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2020 – today
- 2024
[j14]Thomas Walzthoeni
, Bom Bahadur Singiali, N. William Rayner, Francesco Paolo Casale, Christoph Feest, Carsten Marr, Alf Wachsmann:
SCAS dashboard: A tool to intuitively and interactively analyze Slurm cluster usage. J. Open Source Softw. 9(97): 6017 (2024)- [c35]Salome Kazeminia, Miroslav Brezík, Sayedali Shetab Boushehri, Carsten Marr:
A Data-Driven Solution for The Cold Start Problem in Biomedical Image Classification. ISBI 2024: 1-5 - [c34]Benedikt Roth, Valentin Koch, Sophia J. Wagner, Julia A. Schnabel, Carsten Marr, Tingying Peng:
Low-Resource Finetuning of Foundation Models Beats State-of-the-Art in Histopathology. ISBI 2024: 1-5 - [c33]Valentin Koch, Sophia J. Wagner, Salome Kazeminia, Ece Sancar, Matthias Hehr, Julia A. Schnabel, Tingying Peng, Carsten Marr:
DinoBloom: A Foundation Model for Generalizable Cell Embeddings in Hematology. MICCAI (12) 2024: 520-530 - [c32]Michael Deutges, Ario Sadafi, Nassir Navab, Carsten Marr:
Neural Cellular Automata for Lightweight, Robust and Explainable Classification of White Blood Cell Images. MICCAI (3) 2024: 693-702 - [c31]Isabella Galter, Elida Schneltzer, Carsten Marr, IMPC Consortium, Nadine Spielmann, Martin Hrabé de Angelis:
EchoVisuAL: Efficient Segmentation of Echocardiograms Using Deep Active Learning. MIUA (2) 2024: 366-381 - [i25]Benedikt Roth, Valentin Koch, Sophia J. Wagner, Julia A. Schnabel, Carsten Marr, Tingying Peng:
Low-resource finetuning of foundation models beats state-of-the-art in histopathology. CoRR abs/2401.04720 (2024) - [i24]Salome Kazeminia, Max Joosten, Dragan Bosnacki, Carsten Marr:
Self-Supervised Multiple Instance Learning for Acute Myeloid Leukemia Classification. CoRR abs/2403.05379 (2024) - [i23]Xudong Sun, Nutan Chen, Alexej Gossmann, Yu Xing, Carla Feistner, Emilio Dorigatt, Felix Drost, Daniele Scarcella, Lisa Beer, Carsten Marr:
M-HOF-Opt: Multi-Objective Hierarchical Output Feedback Optimization via Multiplier Induced Loss Landscape Scheduling. CoRR abs/2403.13728 (2024) - [i22]Xudong Sun, Carla Feistner, Alexej Gossmann, George Schwarz, Rao Muhammad Umer, Lisa Beer, Patrick Rockenschaub, Rahul Babu Shrestha, Armin Gruber, Nutan Chen, Sayedali Shetab Boushehri, Florian Buettner, Carsten Marr:
DomainLab: A modular Python package for domain generalization in deep learning. CoRR abs/2403.14356 (2024) - [i21]Valentin Koch, Sophia J. Wagner, Salome Kazeminia, Ece Sancar, Matthias Hehr, Julia A. Schnabel, Tingying Peng, Carsten Marr:
DinoBloom: A Foundation Model for Generalizable Cell Embeddings in Hematology. CoRR abs/2404.05022 (2024) - [i20]Michael Deutges, Ario Sadafi, Nassir Navab, Carsten Marr:
Neural Cellular Automata for Lightweight, Robust and Explainable Classification of White Blood Cell Images. CoRR abs/2404.05584 (2024) - [i19]Gizem Mert, Ario Sadafi, Raheleh Salehi, Nassir Navab, Carsten Marr:
Multimodal Analysis of White Blood Cell Differentiation in Acute Myeloid Leukemia Patients using a β-Variational Autoencoder. CoRR abs/2408.06720 (2024) - 2023
- [c30]Ario Sadafi, Matthias Hehr, Nassir Navab, Carsten Marr:
A Study of Age and Sex Bias in Multiple Instance Learning Based Classification of Acute Myeloid Leukemia Subtypes. CLIP/FAIMI/EPIMI@MICCAI 2023: 256-265 - [c29]Ario Sadafi, Oleksandra Adonkina, Ashkan Khakzar, Peter Lienemann, Rudolf Matthias Hehr, Daniel Rueckert, Nassir Navab, Carsten Marr:
