Modellgestützte Segmentierung von Replikationsdomänen in dreidimensionalen konfokalen Mikroskopiebildern. - Harald Bornfleth; Daniele Zink; Kurt Sätzler; Roland Eils; Christoph Cremer (DAGM-Symposium, 1996)

3D-Bildfolgen zur Auflösungsverbesserung in der Fluoreszenzmikroskopie. - Kurt Sätzler; Cornelius Cremer; Roland Eils (DAGM-Symposium, 1996)

A Point Set Registration Algorithm Using a Motion Model Based on Thin-Plate Splines and Point Clustering. - Johannes Fieres; Julian Mattes; Roland Eils (DAGM-Symposium, 2001)

An Active Contour Model for Segmentation Based on Cubic B-splines and Gradient Vector Flow. - Matthias Gebhard; Julian Mattes; Roland Eils (MICCAI, 2001)

New Tools for Visualization and Quantification in Dynamic Processes: Application to the Nuclear Envelope Dynamics During Mitosis. - Julian Mattes; Johannes Fieres; Joël Beaudouin; Daniel Gerlich; Jan Ellenberg; Roland Eils (MICCAI, 2001)

Modelling of Information Flows in Cells. - Marco Weismueller; Rainer König; Roland Eils (ESM, 2002)

Machine Learning Approaches for Deciphering Complex Pathomechanisms in Cancer. - Roland Eils (GI Jahrestagung (Ergänzungsband), 2002)

Shape-adapted motion model based on thin-plate splines and point clustering for point set registration. - Julian Mattes; Johannes Fieres; Roland Eils (Image Processing, 2002)

Gene expression analysis on biochemical networks with the potts spin model. - Rainer König; Roland Eils (German Conference on Bioinformatics, 2003)

Understanding the classification of tumors with a support-vector-machine: A case-based explanation scheme. - Falk Schubert; Jasmin Müller; Björn Fritz; Peter Lichter; Roland Eils (German Conference on Bioinformatics, 2003)

General Stochastic Hybrid Method for the Simulation of Chemical Reaction Processes in Cells. - Martin Bentele; Roland Eils (CMSB, 2004)

Spatial Modeling and Simulation of Diffusion in Nuclei of Living Cells. - Dietmar Volz; Martin Eigel; Chaitanya A. Athale; Peter Bastian; Harald Hermann; Constantin Kappel; Roland Eils (CMSB, 2004)

Assessing The Similarity of Spatial Configurations Using Distance Differences and Bending Energy: Application To Chromosomal Interphase Arrangements In HeLa Cell Clones. - Juntao Gao; Roland Eils; Daniela Köhler; Irina Solovei; Thomas Cremer; Julian Mattes (ISBI, 2004)

Gene expression analysis on biochemical networks using the Potts spin model. - Rainer König; Roland Eils (Bioinform., 2004)

Applying Support Vector Machines for Gene ontology based gene function prediction. - Arunachalam Vinayagam; Rainer König; Jutta Moormann; Falk Schubert; Roland Eils; Karl-Heinz Glatting; Sándor Suhai (BMC Bioinform., 2004)

Inferring genetic regulatory logic from expression data. - Svetlana Bulashevska; Roland Eils (Bioinform., 2005)

CGH-Profiler: Data mining based on genomic aberration profiles. - Falk Schubert; Bernhard Tausch; Stefan Joos; Roland Eils (BMC Bioinform., 2005)

Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes. - Patrick Warnat; Roland Eils; Benedikt Brors (BMC Bioinform., 2005)

3D Formnormalisierung von Zellkernen mit Hilfe einer elastischen Kugelabbildung. - Evgeny Gladilin; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2006)

Automated Analysis of Mitotic Phenotypes in Fluorescence Microscopy Images of Human Cells. - Nathalie Harder; Beate Neumann; Michael Held; Urban Liebel; Holger Erfle; Jan Ellenberg; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2006)

