Graph cut and image intensity-based splitting improves nuclei segmentation in high-content screening. - Muhammad Farhan; Pekka Ruusuvuori; Mario Emmenlauer; Pauli Rämö; Olli Yli-Harja; Christoph Dehio (Image Processing: Algorithms and Systems, 2013)

Multi-scale Gaussian representation and outline-learning based cell image segmentation. - Muhammad Farhan; Pekka Ruusuvuori; Mario Emmenlauer; Pauli Rämö; Christoph Dehio; Olli Yli-Harja (BMC Bioinform., 2013)

NEMix: Single-cell Nested Effects Models for Probabilistic Pathway Stimulation. - Juliane Siebourg-Polster; Daria Mudrak; Mario Emmenlauer; Pauli Rämö; Christoph Dehio; Urs F. Greber; Holger Fröhlich; Niko Beerenwinkel (PLoS Comput. Biol., 2015)

Improved pathway reconstruction from RNA interference screens by exploiting off-target effects. - Sumana Srivatsa; Jack Kuipers; Fabian Schmich; Simone Eicher; Mario Emmenlauer; Christoph Dehio; Niko Beerenwinkel (Bioinform., 2018)

PyBDA: a command line tool for automated analysis of big biological data sets. - Simon Dirmeier; Mario Emmenlauer; Christoph Dehio; Niko Beerenwinkel (BMC Bioinform., 2019)