Pixel-Level Explanation of Multiple Instance Learning Models in Biomedical Single Cell Images. IPMI 2023: 170-182 - [c28]Ario Sadafi, Nassir Navab, Carsten Marr:
Active Learning Enhances Classification of Histopathology Whole Slide Images with Attention-Based Multiple Instance Learning. ISBI 2023: 1-5 - [c27]Daniel Sens, Ario Sadafi, Francesco Paolo Casale, Nassir Navab, Carsten Marr:
BEL: A Bag Embedding Loss for Transformer Enhances Multiple Instance Whole Slide Image Classification. ISBI 2023: 1-5 - [c26]Dominik Jens Elias Waibel, Ernst Röell, Bastian Rieck, Raja Giryes, Carsten Marr:
A Diffusion Model Predicts 3D Shapes from 2D Microscopy Images. ISBI 2023: 1-5 - [c25]Ario Sadafi, Raheleh Salehi, Armin Gruber, Sayedali Shetab Boushehri, Pascal Giehr, Nassir Navab, Carsten Marr:
A Continual Learning Approach for Cross-Domain White Blood Cell Classification. DART@MICCAI 2023: 136-146 - [c24]Yu Liu, Gesine Müller, Nassir Navab, Carsten Marr, Jan Huisken, Tingying Peng:
BigFUSE: Global Context-Aware Image Fusion in Dual-View Light-Sheet Fluorescence Microscopy with Image Formation Prior. MICCAI (8) 2023: 646-655 - [i18]Ario Sadafi, Nassir Navab, Carsten Marr:
Active Learning Enhances Classification of Histopathology Whole Slide Images with Attention-based Multiple Instance Learning. CoRR abs/2303.01342 (2023) - [i17]Daniel Sens, Ario Sadafi, Francesco Paolo Casale, Nassir Navab, Carsten Marr:
BEL: A Bag Embedding Loss for Transformer enhances Multiple Instance Whole Slide Image Classification. CoRR abs/2303.01377 (2023) - [i16]Rao Muhammad Umer, Armin Gruber, Sayedali Shetab Boushehri, Christian Metak, Carsten Marr:
Imbalanced Domain Generalization for Robust Single Cell Classification in Hematological Cytomorphology. CoRR abs/2303.07771 (2023) - [i15]Ario Sadafi, Oleksandra Adonkina, Ashkan Khakzar, Peter Lienemann, Rudolf Matthias Hehr, Daniel Rueckert, Nassir Navab, Carsten Marr:
Pixel-Level Explanation of Multiple Instance Learning Models in Biomedical Single Cell Images. CoRR abs/2303.08632 (2023) - [i14]Salome Kazeminia, Ario Sadafi, Asya Makhro, Anna Bogdanova, Carsten Marr, Bastian Rieck:
Topologically-Regularized Multiple Instance Learning for Red Blood Cell Disease Classification. CoRR abs/2307.14025 (2023) - [i13]Ario Sadafi, Matthias Hehr, Nassir Navab, Carsten Marr:
A Study of Age and Sex Bias in Multiple Instance Learning based Classification of Acute Myeloid Leukemia Subtypes. CoRR abs/2308.12675 (2023) - [i12]Ario Sadafi, Raheleh Salehi, Armin Gruber, Sayedali Shetab Boushehri, Pascal Giehr, Nassir Navab, Carsten Marr:
A Continual Learning Approach for Cross-Domain White Blood Cell Classification. CoRR abs/2308.12679 (2023) - [i11]Yu Liu, Gesine Müller, Nassir Navab, Carsten Marr, Jan Huisken, Tingying Peng:
BigFUSE: Global Context-Aware Image Fusion in Dual-View Light-Sheet Fluorescence Microscopy with Image Formation Prior. CoRR abs/2309.01865 (2023) - 2022
- [j13]Lea Schuh, Igor Kukhtevich, Poonam Bheda, Melanie Schulz, Maria Bordukova, Robert Schneider, Carsten Marr:
Altered expression response upon repeated gene repression in single yeast cells. PLoS Comput. Biol. 18(10): 1010640 (2022) - [c23]Christian Matek, Sebastian Krappe, Christian Münzenmayer, Torsten Haferlach, Carsten Marr:
