating temporal dynamics of mutations to enhance the prediction capability of antiretroviral therapy's outcome for HIV-1. - Giulia Di Teodoro; Martin Pirkl; Francesca Incardona; Ilaria Vicenti; Anders Sönnerborg; Rolf Kaiser; Laura Palagi; Maurizio Zazzi; Thomas Lengauer (CoRR, 2023)