Books and book chapters

2020

Daniel Bug
Digital histopathology: Image processing for histological analyses and immune response quantification

2020

Simon Koppers
Signal enhancement and signal reconstruction for diffusion imaging using deep learning

Journal publications

 

2020

T. Nolte B. Theek
Emerging methods in radiology
In: Radiologe 60 (Suppl 1)

2020

B. Weger M. Weger
MondoA Regulates Gene Expression in Cholesterol Biosynthesis-Associated Pathways Required for Zebrafish Epiboly
In: Elife 9

2020

Chuh-Hyoun Na Leon Weninger
Analyzing the effects of free water modeling by deep learning on diffusion MRI structural connectivity estimates in glioma patients
In: PLOS ONE 15 (9)

2020

Dorit Merhof Tarek Stiebel
Brightness Invariant Deep Spectral Super-Resolution
In: Sensors

2020

Tianyu Han, Sven Nebelung, Christoph Haarburger, Nicolas Horst, Sebastian Reinartz, Dorit Merhof, Fabian Kiessling, Volkmar Schulz and Daniel Truhn
Breaking medical data sharing boundaries by employing artificial radiographs
In: Science Advances

2020

Michael Schleyer, Alice Weiglein, Juliane Thoener, Martin Strauch, Volker Hartenstein, Melisa Kantar Weigelt, Sarah Schuller, Timo Saumweber, Katharina Eichler, Astrid Rohwedder, Dorit Merhof, Marta Zlatic, Andreas Stefan Thum and Bertram Gerber
Identification of dopaminergic neurons that can both establish associative memory and acutely terminate its behavioral expression
In: Journal of Neuroscience 40 (31)

2020

Gustav Müller-Franzes Christoph Haarburger
Radiomics feature reproducibility under inter‐rater variability in segmentations of ct images
In: Scientific Reports (accepted)

2020

Lipeng Ning, Elisenda Bonet-Carne, Francesco Grussu, Farshid Sepehrband, Enrico Kaden, Jelle Veraart, Stefano B. Blumberg, Can Son Khoo, Marco Palombo, Iasonas Kokkinos, Daniel C. Alexander, Jaume Coll-Font, Benoit Scherrer, Simon K. Warfield, Suheyla Cetin Karayumak, Yogesh Rathi, Simon Koppers, Leon Weninger, Julia Ebert, Dorit Merhof and others
Cross-scanner and cross-protocol multi-shell diffusion MRI data harmonization: Algorithms and results
In: Neuroimage

2020

Daniel Truhn, Nicolai Brill, Benedikt Braun, Dorit Merhof, Christiane Kuhl, Matthias Knobe, Johannes Thüring and Sven Nebelung
A multi-purpose force-controlled loading device for cartilage and meniscus functionality assessment using advanced MRI techniques
In: Journal of the Mechanical Behavior of Biomedical Materials 101

2020

Johannes Thüring, Oliver Rippel, Christoph Haarburger, Dorit Merhof, Philipp Schad, Philipp Bruners, Christiane K. Kuhl and Daniel Truhn
Multiphase CT-based prediction of Child-Pugh classification: a machine learning approach
In: European Radiology Experimental 4 (1)

2020

K. Streule T. Scherr
BeadNet: Automated Bead Detection and Counting in Low-Resolution Microscopy Images
In: Bioinformatics 36 (17)

2020

M. Takamiya, J. Stegmaier, A. Y. Kobitski, B. Schott, B. D. Weger, D. Margariti, A. R. C. Delgado, V. Gourain, T. Scherr, L. Yang, S. Sorge, V. Hartmann, J. C. Otte, J. v. Wezel, R. Stotzka, T. Reinhard, G. Schlunk, T. Dickmeis, S. Rastegar, R. Mikut, G. U. Nienhaus and U. Strähle
Pax6 Organizes the Anterior Eye Segment Independently of Optic Cup Patterning by Guiding Two Distinct Neural Crest Waves
In: PLoS Genetics 16 (6)