Non-rigid Registration of 3D Microscopy Images for the Normalization of Different Cell Nuclei. - Siwei Yang; Daniela Köhler; Kathrin Teller; Thomas Cremer; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2006)

Feature Selection for Evaluating Fluorescence Microscopy Images in Genome-Wide Cell Screens. - Vassili Kovalev; Nathalie Harder; Beate Neumann; Michael Held; Urban Liebel; Holger Erfle; Jan Ellenberg; Roland Eils; Karl Rohr (CVPR (1), 2006)

Automated recognition of mitotic patterns in fluorescence microscopy images of human cells. - Nathalie Harder; Beate Neumann; Michael Held; Urban Liebel; Holger Erfle; Jan Ellenberg; Roland Eils; Karl Rohr (ISBI, 2006)

Analyzing motion and deformation of the cell nucleus for studying co-localizations of nuclear structures. - Julian Mattes; Janna Nawroth; Petra Boukamp; Roland Eils; Karin M. Greulich-Bode (ISBI, 2006)

Pattern recognition of gene expression data on biochemical networks with simple wavelet transforms. - Gunnar Schramm; Marcus Oswald; Hanna Seitz; Sebastian Sager; Marc Zapatka; Gerhard Reinelt; Roland Eils; Rainer König (LWA, 2006)

Automated Analysis of the Mitotic Phases of Human Cells in 3D Fluorescence Microscopy Image Sequences. - Nathalie Harder; Felipe Mora-Bermúdez; William J. Godinez; Jan Ellenberg; Roland Eils; Karl Rohr (MICCAI (1), 2006)

Non-rigid Registration of 3D Multi-channel Microscopy Images of Cell Nuclei. - Siwei Yang; Daniela Köhler; Kathrin Teller; Thomas Cremer; Patricia Le Baccon; Edith Heard; Roland Eils; Karl Rohr (MICCAI (1), 2006)

Topological analysis of 3D cell nuclei using finite element template-based spherical mapping. - Evgeny Gladilin; Sandra Götze; Julio Mateos-Langerak; Roel van Driel; Roland Eils; Karl Rohr (Image Processing, 2006)

Group testing for pathway analysis improves comparability of different microarray datasets. - Theodora Manoli; Norbert Gretz; Hermann-Josef Gröne; Marc Kenzelmann; Roland Eils; Benedikt Brors (Bioinform., 2006)

Tropical - parameter estimation and simulation of reaction-diffusion models based on spatio-temporal microscopy images. - Markus Ulrich; Constantin Kappel; Joël Beaudouin; Stefan Hezel; Jochen Ulrich; Roland Eils (Bioinform., 2006)

Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains. - Alla Bulashevska; Roland Eils (BMC Bioinform., 2006)

Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms. - Rainer König; Gunnar Schramm; Marcus Oswald; Hanna Seitz; Sebastian Sager; Marc Zapatka; Gerhard Reinelt; Roland Eils (BMC Bioinform., 2006)

GOPET: A tool for automated predictions of Gene Ontology terms. - Arunachalam Vinayagam; Coral del Val; Falk Schubert; Roland Eils; Karl-Heinz Glatting; Sándor Suhai; Rainer König (BMC Bioinform., 2006)

Systems Biology and Information Technology (Systembiologie und Informationstechnologie. - Roland Eils; Leo Neumann (it Inf. Technol., 2006)

Computational Systems Biology Platforms (Computergestützte Systembiologieplattformen). - Ivayla Vacheva; Roland Eils (it Inf. Technol., 2006)

Argonaute - a database for gene regulation by mammalian microRNAs. - Priyanka Shahi; Serguei Loukianiouk; Andreas Bohne-Lang; Marc Kenzelmann; Stefan Küffer; Sabine Maertens; Roland Eils; Hermann-Josef Gröne; Norbert Gretz; Benedikt Brors (Nucleic Acids Res., 2006)

On Validation of Non-physical Techniques for Elastic Image Registration. - Evgeny Gladilin; Karl Rohr; Roland Eils (Bildverarbeitung für die Medizin, 2007)

