Roland Eils

According to our database1, Roland Eils authored at least 111 papers between 1996 and 2018.

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Bibliography

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.
NeuroImage, 2018

BioModels: expanding horizons to include more modelling approaches and formats.
Nucleic Acids Research, 2018

Web-based design and analysis tools for CRISPR base editing.
BMC Bioinformatics, 2018

Scale-bundle spline-based non-rigid registration for handling fissures.
Proceedings of the 15th IEEE International Symposium on Biomedical Imaging, 2018

Evaluating local features in high-resolution 3D-PLI data.
Proceedings of the 15th IEEE International Symposium on Biomedical Imaging, 2018

Dissecting Privacy Risks in Biomedical Data.
Proceedings of the 2018 IEEE European Symposium on Security and Privacy, 2018

2017
Correlated receptor transport processes buffer single-cell heterogeneity.
PLoS Computational Biology, 2017

Identifying Personal DNA Methylation Profiles by Genotype Inference.
Proceedings of the 2017 IEEE Symposium on Security and Privacy, 2017

Elastic registration of high-resolution 3D PLI data of the human brain.
Proceedings of the 14th IEEE International Symposium on Biomedical Imaging, 2017

Registration of ultra-high resolution 3D PLI data of human brain sections to their corresponding high-resolution counterpart.
Proceedings of the 14th IEEE International Symposium on Biomedical Imaging, 2017

Spline-Based Multimodal Image Registration of 3D PLI Data of the Human Brain.
Proceedings of the Bildverarbeitung für die Medizin 2017 - Algorithmen - Systeme, 2017

2016
Active medulloblastoma enhancers reveal subgroup-specific cellular origins.
Nature, 2016

gtrellis: an R/Bioconductor package for making genome-level Trellis graphics.
BMC Bioinformatics, 2016

Complex heatmaps reveal patterns and correlations in multidimensional genomic data.
Bioinformatics, 2016

HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data.
Bioinformatics, 2016

A comprehensive comparison of tools for differential ChIP-seq analysis.
Briefings in Bioinformatics, 2016

2015
Tracking Virus Particles in Fluorescence Microscopy Images Using Multi-Scale Detection and Multi-Frame Association.
IEEE Trans. Image Processing, 2015

MapMyFlu: visualizing spatio-temporal relationships between related influenza sequences.
Nucleic Acids Research, 2015

Non-rigid multi-frame registration of cell nuclei in live cell fluorescence microscopy image data.
Medical Image Analysis, 2015

On the role of spatial phase and phase correlation in vision, illusion, and cognition.
Front. Comput. Neurosci., 2015

2014
Characterizing Protein Interactions Employing a Genome-Wide siRNA Cellular Phenotyping Screen.
PLoS Computational Biology, 2014

Data-Derived Modeling Characterizes Plasticity of MAPK Signaling in Melanoma.
PLoS Computational Biology, 2014

Network topology-based detection of differential gene regulation and regulatory switches in cell metabolism and signaling.
BMC Systems Biology, 2014

Estimating the activity of transcription factors by the effect on their target genes.
Bioinformatics, 2014

circlize implements and enhances circular visualization in R.
Bioinformatics, 2014

2013
Mining Quasi-Bicliques from HIV-1-Human Protein Interaction Network: A Multiobjective Biclustering Approach.
IEEE/ACM Trans. Comput. Biology Bioinform., 2013

Disease-gene discovery by integration of 3D gene expression and transcription factor binding affinities.
Bioinformatics, 2013

SplicingCompass: differential splicing detection using RNA-Seq data.
Bioinformatics, 2013

2012
Identifying Virus-Cell Fusion in Two-Channel Fluorescence Microscopy Image Sequences Based on a Layered Probabilistic Approach.
IEEE Trans. Med. Imaging, 2012

Tracking virus particles in fluorescence microscopy images using two-step multi-frame association.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012

Tracking Virus Particles in Microscopy Images Using Multi-Frame Association.
Proceedings of the Bildverarbeitung für die Medizin 2012 - Algorithmen - Systeme, 2012