2020

J. Gierten, C. Pylatiuk, O. T. Hammouda, C. Schock, J. Stegmaier, J. Wittbrodt, J. Gehrig and F. Loosli
Automated High-Throughput Heartbeat Quantification in Medaka and Zebrafish Embryos under Physiological Conditions
In: Scientific Reports 10 (1)

Conference publications

2020

Justus Schock Marcin Kopaczka and Dorit Merhof
Efficient Deep Face Alignment with Explicit Statistical Shape Models in Convolutioal Neural Networks
In: 10th International Conference on Imag Processing Theory, Tools and Applications (IPTA)

2020

Dorit Merhof Tarek Stiebel
Linear Spectral Estimate Refinement for Spectral Reconstruction from RGB
In: The Twenty-eighth Color and Imaging Conference (CIC28)

2020

Justus Schock, Marcin Kopaczka, Benjamin Agthe, Jie Huang, Paul Kruse, Daniel Truhn, Stefan Conrad, Gerald Antoch, Christiane Kuhl, Sven Nebelung and Dorit Merhof
A Method for Semantic Knee Bone and Cartilage Segmentation with Deep 3D Shape Fitting Using Data From the Osteoarthritis Initiative
In: MICCAI Workshop on Shape Analysis in Medical Imaging (ShapeMI)

2020

Long Chen, Weiwen Zhang, Yuli Wu, Martin Strauch and Dorit Merhof
Semi-supervised Instance Segmentation with a Learned Shape Prior
In: MICCAI Workshop on Medical Image Learning with Less Labels and Imperfect Data (MIL3ID)

2020

M. Traub and J. Stegmaier
Towards Automatic Embryo Staging in 3D+t Microscopy Images using Convolutional Neural Networks and PointNets
In: MICCAI International Workshop on Simulation and Synthesis in Medical Imaging (SASHIMI)

2020

Tarek Stiebel Dieter Geller and Dorit Merhof
Accurate Stitch Position Identification of Sewn Threads in Textiles
In: IEEE 25th International Conference on Emerging Technologies and Factory Automation (ETFA)

2020

Oliver Rippel, Maximilian Müller and Dorit Merhof
GAN-based Defect Synthesis for Anomaly Detection in Fabrics
In: IEEE 25th International Conference on Emerging Technologies and Factory Automation (ETFA)

2020

Yuli Wu, Long Chen and Dorit Merhof
Improving Pixel Embedding Learning through Intermediate Distance Regression Supervision for Instance Segmentation
In: ECCV Workshop on Computer Vision Problems in Plant Phenotyping

2020

Priyanka Das, Nicolas Horst and Mathias Wien
Coding of Non-Rectangular Signals with Block-Based Transforms
In: IEEE International Conference on Image Processing (ICIP)

2020

Philipp Gräbel, Gregor Nickel, Martina Crysandt, Reinhild Herwartz, Melanie Hoffmann, Barbara M. Klinkhammer, Peter Boor, Tim H. Brümmendorf and Dorit Merhof
Systematic Analysis and Automated Search of Hyper-parameters for Cell Classifier Training
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

S. Bhide, R. Mikut, M. Leptin and J. Stegmaier
Semi-Automatic Generation of Tight Binary Masks and Non-Convex Isosurfaces for Quantitative Analysis of 3D Biological Samples
In: IEEE International Conference on Image Processing (ICIP)

2020

Oliver Rippel, Maximilian Schnabel, Georg-Philipp Paar, Thomas Gries and Dorit Merhof
Automated Segmentation of Profiled Fibers in cross-sectional Micrographs for Quality Control
In: IEEE International Instrumentation and Measurement Technology Conference (I2MTC)

2020

Richard Lindenputz Marcin Kopaczka and Dorit Merhof
Fully Automated Segmentation of the Psoas Major Muscle in Clinical CT Scans
In: Bildverarbeitung fuer die Medizin (BVM)

2020

Marcin Kopaczka, Tobias Jacob, Lisa Ernst, Mareike Schulz, Rene Tolba and Dorit Merhof
Robust Open Field Rodent Tracking using a Fully Convolutional Network and a Softargmax Distance Loss
In: Bildverarbeitung fuer die Medizin (BVM)