Non-rigid Temporal Alignment of 2D and 3D Multi-channel Microscopy Image Sequences of Human Cells. - Il-Han Kim; Siwei Yang; Patricia Le Baccon; Edith Heard; Constantin Kappel; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2007)

Stochastical Analysis of Finite Point Sampling of 3D Chromatin Fiber in Interphase Cell Nuclei. - Evgeny Gladilin; Sandra Götze; Jose Mateos-Langerak; Roel van Driel; Karl Rohr; Roland Eils (BIRD, 2007)

Geometrical probability approach for analysis of 3D chromatin structure in interphase cell nuclei. - Evgeny Gladilin; Sandra Götze; Jose Mateos-Langerak; Roel van Driel; Karl Rohr; Roland Eils (CIBCB, 2007)

Analyzing the Variability of the 3D Structure of Chromatin Fiber Using Statistical Shape Theory. - Siwei Yang; Sandra Götze; Julio Mateos-Langerak; Roel van Driel; Roland Eils; Karl Rohr (DAGM-Symposium, 2007)

Tracking of Virus Particles in Time-Lapse Fluorescence Microscopy Image Sequences. - William J. Godinez; Marko Lampe; Stefan Wörz; Barbara Müller; Roland Eils; Karl Rohr (ISBI, 2007)

Determination of Mitotic Delays in 3d Fluorescence Microscopy Images of Human Cells Using an Error-Correcting Finite State Machine. - Nathalie Harder; Felipe Mora-Bermúdez; William J. Godinez; Jan Ellenberg; Roland Eils; Karl Rohr (ISBI, 2007)

Non-Rigid Temporal Registration of 2d and 3d Multi-Channel Microscopy Image Sequences of Human Cells. - Il-Han Kim; Siwei Yang; Patricia Le Baccon; Edith Heard; Yi-Chun Chen; David L. Spector; Constantin Kappel; Roland Eils; Karl Rohr (ISBI, 2007)

Integrating Genomic and Transcriptomic Data into Graph Based Approaches for Defining Essential Reactions in the Metabolic Network of Escherichia Coli. - Kitiporn Plaimas; Marcus Oswald; Roland Eils; Rainer König (LWA, 2007)

Variability Analysis of the Large-Scale Structure of Interphase Chromatin Fiber Based on Statistical Shape Theory. - Siwei Yang; Sandra Götze; Julio Mateos-Langerak; Roel van Driel; Roland Eils; Karl Rohr (MDA, 2007)

Motion detection and pattern tracking in microscopical images using phase correlation approach. - Evgeny Gladilin; Constantin Kappel; Roland Eils (Image Processing, 2007)

Compensation of global movement for improved tracking of cells in time-lapse confocal microscopy image sequences. - Il-Han Kim; William J. Godinez; Nathalie Harder; Felipe Mora-Bermúdez; Jan Ellenberg; Roland Eils; Karl Rohr (Image Processing, 2007)

Model-based segmentation and quantification of fluorescent bacteria in 3D microscopy live cell images. - Stefan Wörz; Constantin Kappel; Roland Eils; Karl Rohr (Image Processing, 2007)

Using gene expression data and network topology to detect substantial pathways, clusters and switches during oxygen deprivation of Escherichia coli. - Gunnar Schramm; Marc Zapatka; Roland Eils; Rainer König (BMC Bioinform., 2007)

Probabilistic Tracking of Virus Particles in Fluorescence Microscopy Image Sequences. - William J. Godinez; Marko Lampe; Stefan Wörz; Barbara Müller; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2008)

Automated Analysis of siRNA Screens of Virus Infected Cells Based on Immunofluorescence Microscopy. - Petr Matula; Anil Kumar 006; Ilka Wörz; Nathalie Harder; Holger Erfle; Ralf Bartenschlager; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2008)

Probabilistic tracking of virus particles in fluorescence microscopy images. - William J. Godinez; Marko Lampe; Stefan Wörz; Barbara Müller; Roland Eils; Karl Rohr (ISBI, 2008)