Abstract: A Database and Neural Network for Highly Accurate Classification of Single Bone Marrow Cells. Bildverarbeitung für die Medizin 2022: 159 - [c22]Sayedali Shetab Boushehri, Ahmad Bin Qasim, Dominik Jens Elias Waibel, Fabian Schmich, Carsten Marr:
Systematic Comparison of Incomplete-Supervision Approaches for Biomedical Image Classification. ICANN (1) 2022: 355-365 - [c21]Yu Liu, Kurt Weiss, Nassir Navab, Carsten Marr, Jan Huisken, Tingying Peng:
DeStripe: A Self2Self Spatio-Spectral Graph Neural Network with Unfolded Hessian for Stripe Artifact Removal in Light-Sheet Microscopy. MICCAI (4) 2022: 99-108 - [c20]Dominik Jens Elias Waibel, Scott Atwell, Matthias Meier, Carsten Marr, Bastian Rieck:
Capturing Shape Information with Multi-scale Topological Loss Terms for 3D Reconstruction. MICCAI (4) 2022: 150-159 - [c19]Salome Kazeminia, Ario Sadafi, Asya Makhro, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Anomaly-Aware Multiple Instance Learning for Rare Anemia Disorder Classification. MICCAI (8) 2022: 341-350 - [c18]Raheleh Salehi, Ario Sadafi, Armin Gruber, Peter Lienemann, Nassir Navab, Shadi Albarqouni, Carsten Marr:
Unsupervised Cross-Domain Feature Extraction for Single Blood Cell Image Classification. MICCAI (3) 2022: 739-748 - [i10]Dominik Jens Elias Waibel, Scott Atwell, Matthias Meier, Carsten Marr, Bastian Rieck:
Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction. CoRR abs/2203.01703 (2022) - [i9]Yu Liu, Kurt Weiss, Nassir Navab, Carsten Marr, Jan Huisken, Tingying Peng:
DeStripe: A Self2Self Spatio-Spectral Graph Neural Network with Unfolded Hessian for Stripe Artifact Removal in Light-sheet Microscopy. CoRR abs/2206.13419 (2022) - [i8]Raheleh Salehi, Ario Sadafi, Armin Gruber, Peter Lienemann, Nassir Navab, Shadi Albarqouni, Carsten Marr:
Unsupervised Cross-Domain Feature Extraction for Single Blood Cell Image Classification. CoRR abs/2207.00501 (2022) - [i7]Salome Kazeminia, Ario Sadafi, Asya Makhro, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Anomaly-aware multiple instance learning for rare anemia disorder classification. CoRR abs/2207.01742 (2022) - [i6]Dominik Jens Elias Waibel, Ernst Röell, Bastian Rieck, Raja Giryes, Carsten Marr:
A Diffusion Model Predicts 3D Shapes from 2D Microscopy Images. CoRR abs/2208.14125 (2022) - 2021
- [j12]Dominik Jens Elias Waibel, Sayedali Shetab Boushehri, Carsten Marr:
InstantDL: an easy-to-use deep learning pipeline for image segmentation and classification. BMC Bioinform. 22(1): 103 (2021) - [c17]Ario Sadafi, Lucía María Moya Sans, Asya Makhro, Leonid Livshits, Nassir Navab, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Fourier Transform of Percoll Gradients Boosts CNN Classification of Hereditary Hemolytic Anemias. ISBI 2021: 966-970 - [c16]Ario Sadafi, Asya Makhro, Leonid Livshits, Nassir Navab, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Sickle Cell Disease Severity Prediction from Percoll Gradient Images Using Graph Convolutional Networks. DART/FAIR@MICCAI 2021: 216-225 - [c15]Sophia J. Wagner, Nadieh Khalili, Raghav Sharma, Melanie Boxberg, Carsten Marr, Walter de Back, Tingying Peng:
Structure-Preserving Multi-domain Stain Color Augmentation Using Style-Transfer with Disentangled Representations. MICCAI (8) 2021: 257-266 - [i5]Ario Sadafi, Lucía María Moya Sans, Asya Makhro, Leonid Livshits, Nassir Navab, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Fourier Transform of Percoll Gradients Boosts CNN Classification of Hereditary Hemolytic Anemias. CoRR abs/2103.09671 (2021) - [i4]Sophia J. Wagner, Nadieh Khalili, Raghav Sharma, Melanie Boxberg, Carsten Marr, Walter de Back, Tingying Peng:
Structure-Preserving Multi-Domain Stain Color Augmentation using Style-Transfer with Disentangled Representations. CoRR abs/2107.12357 (2021) - [i3]Ario Sadafi, Asya Makhro, Leonid Livshits, Nassir Navab, Anna Bogdanova, Shadi Albarqouni, Carsten Marr:
Sickle Cell Disease Severity Prediction from Percoll Gradient Images using Graph Convolutional Networks. CoRR abs/2109.05372 (2021) - 2020
- [j11]Philipp Angerer, David S. Fischer, Fabian J. Theis, Antonio Scialdone, Carsten Marr:
Automatic identification of relevant genes from low-dimensional embeddings of single-cell RNA-seq data. Bioinform. 36(15): 4291-4295 (2020) - [c14]Christian Matek, Simone Schwarz, Karsten Spiekermann, Carsten Marr:
Abstract: Recognition of AML Blast Cells in a Curated Single-Cell Dataset of Leukocyte Morphologies Using Deep Convolutional Neural Networks. Bildverarbeitung für die Medizin 2020: 53-54 - [c13]Tingying Peng, Lorenz Lamm, Dirk Loeffler, Nouraiz Ahmed, Nassir Navab, Timm Schroeder, Carsten Marr:
Background and Illumination Correction for Time-Lapse Microscopy Data with Correlated Foreground. MICCAI (5) 2020: 174-183 - [c12]Ario Sadafi, Asya Makhro, Anna Bogdanova, Nassir Navab, Tingying Peng, Shadi Albarqouni, Carsten Marr:
Attention Based Multiple Instance Learning for Classification of Blood Cell Disorders. MICCAI (5) 2020: 246-256 - [i2]Ario Sadafi, Asya Makhro, Anna Bogdanova, Nassir Navab, Tingying Peng, Shadi Albarqouni, Carsten Marr:
Attention based Multiple Instance Learning for Classification of Blood Cell Disorders. CoRR abs/2007.11641 (2020)
2010 – 2019
- 2019
- [j10]Christian Matek, Simone Schwarz, Karsten Spiekermann, Carsten Marr:
Human-level recognition of blast cells in acute myeloid leukaemia with convolutional neural networks. Nat. Mach. Intell. 1(11): 538-544 (2019) - [c11]Dominik Jens Elias Waibel, Ulf Tiemann, Valerio Lupperger, Henrik Semb, Carsten Marr:
In-Silico Staining from Bright-Field and Fluorescent Images Using Deep Learning. ICANN (3) 2019: 184-186 - [c10]Manish Mishra, Sabine Schmitt, Hans Zischka, Michael K. Strasser, Nassir Navab, Carsten Marr, Tingying Peng:
Quantifying Structural Heterogeneity of Healthy and Cancerous Mitochondria Using a Combined Segmentation and Classification USK-Net. ICANN (Workshop) 2019: 289-298 - [c9]Michael Schneider, Lichao Wang, Carsten Marr:
Evaluation of Domain Adaptation Approaches for Robust Classification of Heterogeneous Biological Data Sets. ICANN (2) 2019: 673-686 - [c8]Tingying Peng, Melanie Boxberg, Wilko Weichert, Nassir Navab, Carsten Marr:
Multi-task Learning of a Deep K-Nearest Neighbour Network for Histopathological Image Classification and Retrieval. MICCAI (1) 2019: 676-684 - [c7]Ario Sadafi, Niklas Koehler, Asya Makhro, Anna Bogdanova, Nassir Navab, Carsten Marr, Tingying Peng:
Multiclass Deep Active Learning for Detecting Red Blood Cell Subtypes in Brightfield Microscopy. MICCAI (1) 2019: 685-693 - 2018