2020

Tarek Stiebel and Dorit Merhof
Deep Optimal Filter Responses for Multi-Spectral Imaging
In: London Image Meeting (LIM)

2020

Philipp Gräbel, Özcan Özkan, Martina Crysandt, Reinhild Herwartz, Melanie Hoffmann, Barbara M. Klinkhammer, Peter Boor, Tim H. Brümmendorf and Dorit Merhof
Circular Anchors for the Detection of Hematopoietic Cells using RetinaNet
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Christoph Haarburger, Justus Schock, Daniel Truhn, Philippe Weitz, Gustav Mueller-Franzes, Leon Weninger and Dorit Merhof
Radiomic Feature Stability Analysis based on Probabilistic Segmentations
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Daniel Bug, Gregor Nickel, Anne Grote, Friedrich Feuerhake, Eva Oswald, Julia Schüler and Dorit Merhof
Image Quilting for Histological Image Synthesis
In: Bildverarbeitung für die Medizin (BVM)

2020

Long Chen, Martin Strauch, Matthias Daub, Xiaochen Jiang, Marcus Jansen, Hans-Georg Luigs, Susanne Schultz-Kuhlmann, Stefan Kruessel and Dorit Merhof
A CNN Framework Based on Line Annotations for Detecting Nematodes in Microscopic Images
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Daniel Bug, Felix Bartsch, Nadine Sarah Schaadt, Mathias Wien, Friedrich Feuerhake, Julia Schüler, Eva Oswald and Dorit Merhof
Scalable HEVC for Histological Whole-Slide Image Compression
In: Bildverarbeitung für die Medizin (BVM)

2020

Tarek Stiebel, Philip Seltsam and Dorit Merhof
Enhancing Deep Spectral Super-Resolution from RGB Images by enforcing the Metameric Constraint
In: 15th Joint Conference on Computer Vision, Imaging and Computer Graphics Theory and Applications (VISAPP)

Books and book chapters

2020

Daniel Bug
Digital histopathology: Image processing for histological analyses and immune response quantification

2020

Simon Koppers
Signal enhancement and signal reconstruction for diffusion imaging using deep learning

Journal publications

 

2020

T. Nolte B. Theek
Emerging methods in radiology
In: Radiologe 60 (Suppl 1)

2020

B. Weger M. Weger
MondoA Regulates Gene Expression in Cholesterol Biosynthesis-Associated Pathways Required for Zebrafish Epiboly
In: Elife 9

2020

Chuh-Hyoun Na Leon Weninger
Analyzing the effects of free water modeling by deep learning on diffusion MRI structural connectivity estimates in glioma patients
In: PLOS ONE 15 (9)

2020

Dorit Merhof Tarek Stiebel
Brightness Invariant Deep Spectral Super-Resolution
In: Sensors

2020

Tianyu Han, Sven Nebelung, Christoph Haarburger, Nicolas Horst, Sebastian Reinartz, Dorit Merhof, Fabian Kiessling, Volkmar Schulz and Daniel Truhn
Breaking medical data sharing boundaries by employing artificial radiographs
In: Science Advances

2020

Michael Schleyer, Alice Weiglein, Juliane Thoener, Martin Strauch, Volker Hartenstein, Melisa Kantar Weigelt, Sarah Schuller, Timo Saumweber, Katharina Eichler, Astrid Rohwedder, Dorit Merhof, Marta Zlatic, Andreas Stefan Thum and Bertram Gerber
Identification of dopaminergic neurons that can both establish associative memory and acutely terminate its behavioral expression
In: Journal of Neuroscience 40 (31)

2020

Gustav Müller-Franzes Christoph Haarburger
Radiomics feature reproducibility under inter‐rater variability in segmentations of ct images
In: Scientific Reports (accepted)

