Christian Marzahl

2023

Journal Articles

• Aubreville M., Stathonikos N., Bertram CA., Klopfleisch R., ter Hoeve N., Ciompi F., Wilm F., Marzahl C., Donovan TA., Maier A., Breen J., Ravikumar N., Chung Y., Park J., Nateghi R., Pourakpour F., Fick RH., Ben Hadj S., Jahanifar M., Shephard A., Dexl J., Wittenberg T., Kondo S., Lafarge MW., Koelzer VH., Liang J., Wang Y., Long X., Liu J., Razavi S., Khademi A., Yang S., Wang X., Erber R., Klang A., Lipnik K., Bolfa P., Dark MJ., Wasinger G., Veta M., Breininger K.:
  Mitosis domain generalization in histopathology images — The MIDOG challenge
  In: Medical Image Analysis 84 (2023), Article No.: 102699
  ISSN: 1361-8415
  DOI: 10.1016/j.media.2022.102699
  BibTeX: Download

2022

Journal Articles

• Wilm F., Fragoso M., Marzahl C., Qiu J., Puget C., Diehl L., Bertram CA., Klopfleisch R., Maier A., Breininger K., Aubreville M.:
  Pan-tumor CAnine cuTaneous Cancer Histology (CATCH) dataset
  In: Scientific Data 9 (2022), Article No.: 588
  ISSN: 2052-4463
  DOI: 10.1038/s41597-022-01692-w
  BibTeX: Download
• Marzahl C., Hill J., Stayt J., Bienzle D., Welker L., Wilm F., Voigt J., Aubreville M., Maier A., Klopfleisch R., Breininger K., Bertram CA.:
  Inter-species cell detection - datasets on pulmonary hemosiderophages in equine, human and feline specimens
  In: Scientific Data 9 (2022)
  ISSN: 2052-4463
  DOI: 10.1038/s41597-022-01389-0
  BibTeX: Download
• Bertram CA., Aubreville M., Donovan TA., Bartel A., Wilm F., Marzahl C., Assenmacher CA., Becker K., Bennett M., Corner S., Cossic B., Denk D., Dettwiler M., Gonzalez BG., Gurtner C., Haverkamp AK., Heier A., Lehmbecker A., Merz S., Noland EL., Plog S., Schmidt A., Sebastian F., Sledge DG., Smedley RC., Tecilla M., Thaiwong T., Fuchs-Baumgartinger A., Meuten DJ., Breininger K., Kiupel M., Maier A., Klopfleisch R.:
  Computer-assisted mitotic count using a deep learning–based algorithm improves interobserver reproducibility and accuracy
  In: Veterinary Pathology 59 (2022), p. 211-226
  ISSN: 0300-9858
  DOI: 10.1177/03009858211067478
  BibTeX: Download
• Bertram CA., Aubreville M., Donovan TA., Bartel A., Wilm F., Marzahl C., Assenmacher CA., Becker K., Bennett M., Corner S., Cossic B., Denk D., Dettwiler M., Gonzalez BG., Gurtner C., Haverkamp AK., Heier A., Lehmbecker A., Merz S., Noland EL., Plog S., Schmidt A., Sebastian F., Sledge DG., Smedley RC., Tecilla M., Thaiwong T., Fuchs-Baumgartinger A., Meuten DJ., Breininger K., Kiupel M., Maier A., Klopfleisch R.:
  Computer Assistance: A New Gold Standard for the Mitotic Count?
  In: Journal of Comparative Pathology 191 (2022)
  ISSN: 0021-9975
  BibTeX: Download
• Bertram CA., Marzahl C., Bartel A., Stayt J., Bonsembiante F., Beeler-Marfisi J., Barton AK., Brocca G., Gelain ME., Glasel A., Du Preez K., Weiler K., Weissenbacher-Lang C., Breininger K., Aubreville M., Maier A., Klopfleisch R., Hill J.:
  Cytologic scoring of equine exercise-induced pulmonary hemorrhage: Performance of human experts and a deep learning-based algorithm
  In: Veterinary Pathology (2022)
  ISSN: 0300-9858
  DOI: 10.1177/03009858221137582
  BibTeX: Download