Nonlinear elastic model for image registration and soft tissue simulation based on piecewise St. Venant-Kirchhoff material approximation. - Evgeny Gladilin; Roland Eils (Image Processing, 2008)

Systems Biology and Artificial Life: Towards Predictive Modeling of Biological Systems. - Jan T. Kim; Roland Eils (Artif. Life, 2008)

Machine learning based analyses on metabolic networks supports high-throughput knockout screens. - Kitiporn Plaimas; Jan-Phillip Mallm; Marcus Oswald; Fabian Svara; Victor Sourjik; Roland Eils; Rainer König (BMC Syst. Biol., 2008)

An ultrasensitive sorting mechanism for EGF Receptor Endocytosis. - Hannah Schmidt-Glenewinkel; Ivayla Vacheva; Daniela Hoeller; Ivan Dikic; Roland Eils (BMC Syst. Biol., 2008)

Nonrigid Registration of 3-D Multichannel Microscopy Images of Cell Nuclei. - Siwei Yang; Daniela Köhler; Kathrin Teller; Thomas Cremer; Patricia Le Baccon; Edith Heard; Roland Eils; Karl Rohr (IEEE Trans. Image Process., 2008)

Evaluation of Approaches for Tracking Virus Particles in Fluorescence Microscopy Images. - William J. Godinez; Marko Lampe; Stefan Wörz; Barbara Müller; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2009)

Identifying Fusion Events in Fluorescence Microscopy Images. - William J. Godinez; Marko Lampe; Stefan Wörz; Roland Eils; Barbara Müller; Karl Rohr (ISBI, 2009)

Analyzing the regulation of metabolic pathways in human breast cancer. - Eva-Maria Surmann; Gunnar Schramm; Stefan Wiesberg; Marcus Oswald; Gerhard Reinelt; Roland Eils; Rainer König (LWA, 2009)

Detection of non-uniform multi-body motion in image time-series using saccades-enhanced phase correlation. - Evgeny Gladilin; Roland Eils (Image Processing, 2009)

RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens. - Nora Rieber; Bettina Knapp; Roland Eils; Lars Kaderali (Bioinform., 2009)

Prediction of small molecule binding property of protein domains with Bayesian classifiers based on Markov chains. - Alla Bulashevska; Martin Stein; David Jackson; Roland Eils (Comput. Biol. Chem., 2009)

Deterministic and probabilistic approaches for tracking virus particles in time-lapse fluorescence microscopy image sequences. - William J. Godinez; Marko Lampe; Stefan Wörz; Barbara Müller; Roland Eils; Karl Rohr (Medical Image Anal., 2009)

Optimal Experimental Design for Parameter Estimation of a Cell Signaling Model. - Samuel Bandara; Johannes P. Schlöder; Roland Eils; Hans Georg Bock; Tobias Meyer (PLoS Comput. Biol., 2009)

Automatic Analysis of Live Cell Image Sequences to determine Temporal Mitotic Phenotypes. - Nathalie Harder; Felipe Mora-Bermúdez; William J. Godinez; Annelie Wünsche; Jan Ellenberg; Roland Eils; Karl Rohr (Bildverarbeitung für die Medizin, 2010)

PathWave: discovering patterns of differentially regulated enzymes in metabolic pathways. - Gunnar Schramm; Stefan Wiesberg; Nicolle Diessl; Anna-Lena Kranz; Vitalia Sagulenko; Marcus Oswald; Gerhard Reinelt; Frank Westermann; Roland Eils; Rainer König (Bioinform., 2010)

Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images. - Apichat Suratanee; Ilka Rebhan; Petr Matula; Anil Kumar 006; Lars Kaderali; Karl Rohr; Ralf Bartenschlager; Roland Eils; Rainer König (Bioinform., 2010)

Bayesian statistical modelling of human protein interaction network incorporating protein disorder information. - Svetlana Bulashevska; Alla Bulashevska; Roland Eils (BMC Bioinform., 2010)