- [c6]Christian Matek, Carsten Marr, Karsten Spiekermann:
Abstract: Digital Cytomorphology - Deep Learning on an Image Data Set of Cell Morphologies in Acute Myeloid Leukemia. Bildverarbeitung für die Medizin 2018: 10 - [c5]Justin Feigelman, Daniel Weindl, Fabian J. Theis, Carsten Marr, Jan Hasenauer:
LNA++: Linear Noise Approximation with First and Second Order Sensitivities. CMSB 2018: 300-306 - 2017
- [j9]Oliver Hilsenbeck, Michael Schwarzfischer, Dirk Loeffler, Sotiris Dimopoulos, Simon Hastreiter, Carsten Marr, Fabian J. Theis, Timm Schroeder:
fastER: a user-friendly tool for ultrafast and robust cell segmentation in large-scale microscopy. Bioinform. 33(13): 2020-2028 (2017) - 2016
- [j8]Philipp Angerer, Laleh Haghverdi, Maren Büttner, Fabian J. Theis, Carsten Marr, Florian A. Büttner:
destiny: diffusion maps for large-scale single-cell data in R. Bioinform. 32(8): 1241-1243 (2016) - [j7]Sabine Hug, Michael Schwarzfischer, Jan Hasenauer, Carsten Marr, Fabian J. Theis:
An adaptive scheduling scheme for calculating Bayes factors with thermodynamic integration using Simpson's rule. Stat. Comput. 26(3): 663-677 (2016) - [c4]Manish Mishra, Sabine Schmitt, Lichao Wang, Michael K. Strasser, Carsten Marr, Nassir Navab, Hans Zischka, Tingying Peng:
Structure-based assessment of cancerous mitochondria using deep networks. ISBI 2016: 545-548 - 2015
- [j6]Michael K. Strasser, Justin Feigelman, Fabian J. Theis, Carsten Marr:
Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy. BMC Syst. Biol. 9: 61 (2015) - [c3]Carolin Loos, Carsten Marr, Fabian J. Theis, Jan Hasenauer:
Approximate Bayesian Computation for Stochastic Single-Cell Time-Lapse Data Using Multivariate Test Statistics. CMSB 2015: 52-63 - [c2]Lichao Wang, Vasileios Belagiannis, Carsten Marr, Fabian J. Theis, Guang-Zhong Yang, Nassir Navab:
Anatomic-landmark detection using graphical context modelling. ISBI 2015: 1304-1307 - 2014
- [j5]Justin Feigelman, Fabian J. Theis, Carsten Marr:
MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. BMC Bioinform. 15: 240 (2014) - [c1]Valeriy Khakhutskyy, Michael Schwarzfischer, Nina C. Hubig, Claudia Plant, Carsten Marr, Michael A. Rieger, Timm Schroeder, Fabian J. Theis:
Centroid Clustering of Cellular Lineage Trees. ITBAM 2014: 15-29 - [i1]Justin Feigelman, Fabian J. Theis, Carsten Marr:
MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. CoRR abs/1407.2112 (2014) - 2013
- [j4]Felix Buggenthin, Carsten Marr, Michael Schwarzfischer, Philipp S. Hoppe, Oliver Hilsenbeck, Timm Schroeder, Fabian J. Theis:
An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy. BMC Bioinform. 14: 297 (2013) - 2012
- [j3]Carsten Marr, Marc-Thorsten Hütt:
Cellular Automata on Graphs: Topological Properties of ER Graphs Evolved towards Low-Entropy Dynamics. Entropy 14(6): 993-1010 (2012) - 2010
- [j2]Carsten Marr, Fabian J. Theis, Larry S. Liebovitch, Marc-Thorsten Hütt:
Patterns of Subnet Usage Reveal Distinct Scales of Regulation in the Transcriptional Regulatory Network of Escherichia coli. PLoS Comput. Biol. 6(7) (2010)
2000 – 2009
- 2008
- [j1]Carsten Marr, Marcel Geertz, Marc-Thorsten Hütt, Georgi Muskhelishvili:
Dissecting the logical types of network control in gene expression profiles. BMC Syst. Biol. 2: 18 (2008)
Coauthor Index
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