Conference Contributions

• Kunzmann S., Marzahl C., Denzinger F., Bertram C., Klopfleisch R., Breininger K., Christlein V., Maier A.:
  First Steps on Gamification of Lung Fluid Cells Annotations in the Flower Domain
  German Workshop on Medical Image Computing, 2022 (Heidelberg, DEU, June 26, 2022 - June 28, 2022)
  In: Klaus Maier-Hein, Thomas M. Deserno, Heinz Handels, Andreas Maier, Christoph Palm, Thomas Tolxdorff (ed.): Informatik aktuell 2022
  DOI: 10.1007/978-3-658-36932-3_48
  BibTeX: Download
• Öttl M., Mönius J., Marzahl C., Rübner M., Geppert C., Hartmann A., Beckmann M., Fasching P., Maier A., Erber R., Breininger K.:
  Superpixel Pre-segmentation of HER2 Slides for Efficient Annotation
  German Workshop on Medical Image Computing, 2022 (Heidelberg, DEU, June 26, 2022 - June 28, 2022)
  In: Klaus Maier-Hein, Thomas M. Deserno, Heinz Handels, Andreas Maier, Christoph Palm, Thomas Tolxdorff (ed.): Informatik aktuell 2022
  DOI: 10.1007/978-3-658-36932-3_54
  BibTeX: Download
• Wilm F., Marzahl C., Breininger K., Aubreville M.:
  Domain Adversarial RetinaNet as a Reference Algorithm for the MItosis DOmain Generalization Challenge
  24th International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2021 (Strasbourg, FRA, September 27, 2021 - October 1, 2021)
  In: Marc Aubreville, David Zimmerer, Mattias Heinrich (ed.): Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2022
  DOI: 10.1007/978-3-030-97281-3_1
  BibTeX: Download

2021

Journal Articles

• Marzahl C., Aubreville M., Bertram CA., Maier J., Bergler C., Kröger C., Voigt J., Breininger K., Klopfleisch R., Maier A.:
  EXACT: a collaboration toolset for algorithm-aided annotation of images with annotation version control
  In: Scientific Reports 11 (2021), Article No.: 4343
  ISSN: 2045-2322
  DOI: 10.1038/s41598-021-83827-4
  BibTeX: Download