Cell Tracking for Automatic Migration and Proliferation Analysis in High-Throughput Screens.
Proceedings of the Bildverarbeitung für die Medizin 2012 - Algorithmen - Systeme, 2012

2011
Nonrigid Registration of 2-D and 3-D Dynamic Cell Nuclei Images for Improved Classification of Subcellular Particle Motion.
IEEE Trans. Image Processing, 2011

Normalizing for individual cell population context in the analysis of high-content cellular screens.
BMC Bioinformatics, 2011

RIP: the regulatory interaction predictor - a machine learning-based approach for predicting target genes of transcription factors.
Bioinformatics, 2011

Quantification of frap experiments in live cell image sequences by combining segmentation and registration.
Proceedings of the 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2011

Tracking multiple particles in fluorescence microscopy images via probabilistic data association.
Proceedings of the 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2011

Reconstructing evolutionary modular networks from time series data.
Proceedings of the 14th International Conference on Information Fusion, 2011

3D Segmentation and Quantification of Mouse Embryonic Stem Cells in Fluorescence Microscopy Images.
Proceedings of the Bildverarbeitung für die Medizin 2011: Algorithmen - Systeme, 2011

Reconstructing the Stochastic Evolution Diagram of Dynamic Complex Systems.
Proceedings of the Twenty-Fifth AAAI Conference on Artificial Intelligence, 2011

2010
Identifying essential genes in bacterial metabolic networks with machine learning methods.
BMC Systems Biology, 2010

Bayesian statistical modelling of human protein interaction network incorporating protein disorder information.
BMC Bioinformatics, 2010

Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images.
Bioinformatics, 2010

PathWave: discovering patterns of differentially regulated enzymes in metabolic pathways.
Bioinformatics, 2010

Automatic Analysis of Live Cell Image Sequences to determine Temporal Mitotic Phenotypes.
Proceedings of the Bildverarbeitung für die Medizin 2010 - Algorithmen - Systeme, 2010

2009
Optimal Experimental Design for Parameter Estimation of a Cell Signaling Model.
PLoS Computational Biology, 2009

Deterministic and probabilistic approaches for tracking virus particles in time-lapse fluorescence microscopy image sequences.
Medical Image Analysis, 2009

Prediction of small molecule binding property of protein domains with Bayesian classifiers based on Markov chains.
Comput. Biology Chem., 2009

RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens.
Bioinformatics, 2009

Detection of non-uniform multi-body motion in image time-series using saccades-enhanced phase correlation.
Proceedings of the Medical Imaging 2009: Image Processing, 2009

Analyzing the regulation of metabolic pathways in human breast cancer.
Proceedings of the LWA 2009: Workshop-Woche: Lernen, 2009

Identifying Fusion Events in Fluorescence Microscopy Images.
Proceedings of the 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Boston, MA, USA, June 28, 2009

Evaluation of Approaches for Tracking Virus Particles in Fluorescence Microscopy Images.
Proceedings of the Bildverarbeitung für die Medizin 2009: Algorithmen - Systeme, 2009

2008
Nonrigid Registration of 3-D Multichannel Microscopy Images of Cell Nuclei.
IEEE Trans. Image Processing, 2008

An ultrasensitive sorting mechanism for EGF Receptor Endocytosis.
BMC Systems Biology, 2008

Machine learning based analyses on metabolic networks supports high-throughput knockout screens.
BMC Systems Biology, 2008

Systems Biology and Artificial Life: Towards Predictive Modeling of Biological Systems.
Artificial Life, 2008

Nonlinear elastic model for image registration and soft tissue simulation based on piecewise St. Venant-Kirchhoff material approximation.
Proceedings of the Medical Imaging 2008: Image Processing, 2008

Probabilistic tracking of virus particles in fluorescence microscopy images.
Proceedings of the 2008 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2008

Automated Analysis of siRNA Screens of Virus Infected Cells Based on Immunofluorescence Microscopy.
Proceedings of the Bildverarbeitung für die Medizin 2008, 2008