2020

Lipeng Ning, Elisenda Bonet-Carne, Francesco Grussu, Farshid Sepehrband, Enrico Kaden, Jelle Veraart, Stefano B. Blumberg, Can Son Khoo, Marco Palombo, Iasonas Kokkinos, Daniel C. Alexander, Jaume Coll-Font, Benoit Scherrer, Simon K. Warfield, Suheyla Cetin Karayumak, Yogesh Rathi, Simon Koppers, Leon Weninger, Julia Ebert, Dorit Merhof and others
Cross-scanner and cross-protocol multi-shell diffusion MRI data harmonization: Algorithms and results
In: Neuroimage

2020

Daniel Truhn, Nicolai Brill, Benedikt Braun, Dorit Merhof, Christiane Kuhl, Matthias Knobe, Johannes Thüring and Sven Nebelung
A multi-purpose force-controlled loading device for cartilage and meniscus functionality assessment using advanced MRI techniques
In: Journal of the Mechanical Behavior of Biomedical Materials 101

2020

Johannes Thüring, Oliver Rippel, Christoph Haarburger, Dorit Merhof, Philipp Schad, Philipp Bruners, Christiane K. Kuhl and Daniel Truhn
Multiphase CT-based prediction of Child-Pugh classification: a machine learning approach
In: European Radiology Experimental 4 (1)

2020

K. Streule T. Scherr
BeadNet: Automated Bead Detection and Counting in Low-Resolution Microscopy Images
In: Bioinformatics 36 (17)

2020

M. Takamiya, J. Stegmaier, A. Y. Kobitski, B. Schott, B. D. Weger, D. Margariti, A. R. C. Delgado, V. Gourain, T. Scherr, L. Yang, S. Sorge, V. Hartmann, J. C. Otte, J. v. Wezel, R. Stotzka, T. Reinhard, G. Schlunk, T. Dickmeis, S. Rastegar, R. Mikut, G. U. Nienhaus and U. Strähle
Pax6 Organizes the Anterior Eye Segment Independently of Optic Cup Patterning by Guiding Two Distinct Neural Crest Waves
In: PLoS Genetics 16 (6)

2020

J. Gierten, C. Pylatiuk, O. T. Hammouda, C. Schock, J. Stegmaier, J. Wittbrodt, J. Gehrig and F. Loosli
Automated High-Throughput Heartbeat Quantification in Medaka and Zebrafish Embryos under Physiological Conditions
In: Scientific Reports 10 (1)

Conference publications

2020

Justus Schock Marcin Kopaczka and Dorit Merhof
Efficient Deep Face Alignment with Explicit Statistical Shape Models in Convolutioal Neural Networks
In: 10th International Conference on Imag Processing Theory, Tools and Applications (IPTA)

2020

Dorit Merhof Tarek Stiebel
Linear Spectral Estimate Refinement for Spectral Reconstruction from RGB
In: The Twenty-eighth Color and Imaging Conference (CIC28)

2020

Justus Schock, Marcin Kopaczka, Benjamin Agthe, Jie Huang, Paul Kruse, Daniel Truhn, Stefan Conrad, Gerald Antoch, Christiane Kuhl, Sven Nebelung and Dorit Merhof
A Method for Semantic Knee Bone and Cartilage Segmentation with Deep 3D Shape Fitting Using Data From the Osteoarthritis Initiative
In: MICCAI Workshop on Shape Analysis in Medical Imaging (ShapeMI)

2020

Long Chen, Weiwen Zhang, Yuli Wu, Martin Strauch and Dorit Merhof
Semi-supervised Instance Segmentation with a Learned Shape Prior
In: MICCAI Workshop on Medical Image Learning with Less Labels and Imperfect Data (MIL3ID)

2020

M. Traub and J. Stegmaier
Towards Automatic Embryo Staging in 3D+t Microscopy Images using Convolutional Neural Networks and PointNets
In: MICCAI International Workshop on Simulation and Synthesis in Medical Imaging (SASHIMI)

2020

Tarek Stiebel Dieter Geller and Dorit Merhof
Accurate Stitch Position Identification of Sewn Threads in Textiles
In: IEEE 25th International Conference on Emerging Technologies and Factory Automation (ETFA)