Identifying essential genes in bacterial metabolic networks with machine learning methods. - Kitiporn Plaimas; Roland Eils; Rainer König (BMC Syst. Biol., 2010)

Reconstructing the Stochastic Evolution Diagram of Dynamic Complex Systems. - Navid Bazzazzadeh; Benedikt Brors; Roland Eils (AAAI, 2011)

Reconstructing evolutionary modular networks from time series data. - Navid Bazzazzadeh; Benedikt Brors; Roland Eils (FUSION, 2011)

Tracking multiple particles in fluorescence microscopy images via probabilistic data association. - William J. Godinez; Marko Lampe; Roland Eils; Barbara Müller; Karl Rohr (ISBI, 2011)

3D segmentation and quantification of mouse embryonic stem cells in fluorescence microscopy images. - Nathalie Harder; Megan Bodnar; Roland Eils; David L. Spector; Karl Rohr (ISBI, 2011)

Quantification of frap experiments in live cell image sequences by combining segmentation and registration. - Il-Han Kim; Catharina Cadmus; Andrea C. Pfeifer; Ursula Klingmüller; Roland Eils; Karl Rohr (ISBI, 2011)

RIP: the regulatory interaction predictor - a machine learning-based approach for predicting target genes of transcription factors. - Tobias Bauer; Roland Eils; Rainer König (Bioinform., 2011)

Normalizing for individual cell population context in the analysis of high-content cellular screens. - Bettina Knapp; Ilka Rebhan; Anil Kumar 006; Petr Matula; Narsis Aftab Kiani; Marco Binder; Holger Erfle; Karl Rohr; Roland Eils; Ralf Bartenschlager; Lars Kaderali (BMC Bioinform., 2011)

Nonrigid Registration of 2-D and 3-D Dynamic Cell Nuclei Images for Improved Classification of Subcellular Particle Motion. - Il-Han Kim; Yi-Chun Chen; David L. Spector; Roland Eils; Karl Rohr (IEEE Trans. Image Process., 2011)

Cell Tracking for Automatic Migration and Proliferation Analysis in High-Throughput Screens. - Nathalie Harder; Richa Batra; Sina Gogolin; Nicolle Diessl; Roland Eils; Frank Westermann; Rainer König; Karl Rohr (Bildverarbeitung für die Medizin, 2012)

Tracking Virus Particles in Microscopy Images Using Multi-Frame Association. - Astha Jaiswal; William J. Godinez; Roland Eils; Maik Jörg Lehmann; Karl Rohr (Bildverarbeitung für die Medizin, 2012)

Tracking virus particles in fluorescence microscopy images using two-step multi-frame association. - Astha Jaiswal; William J. Godinez; Roland Eils; Maik Jörg Lehmann; Karl Rohr (ISBI, 2012)

Identifying Virus-Cell Fusion in Two-Channel Fluorescence Microscopy Image Sequences Based on a Layered Probabilistic Approach. - William J. Godinez; Marko Lampe; Peter Koch 003; Roland Eils; Barbara Müller; Karl Rohr (IEEE Trans. Medical Imaging, 2012)

SplicingCompass: differential splicing detection using RNA-Seq data. - Moritz Aschoff; Agnes Hotz-Wagenblatt; Karl-Heinz Glatting; Matthias Fischer 003; Roland Eils; Rainer König (Bioinform., 2013)

Disease-gene discovery by integration of 3D gene expression and transcription factor binding affinities. - Rosario M. Piro; Ivan Molineris; Ferdinando Di Cunto; Roland Eils; Rainer König (Bioinform., 2013)

Mining Quasi-Bicliques from HIV-1-Human Protein Interaction Network: A Multiobjective Biclustering Approach. - Ujjwal Maulik; Anirban Mukhopadhyay 001; Malay Bhattacharyya 001; Lars Kaderali; Benedikt Brors; Sanghamitra Bandyopadhyay; Roland Eils (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

circlize implements and enhances circular visualization in R. - Zuguang Gu; Lei Gu; Roland Eils; Matthias Schlesner; Benedikt Brors (Bioinform., 2014)