Conference Contributions

• Marzahl C., Wilm F., Dressler FF., Tharun L., Perner S., Bertram CA., Kröger C., Voigt J., Klopfleisch R., Maier A., Aubreville M., Breininger K.:
  Robust Quad-Tree based Registration on Whole Slide Images
  MICCAI Computational Pathlogy (COMPAY) Workshop
  BibTeX: Download
• Marzahl C., Bertram CA., Aubreville M., Petrick A., Weiler K., Gläsel AC., Fragoso M., Merz S., Bartenschlager F., Hoppe J., Langenhagen A., Jasensky AK., Voigt J., Klopfleisch R., Maier A.:
  Abstract: Are Fast Labeling Methods Reliable?: A Case Study of Computer-aided Expert Annotations on Microscopy Slides
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_71
  BibTeX: Download
• Aubreville M., Bertram CA., Marzahl C., Gurtner C., Dettwiler M., Schmidt A., Bartenschlager F., Merz S., Fragoso M., Kershaw O., Klopeisch R., Maier A.:
  Abstract: Deep Learning Algorithms Out-perform Veterinary Pathologists in Detecting the Mitotically Most Active Tumor Region
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_60
  BibTeX: Download
• Marzahl C., Aubreville M., Bertram CA., Stayt J., Jasensky AK., Bartenschlager F., Fragoso M., Barton AK., Elsemann S., Jabari S., Krauth J., Madhu P., Voigt J., Hill J., Klopfleisch R., Maier A.:
  Abstract: Deep Learning-based Quantification of Pulmonary Hemosiderophages in Cytology Slides
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_13
  BibTeX: Download
• Aubreville M., Bertram CA., Donovan TA., Marzahl C., Maier A., Klopfleisch R.:
  A Completely Annotated Whole Slide Image Dataset of Canine Breast Cancer to Aid Human Breast Cancer Research
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_48
  BibTeX: Download
• Marzahl C., Bertram CA., Wilm F., Voigt J., Barton AK., Klopfleisch R., Breininger K., Maier A., Aubreville M.:
  Cell Detection for Asthma on Partially Annotated Whole Slide Images: Learning to be EXACT
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_36
  BibTeX: Download
• Bertram CA., Donovan TA., Tecilla M., Bartenschlager F., Fragoso M., Wilm F., Marzahl C., Breininger K., Maier A., Klopfleisch R., Aubreville M.:
  Dataset on Bi- and Multi-nucleated Tumor Cells in Canine Cutaneous Mast Cell Tumors
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_33
  BibTeX: Download
• Wilm F., Bertram CA., Marzahl C., Bartel A., Donovan TA., Assenmacher CA., Becker K., Bennett M., Corner S., Cossic B., Denk D., Dettwiler M., Gonzalez BG., Gurtner C., Heier A., Lehmbecker A., Merz S., Plog S., Schmidt A., Sebastian F., Smedley RC., Tecilla M., Thaiwong T., Breininger K., Kiupel M., Maier A., Klopfleisch R., Aubreville M.:
  Influence of Inter-Annotator Variability on Automatic Mitotic Figure Assessment
  German Workshop on Medical Image Computing, 2021 (Regensburg, March 7, 2021 - March 9, 2021)
  In: Christoph Palm, Heinz Handels, Klaus Maier-Hein, Thomas M. Deserno, Andreas Maier, Thomas Tolxdorff (ed.): Informatik aktuell 2021
  DOI: 10.1007/978-3-658-33198-6_56
  BibTeX: Download
• Theelke L., Wilm F., Marzahl C., Bertram CA., Klopfleisch R., Maier A., Aubreville M., Breininger K.:
  Iterative Cross-Scanner Registration for Whole Slide Images
  IEEE/CVF International Conference on Computer Vision (ICCVW)
  In: 2021 IEEE/CVF INTERNATIONAL CONFERENCE ON COMPUTER VISION WORKSHOPS (ICCVW 2021), LOS ALAMITOS: 2021
  DOI: 10.1109/ICCVW54120.2021.00071
  BibTeX: Download

2020

Journal Articles

• Aubreville M., Bertram CA., Donovan TA., Marzahl C., Maier A., Klopfleisch R.:
  A completely annotated whole slide image dataset of canine breast cancer to aid human breast cancer research
  In: Scientific Data 7 (2020), Article No.: 417
  ISSN: 2052-4463
  DOI: 10.1038/s41597-020-00756-z
  BibTeX: Download
• Aubreville M., Bertram CA., Marzahl C., Gurtner C., Dettwiler M., Schmidt A., Bartenschlager F., Merz S., Fragoso M., Kershaw O., Klopfleisch R., Maier A.:
  Deep learning algorithms out-perform veterinary pathologists in detecting the mitotically most active tumor region
  In: Scientific Reports 10 (2020), Article No.: 16447
  ISSN: 2045-2322
  DOI: 10.1038/s41598-020-73246-2
  BibTeX: Download
• Marzahl C., Aubreville M., Bertram CA., Stayt J., Jasensky AK., Bartenschlager F., Fragoso-Garcia M., Barton AK., Elsemann S., Jabari S., Krauth J., Madhu P., Voigt J., Hill J., Klopfleisch R., Maier A.:
  Deep Learning-Based Quantification of Pulmonary Hemosiderophages in Cytology Slides
  In: Scientific Reports 10 (2020), Article No.: 9795
  ISSN: 2045-2322
  DOI: 10.1038/s41598-020-65958-2
  BibTeX: Download

Book Contributions

• Aubreville M., Bertram CA., Jabari S., Marzahl C., Klopfleisch R., Maier A.:
  Inter-Species, Inter-Tissue Domain Adaptation for Mitotic Figure Assessment - Learning New Tricks from Old Dogs
  In: Tolxdorff T., Deserno T., Handels H., Maier A., Maier-Hein K., Palm C. (ed.): Bildverarbeitung für die Medizin 2020, Wiesbaden: Springer Vieweg, 2020, p. 1-7
  ISBN: 9783658292669
  DOI: 10.1007/978-3-658-29267-6_1
  URL: https://arxiv.org/pdf/1911.10873.pdf
  BibTeX: Download