2020

Oliver Rippel, Maximilian Müller and Dorit Merhof
GAN-based Defect Synthesis for Anomaly Detection in Fabrics
In: IEEE 25th International Conference on Emerging Technologies and Factory Automation (ETFA)

2020

Yuli Wu, Long Chen and Dorit Merhof
Improving Pixel Embedding Learning through Intermediate Distance Regression Supervision for Instance Segmentation
In: ECCV Workshop on Computer Vision Problems in Plant Phenotyping

2020

Priyanka Das, Nicolas Horst and Mathias Wien
Coding of Non-Rectangular Signals with Block-Based Transforms
In: IEEE International Conference on Image Processing (ICIP)

2020

Philipp Gräbel, Gregor Nickel, Martina Crysandt, Reinhild Herwartz, Melanie Hoffmann, Barbara M. Klinkhammer, Peter Boor, Tim H. Brümmendorf and Dorit Merhof
Systematic Analysis and Automated Search of Hyper-parameters for Cell Classifier Training
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

S. Bhide, R. Mikut, M. Leptin and J. Stegmaier
Semi-Automatic Generation of Tight Binary Masks and Non-Convex Isosurfaces for Quantitative Analysis of 3D Biological Samples
In: IEEE International Conference on Image Processing (ICIP)

2020

Oliver Rippel, Maximilian Schnabel, Georg-Philipp Paar, Thomas Gries and Dorit Merhof
Automated Segmentation of Profiled Fibers in cross-sectional Micrographs for Quality Control
In: IEEE International Instrumentation and Measurement Technology Conference (I2MTC)

2020

Richard Lindenputz Marcin Kopaczka and Dorit Merhof
Fully Automated Segmentation of the Psoas Major Muscle in Clinical CT Scans
In: Bildverarbeitung fuer die Medizin (BVM)

2020

Marcin Kopaczka, Tobias Jacob, Lisa Ernst, Mareike Schulz, Rene Tolba and Dorit Merhof
Robust Open Field Rodent Tracking using a Fully Convolutional Network and a Softargmax Distance Loss
In: Bildverarbeitung fuer die Medizin (BVM)

2020

Tarek Stiebel and Dorit Merhof
Deep Optimal Filter Responses for Multi-Spectral Imaging
In: London Image Meeting (LIM)

2020

Philipp Gräbel, Özcan Özkan, Martina Crysandt, Reinhild Herwartz, Melanie Hoffmann, Barbara M. Klinkhammer, Peter Boor, Tim H. Brümmendorf and Dorit Merhof
Circular Anchors for the Detection of Hematopoietic Cells using RetinaNet
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Christoph Haarburger, Justus Schock, Daniel Truhn, Philippe Weitz, Gustav Mueller-Franzes, Leon Weninger and Dorit Merhof
Radiomic Feature Stability Analysis based on Probabilistic Segmentations
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Daniel Bug, Gregor Nickel, Anne Grote, Friedrich Feuerhake, Eva Oswald, Julia Schüler and Dorit Merhof
Image Quilting for Histological Image Synthesis
In: Bildverarbeitung für die Medizin (BVM)

2020

Long Chen, Martin Strauch, Matthias Daub, Xiaochen Jiang, Marcus Jansen, Hans-Georg Luigs, Susanne Schultz-Kuhlmann, Stefan Kruessel and Dorit Merhof
A CNN Framework Based on Line Annotations for Detecting Nematodes in Microscopic Images
In: IEEE International Symposium on Biomedical Imaging (ISBI)

2020

Daniel Bug, Felix Bartsch, Nadine Sarah Schaadt, Mathias Wien, Friedrich Feuerhake, Julia Schüler, Eva Oswald and Dorit Merhof
Scalable HEVC for Histological Whole-Slide Image Compression
In: Bildverarbeitung für die Medizin (BVM)

2020

Tarek Stiebel, Philip Seltsam and Dorit Merhof
Enhancing Deep Spectral Super-Resolution from RGB Images by enforcing the Metameric Constraint
In: 15th Joint Conference on Computer Vision, Imaging and Computer Graphics Theory and Applications (VISAPP)