Probabilistic Tracking of Virus Particles in Fluorescence Microscopy Image Sequences.
Proceedings of the Bildverarbeitung für die Medizin 2008, 2008

2007
Using gene expression data and network topology to detect substantial pathways, clusters and switches during oxygen deprivation of Escherichia coli.
BMC Bioinformatics, 2007

Model-based segmentation and quantification of fluorescent bacteria in 3D microscopy live cell images.
Proceedings of the Medical Imaging 2007: Image Processing, 2007

Compensation of global movement for improved tracking of cells in time-lapse confocal microscopy image sequences.
Proceedings of the Medical Imaging 2007: Image Processing, 2007

Motion detection and pattern tracking in microscopical images using phase correlation approach.
Proceedings of the Medical Imaging 2007: Image Processing, 2007

Variability Analysis of the Large-Scale Structure of Interphase Chromatin Fiber Based on Statistical Shape Theory.
Proceedings of the Advances in Mass Data Analysis of Signals and Images in Medicine, 2007

Integrating Genomic and Transcriptomic Data into Graph Based Approaches for Defining Essential Reactions in the Metabolic Network of Escherichia Coli.
Proceedings of the LWA 2007: Lernen - Wissen, 2007

Non-Rigid Temporal Registration of 2d and 3d Multi-Channel Microscopy Image Sequences of Human Cells.
Proceedings of the 2007 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2007

Analyzing the Variability of the 3D Structure of Chromatin Fiber Using Statistical Shape Theory.
Proceedings of the Pattern Recognition, 2007

Geometrical probability approach for analysis of 3D chromatin structure in interphase cell nuclei.
Proceedings of the 2007 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2007

Stochastical Analysis of Finite Point Sampling of 3D Chromatin Fiber in Interphase Cell Nuclei.
Proceedings of the Bioinformatics Research and Development, First International Conference, 2007

Non-rigid Temporal Alignment of 2D and 3D Multi-channel Microscopy Image Sequences of Human Cells.
Proceedings of the Bildverarbeitung für die Medizin 2007, 2007

Determination of Mitotic Delays in 3D Fluorescence Microscopy Images of Human Cells Using an Error-Correcting Finite State Machine.
Proceedings of the Bildverarbeitung für die Medizin 2007, 2007

Tracking of Virus Particles in Time-Lapse Fluorescence Microscopy Image Sequences.
Proceedings of the Bildverarbeitung für die Medizin 2007, 2007

On Validation of Non-physical Techniques for Elastic Image Registration.
Proceedings of the Bildverarbeitung für die Medizin 2007, 2007

2006
Argonaute - a database for gene regulation by mammalian microRNAs.
Nucleic Acids Research, 2006

Computational Systems Biology Platforms (Computergestützte Systembiologieplattformen).
it - Information Technology, 2006

Systems Biology and Information Technology (Systembiologie und Informationstechnologie.
it - Information Technology, 2006

GOPET: A tool for automated predictions of Gene Ontology terms.
BMC Bioinformatics, 2006

Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms.
BMC Bioinformatics, 2006

Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains.
BMC Bioinformatics, 2006

Tropical - parameter estimation and simulation of reaction-diffusion models based on spatio-temporal microscopy images.
Bioinformatics, 2006

Group testing for pathway analysis improves comparability of different microarray datasets.
Bioinformatics, 2006

Topological analysis of 3D cell nuclei using finite element template-based spherical mapping.
Proceedings of the Medical Imaging 2006: Image Processing, 2006

Non-rigid Registration of 3D Multi-channel Microscopy Images of Cell Nuclei.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention, 2006

Automated Analysis of the Mitotic Phases of Human Cells in 3D Fluorescence Microscopy Image Sequences.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention, 2006

Pattern recognition of gene expression data on biochemical networks with simple wavelet transforms.
Proceedings of the LWA 2006: Lernen - Wissensentdeckung - Adaptivität, Hildesheim, Deutschland, October 9th-11th 2006, joint workshop event of several interest groups of the German Society for Informatics (GI) - 14th Workshop on Adaptivity and User Modeling in Interactive Systems (ABIS 2006) - Workshop Information Retrieval 2006 of the Special Interest Group Information Retrieval (FGIR 2006) - Workshop on Knowledge and Experience Management (FGWM 2006), 2006