Estimating the activity of transcription factors by the effect on their target genes. - Theresa Schacht; Marcus Oswald; Roland Eils; Stefan B. Eichmüller; Rainer König (Bioinform., 2014)

Network topology-based detection of differential gene regulation and regulatory switches in cell metabolism and signaling. - Rosario M. Piro; Stefan Wiesberg; Gunnar Schramm; Nico Rebel; Marcus Oswald; Roland Eils; Gerhard Reinelt; Rainer König (BMC Syst. Biol., 2014)

Data-Derived Modeling Characterizes Plasticity of MAPK Signaling in Melanoma. - Marti Bernardo-Faura; Stefan Massen; Christine S. Falk; Nathan R. Brady; Roland Eils (PLoS Comput. Biol., 2014)

Characterizing Protein Interactions Employing a Genome-Wide siRNA Cellular Phenotyping Screen. - Apichat Suratanee; Martin H. Schaefer 001; Matthew J. Betts; Zita Soons; Heiko A. Mannsperger; Nathalie Harder; Marcus Oswald; Markus Gipp; Ellen Ramminger; Guillermo Marcus Martinez; Reinhard Männer; Karl Rohr; et al. (PLoS Comput. Biol., 2014)

On the role of spatial phase and phase correlation in vision, illusion, and cognition. - Evgeny Gladilin; Roland Eils (Frontiers Comput. Neurosci., 2015)

Non-rigid multi-frame registration of cell nuclei in live cell fluorescence microscopy image data. - Marco Tektonidis; Il-Han Kim; Yi-Chun Chen; Roland Eils; David L. Spector; Karl Rohr (Medical Image Anal., 2015)

MapMyFlu: visualizing spatio-temporal relationships between related influenza sequences. - Nicholas Nolte; Nils Kurzawa; Roland Eils; Carl Herrmann (Nucleic Acids Res., 2015)

Tracking Virus Particles in Fluorescence Microscopy Images Using Multi-Scale Detection and Multi-Frame Association. - Astha Jaiswal; William J. Godinez; Roland Eils; Maik Jörg Lehmann; Karl Rohr (IEEE Trans. Image Process., 2015)

A comprehensive comparison of tools for differential ChIP-seq analysis. - Sebastian Steinhauser; Nils Kurzawa; Roland Eils; Carl Herrmann (Briefings Bioinform., 2016)

HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data. - Zuguang Gu; Roland Eils; Matthias Schlesner (Bioinform., 2016)

Complex heatmaps reveal patterns and correlations in multidimensional genomic data. - Zuguang Gu; Roland Eils; Matthias Schlesner (Bioinform., 2016)

gtrellis: an R/Bioconductor package for making genome-level Trellis graphics. - Zuguang Gu; Roland Eils; Matthias Schlesner (BMC Bioinform., 2016)

Active medulloblastoma enhancers reveal subgroup-specific cellular origins. - Charles Y. Lin; Serap Erkek; Yiai Tong; Linlin Yin; Alexander J. Federation; Marc Zapatka; Parthiv Haldipur; Daisuke Kawauchi; Thomas Risch; Hans-Jörg Warnatz; Barbara C. Worst; Bensheng Ju; et al. (Nat., 2016)

Spline-Based Multimodal Image Registration of 3D PLI Data of the Human Brain. - Sharib Ali; Karl Rohr; David Gräßel; Philipp Schlömer; Katrin Amunts; Roland Eils; Markus Axer; Stefan Wörz (Bildverarbeitung für die Medizin, 2017)

Registration of ultra-high resolution 3D PLI data of human brain sections to their corresponding high-resolution counterpart. - Sharib Ali; Karl Rohr; Markus Axer; Katrin Amunts; Roland Eils; Stefan Wörz (ISBI, 2017)

Elastic registration of high-resolution 3D PLI data of the human brain. - Sharib Ali; Karl Rohr; Markus Axer; David Gräßel; Philipp Schlömer; Katrin Amunts; Roland Eils; Stefan Wörz (ISBI, 2017)