Conference Contributions

• Bertram CA., Aubreville M., Marzahl C., Maier A., Klopfleisch R.:
  How Big is Big Enough?: A Large-Scale Histological Dataset of Mitotic Figures
  Bildverarbeitung für die Medizin 2020 (Berlin, March 17, 2020 - March 19, 2020)
  In: Tolxdorff T., Deserno T., Handels H., Maier A., Maier-Hein K., Palm C. (ed.): Bildverarbeitung für die Medizin 2020, Wiesbaden: 2020
  DOI: 10.1007/978-3-658-29267-6_65
  URL: https://link.springer.com/content/pdf/10.1007/978-3-658-29267-6_65.pdf
  BibTeX: Download
• Marzahl C., Bertram CA., Aubreville M., Petrick A., Weiler K., Gläsel AC., Fragoso M., Merz S., Bartenschlager F., Hoppe J., Langenhagen A., Jasensky AK., Voigt J., Klopfleisch R., Maier A.:
  Are fast labeling methods reliable? a case study of computer-aided expert annotations on microscopy slides
  23rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2020 (Lima, October 4, 2020 - October 8, 2020)
  In: Anne L. Martel, Purang Abolmaesumi, Danail Stoyanov, Diana Mateus, Maria A. Zuluaga, S. Kevin Zhou, Daniel Racoceanu, Leo Joskowicz (ed.): Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2020
  DOI: 10.1007/978-3-030-59710-8_3
  BibTeX: Download
• Marzahl C., Aubreville M., Bertram CA., Gerlach S., Maier J., Voigt J., Hill J., Klopfleisch R., Maier A.:
  Is crowd-algorithm collaboration an advanced alternative to crowd-sourcing on cytology slides?
  International workshop on Algorithmen - Systeme - Anwendungen, 2020 (Berlin, March 15, 2020 - March 17, 2020)
  In: Thomas Tolxdorff, Thomas M. Deserno, Heinz Handels, Andreas Maier, Klaus H. Maier-Hein, Christoph Palm (ed.): Informatik aktuell 2020
  DOI: 10.1007/978-3-658-29267-6_5
  BibTeX: Download
• Bertram CA., Veta M., Marzahl C., Stathonikos N., Maier A., Klopfleisch R., Aubreville M.:
  Are Pathologist-Defined Labels Reproducible? Comparison of the TUPAC16 Mitotic Figure Dataset with an Alternative Set of Labels
  IMIMIC 2020, MIL3ID 2020, LABELS 2020 (Lima, October 4, 2020 - October 8, 2020)
  In: Jaime Cardoso, Wilson Silva, Ricardo Cruz, Hien Van Nguyen, Badri Roysam, Nicholas Heller, Pedro Henriques Abreu, Jose Pereira Amorim, Ivana Isgum, Vishal Patel, Kevin Zhou, Steve Jiang, Ngan Le, Khoa Luu, Raphael Sznitman, Veronika Cheplygina, Samaneh Abbasi, Diana Mateus, Emanuele Trucco (ed.): Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2020
  DOI: 10.1007/978-3-030-61166-8_22
  BibTeX: Download

2019

Journal Articles

• Bertram CA., Aubreville M., Marzahl C., Maier A., Klopfleisch R.:
  A large-scale dataset for mitotic figure assessment on whole slide images of canine cutaneous mast cell tumor
  In: Scientific Data 6 (2019), p. 1-9
  ISSN: 2052-4463
  DOI: 10.1038/s41597-019-0290-4
  URL: https://www.nature.com/articles/s41597-019-0290-4.pdf
  BibTeX: Download

Book Contributions

• Marzahl C., Aubreville M., Voigt J., Maier A.:
  Classification of leukemic B-Lymphoblast cells from blood smear microscopic images with an attention-based deep learning method and advanced augmentation techniques
  In: Anubha Gupta, Ritu Gupta (ed.): ISBI 2019 C-NMC Challenge: Classification in Cancer Cell Imaging, Springer, 2019, p. 13-22 (Lecture Notes in Bioengineering)
  DOI: 10.1007/978-981-15-0798-4_2
  BibTeX: Download