Analyzing motion and deformation of the cell nucleus for studying co-localizations of nuclear structures.
Proceedings of the 2006 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2006

Automated recognition of mitotic patterns in fluorescence microscopy images of human cells.
Proceedings of the 2006 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2006

Feature Selection for Evaluating Fluorescence Microscopy Images in Genome-Wide Cell Screens.
Proceedings of the 2006 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR 2006), 2006

Non-rigid Registration of 3D Microscopy Images for the Normalization of Different Cell Nuclei.
Proceedings of the Bildverarbeitung für die Medizin 2006, Algorithmen, Systeme, Anwendungen, Proceedings des Workshops vom 19., 2006

Automated Analysis of Mitotic Phenotypes in Fluorescence Microscopy Images of Human Cells.
Proceedings of the Bildverarbeitung für die Medizin 2006, Algorithmen, Systeme, Anwendungen, Proceedings des Workshops vom 19., 2006

3D Formnormalisierung von Zellkernen mit Hilfe einer elastischen Kugelabbildung.
Proceedings of the Bildverarbeitung für die Medizin 2006, Algorithmen, Systeme, Anwendungen, Proceedings des Workshops vom 19., 2006

2005
Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes.
BMC Bioinformatics, 2005

CGH-Profiler: Data mining based on genomic aberration profiles.
BMC Bioinformatics, 2005

Inferring genetic regulatory logic from expression data.
Bioinformatics, 2005

2004
Applying Support Vector Machines for Gene ontology based gene function prediction.
BMC Bioinformatics, 2004

Gene expression analysis on biochemical networks using the Potts spin model.
Bioinformatics, 2004

Assessing The Similarity of Spatial Configurations Using Distance Differences and Bending Energy: Application To Chromosomal Interphase Arrangements In HeLa Cell Clones.
Proceedings of the 2004 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2004

Spatial Modeling and Simulation of Diffusion in Nuclei of Living Cells.
Proceedings of the Computational Methods in Systems Biology, International Conference, 2004

General Stochastic Hybrid Method for the Simulation of Chemical Reaction Processes in Cells.
Proceedings of the Computational Methods in Systems Biology, International Conference, 2004

2003
Understanding the classification of tumors with a support-vector-machine: A case-based explanation scheme.
Proceedings of the German Conference on Bioinformatics, 2003

Gene expression analysis on biochemical networks with the potts spin model.
Proceedings of the German Conference on Bioinformatics, 2003

2002
Shape-adapted motion model based on thin-plate splines and point clustering for point set registration.
Proceedings of the Medical Imaging 2002: Image Processing, 2002

Machine Learning Approaches for Deciphering Complex Pathomechanisms in Cancer.
Proceedings of the Informatik bewegt: Informatik 2002 - 32. Jahrestagung der Gesellschaft für Informatik e.v. (GI), 30. September, 2002

Modelling of Information Flows in Cells.
Proceedings of the 16<sup>th</sup> European Simulation Multiconference: Modelling and Simulation 2002, 2002

2001
New Tools for Visualization and Quantification in Dynamic Processes: Application to the Nuclear Envelope Dynamics During Mitosis.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention, 2001

An Active Contour Model for Segmentation Based on Cubic B-splines and Gradient Vector Flow.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention, 2001

A Point Set Registration Algorithm Using a Motion Model Based on Thin-Plate Splines and Point Clustering.
Proceedings of the Pattern Recognition, 2001

1996
3D-Bildfolgen zur Auflösungsverbesserung in der Fluoreszenzmikroskopie.
Proceedings of the Mustererkennung 1996, 1996

Modellgestützte Segmentierung von Replikationsdomänen in dreidimensionalen konfokalen Mikroskopiebildern.
Proceedings of the Mustererkennung 1996, 1996


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