Identifying Personal DNA Methylation Profiles by Genotype Inference. - Michael Backes 001; Pascal Berrang; Matthias Bieg; Roland Eils; Carl Herrmann; Mathias Humbert; Irina Lehmann (IEEE Symposium on Security and Privacy, 2017)

Correlated receptor transport processes buffer single-cell heterogeneity. - Stefan M. Kallenberger; Anne L. Unger; Stefan Legewie; Konstantinos Lymperopoulos; Ursula Klingmüller; Roland Eils; Dirk-Peter Herten (PLoS Comput. Biol., 2017)

Dissecting Privacy Risks in Biomedical Data. - Pascal Berrang; Mathias Humbert; Yang Zhang 016; Irina Lehmann; Roland Eils; Michael Backes 001 (EuroS&P, 2018)

Evaluating local features in high-resolution 3D-PLI data. - Sharib Ali; Markus Axer; Katrin Amunts; Roland Eils; Karl Rohr (ISBI, 2018)

Scale-bundle spline-based non-rigid registration for handling fissures. - Sharib Ali; Katrin Amunts; Roland Eils; Markus Axer; Karl Rohr (ISBI, 2018)

Web-based design and analysis tools for CRISPR base editing. - Gue-Ho Hwang; Jeongbin Park; Kayeong Lim; Sunghyun Kim; Jihyeon Yu; Eunchong Yu; Sang-Tae Kim; Roland Eils; Jin-Soo Kim; Sangsu Bae (BMC Bioinform., 2018)

BioModels: expanding horizons to include more modelling approaches and formats. - Mihai Glont; Tung V. N. Nguyen; Martin Graesslin; Robert Hälke; Raza Ali; Jochen Schramm; Sarala M. Wimalaratne; Varun B. Kothamachu; Nicolas Rodriguez 001; Maciej J. Swat; Jurgen Eils; Roland Eils; et al. (Nucleic Acids Res., 2018)

Rigid and non-rigid registration of polarized light imaging data for 3D reconstruction of the temporal lobe of the human brain at micrometer resolution. - Sharib Ali; Stefan Wörz; Katrin Amunts; Roland Eils; Markus Axer; Karl Rohr (NeuroImage, 2018)

Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins. - Julius Upmeier zu Belzen; Thore Bürgel; Stefan Holderbach; Felix Bubeck; Lukás Adam; Catharina Gandor; Marita Klein; Jan Mathony; Pauline Pfuderer; Lukas Platz; Moritz Przybilla; Max Schwendemann; et al. (Nat. Mach. Intell., 2019)

Publisher Correction: Leveraging implicit knowledge in neural networks for functional dissection and engineering of proteins. - Julius Upmeier zu Belzen; Thore Bürgel; Stefan Holderbach; Felix Bubeck; Lukás Adam; Catharina Gandor; Marita Klein; Jan Mathony; Pauline Pfuderer; Lukas Platz; Moritz Przybilla; Max Schwendemann; et al. (Nat. Mach. Intell., 2019)

Membership Inference Against DNA Methylation Databases. - Inken Hagestedt; Mathias Humbert; Pascal Berrang; Irina Lehmann; Roland Eils; Michael Backes 001; Yang Zhang 016 (EuroS&P, 2020)

The openEHR Genomics Project. - Cecilia Mascia; Francesca Frexia; Paolo Uva; Gianluigi Zanetti; Luca Pireddu; Gideon Giacomelli; Christina Jaeger-Schmidt; Aurelie Tomczak; Simon Schumacher; Florian Kraecher; Roland Eils; Silje Ljosland Bakke; et al. (MIE, 2020)

Gene set inference from single-cell sequencing data using a hybrid of matrix factorization and variational autoencoders. - Soeren Lukassen; Foo Wei Ten; Lukás Adam; Roland Eils; Christian Conrad (Nat. Mach. Intell., 2020)

The evolutionary history of 2,658 cancers. - Moritz Gerstung; Clemency Jolly; Ignaty Leshchiner; Stefan C. Dentro; Santiago Gonzalez; Thomas J. Mitchell; Yulia Rubanova; Pavana Anur; Kaixian Yu; Maxime Tarabichi; Amit G. Deshwar; Jeff Wintersinger; et al. (Nat., 2020)

An Engineering Approach Towards Multi-site Virtual Molecular Tumor Board Software. - Richard Henkenjohann; Benjamin Bergner; Florian Borchert; Nina Bougatf; Hauke Hund; Roland Eils; Matthieu-P. Schapranow (IHAW, 2021)

Knowledge bases and software support for variant interpretation in precision oncology. - Florian Borchert; Andreas Mock; Aurelie Tomczak; Jonas Hügel; Samer Alkarkoukly; Alexander Knurr; Anna-Lena Volckmar; Albrecht Stenzinger; Peter Schirmacher; Jürgen Debus; Dirk Jäger; Thomas Longerich; et al. (Briefings Bioinform., 2021)

Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. - Gerhard Mayer; Wolfgang Müller 001; Karin Schork; Julian Uszkoreit; Andreas Weidemann; Ulrike Wittig; Maja Rey; Christian Quast; Janine Felden; Frank Oliver Glöckner; Matthias Lange 001; Daniel Arend; et al. (Briefings Bioinform., 2021)

The COVID-19 Data Exchange Platform of the German University Medicine. - Hans-Ulrich Prokosch; Thomas Bahls; Martin Bialke; Jürgen Eils; Christian Fegeler; Julian Gründner; Birger Haarbrandt; Christopher Hampf; Wolfgang Hoffmann 001; Hauke Hund; Marvin O. Kampf; Lorenz A. Kapsner; et al. (MIE, 2022)

Embedding the de.NBI Cloud in the National Research Data Infrastructure Activities. - Nils Hoffmann; Irena Maus; Sebastian Beier; Peter Belmann; Jan Krüger; Andreas Tauch; Alexander Goesmann; Roland Eils; Peer Bork; Oliver Kohlbacher; Ursula Kummer; Rolf Backofen; et al. (CoRDI, 2023)

Machine Learning for Medical Data Integration. - Armin Müller; Lara-Sophie Christmann; Severin Kohler; Roland Eils; Fabian Prasser (MIE, 2023)

Differentiable sorting for censored time-to-event data. - Andre Vauvelle; Benjamin Wild; Roland Eils; Spiros C. Denaxas (NeurIPS, 2023)

Diffsurv: Differentiable sorting for censored time-to-event data. - Andre Vauvelle; Benjamin Wild; Sera Aylin Cakiroglu; Roland Eils; Spiros C. Denaxas (CoRR, 2023)

Software-Tool Support for Collaborative, Virtual, Multi-Site Molecular Tumor Boards. - Matthieu-P. Schapranow; Florian Borchert; Nina Bougatf; Hauke Hund; Roland Eils (SN Comput. Sci., 2023)

Eos and OMOCL: Towards a seamless integration of openEHR records into the OMOP Common Data Model. - Severin Kohler; Diego Boscá; Florian Kärcher; Birger Haarbrandt; Manuel Prinz; Michael Marschollek; Roland Eils (J. Biomed. Informatics, 2023)

Large Language Models are Powerful EHR Encoders. - Stefan Hegselmann; Georg von Arnim; Tillmann Rheude; Noel Kronenberg; David A. Sontag; Gerhard Hindricks; Roland Eils; Benjamin Wild (CoRR, 2025)

Cohort-Based Active Modality Acquisition. - Tillmann Rheude; Roland Eils; Benjamin Wild (CoRR, 2025)

JanusDNA: A Powerful Bi-directional Hybrid DNA Foundation Model. - Qihao Duan; Bingding Huang; Zhenqiao Song; Irina Lehmann; Lei Gu; Roland Eils; Benjamin Wild (CoRR, 2025)