Dr. rer. nat. Johannes Lotz - Fraunhofer MEVIS

Publications

2024

Huang B, Ying J, Lyu R, Schaadt NS, Klinkhammer BM, Boor P, Lotz J, Feuerhake F, Merhof D (2024) Utnetpara: A Hybrid CNN-Transformer Architecture with Multi-Scale Fusion for Whole-Slide Image Segmentation. Proceedings of the 21st IEEE International Symposium on Biomedical Imaging

Nicke T, Schaefer JR, Hoefener H, Feuerhake F, Merhof D, Kiessling F, Lotz J (2024) Tissue Concepts: supervised foundation models in computational pathology

Schäfer R, Nicke T, Höfener H, Lange A, Merhof D, Feuerhake F, Schulz V, Lotz J, Kiessling F (2024) Overcoming data scarcity in biomedical imaging with a foundational multi-task model. Nat Comput Sci online first

2023

Awan R, Raza SEA, Lotz J, Weiss N, Rajpoot N (2023) Deep feature based cross-slide registration. Computerized Medical Imaging and Graphics 104:102162

Berijanian M, Schaadt NS, Huang B, Lotz J, Feuerhake F, Merhof D (2023) Unsupervised many-to-many stain translation for histological image augmentation to improve classification accuracy. Journal of Pathology Informatics 14:100195

Bouteldja N, Hölscher DL, Klinkhammer BM, Buelow RD, Lotz J, Weiss N, Daniel C, Amann K, Boor P (2023) Stain-Independent Deep Learning–Based Analysis of Digital Kidney Histopathology. The American Journal of Pathology 193(1):73–83

2022

Miesen L, Bándi P, Willemsen B, Mooren F, Strieder T, Boldrini E, Drenic V, Eymael J, Wetzels R, Lotz J, Weiss N, Steenbergen E, van Kuppevelt TH, van Erp M, van der Laak J, Endlich N, Moeller MJ, Wetzels JFM, Jansen J, Smeets B (2022) Parietal epithelial cells maintain the epithelial cell continuum forming Bowman's space in focal segmental glomerulosclerosis. Dis Model Mech 15(3):dmm046342

2021

Balkenhol MCA, Ciompi F, Świderska-Chadaj Ż, van de Loo R, Intezar M, Otte-Höller I, Geijs D, Lotz J, Weiss N, de Bel T, Litjens G, Bult P, van der Laak JAWM (2021) Optimized tumour infiltrating lymphocyte assessment for triple negative breast cancer prognostics. The Breast 56:78–87

Homeyer A, Lotz J, Schwen LO, Weiss N, Romberg D, Höfener H, Zerbe N, Hufnagl P (2021) Artificial intelligence in pathology: From prototype to product. J Pathol Inform 12(1):13

2020

Borovec J, Kybic J, Arganda-Carreras I, Sorokin DV, Bueno G, Khvostikov AV, Bakas S, I-Chao Chang E, Heldmann S, Kartasalo K, Latonen L, Lotz J, Noga M, Pati S, Punithakumar K, Ruusuvuori P, Skalski A, Tahmasebi N, Valkonen M, Venet L, Wang Y, Weiss N, Wodzinski M, Xiang Y, Xu Y, Yan Y, Yushkevic P, Zhao S, Muñoz-Barrutia A (2020) ANHIR: Automatic Non-rigid Histological Image Registration Challenge. IEEE Trans Med Imaging 39(10):3042–3052

Lotz J (2020) Combined Local and Global Image Registration and its Application to Large-Scale Images in Digital Pathology. Ph.D. thesis

Mercan C, Mooij GCAM, Tellez D, Lotz J, Weiss N, van Gerven M, Ciompi F (2020) Virtual Staining for Mitosis Detection in Breast Histopathology. IEEE International Symposium on Biomedical Imaging. pp 1770–1774

2019

Bulten W, Bándi P, Hoven J, Loo R van de, Lotz J, Weiss N, Laak J van der, Ginneken B van, Hulsbergen-van de Kaa C, Litjens G (2019) Epithelium segmentation using deep learning in H&E-stained prostate specimens with immunohistochemistry as reference standard. Sci Rep 9:864

2017

Lotz JM, Hoffmann F, Lotz J, Heldmann S, Trede D, Oetjen J, Becker M, Ernst G, Maas P, Alexandrov T, Guntinas-Lichius O, Thiele H, von Eggeling F (2017) Integration of 3D multimodal imaging data of a head and neck cancer and advanced feature recognition. Biochim Biophys Acta 1865(7):946–956

2016

Lotz J, Olesch J, Müller B, Polzin T, Galuschka P, Lotz JM, Heldmann S, Laue H, González-Vallinas M, Warth A, Lahrmann B, Grabe N, Sedlaczek O, Breuhahn K, Modersitzki J (2016) Patch-Based Nonlinear Image Registration for Gigapixel Whole Slide Images. IEEE Transactions on Biomedical Engineering 63(9):1812–1819

Lotz J, Olesch J, Müller B, Polzin T, Galuschka P, Lotz JM, Heldmann S, Laue H, Warth A, Lahrmann B, Grabe N, Sedlaczek O, Breuhahn K, Modersitzki J (2016) Patch-Based Nonlinear Image Registration for Gigapixel Whole Slide Images. IEEE Trans Biomed Eng 63(9):1812–1819

Manka L, Schiffmann H, Thiele H, Randazzo M, Kwiatkowski M, Hiber D, Gassler N, Sperling M, Hammerer P, Lotz J, Laue H (2016) ProHistoMRI®: Proof of Principle – MRT/Histopathologische Fusion – Ein neuer Schritt in der Evaluation der MRT Diagnostik beim Prostatakarzinom. Kongress der Deutschen Gesellschaft für Urologie

2015

Guenther M, Bartscherer T, Georgii J, Hewener H, Kipshagen T, Ojdanic D, Kocev B, Lotz J, Olesch J, Rothluebbers S, Schwenke M, Speicher D, Tretbar S (2015) Towards MR-guided biopsy outside the MR-scanner: information fusion based on simultaneous ultrasound-MR imaging and real-time motion tracking. Proc. of CURAC 2015. pp 15–16

Laue H, Lotz J, Kohlmann P, Sedlaczek O, Hahn HK (2015) A software tool for aligning and linking morphological CT, quantitative DCE- and DWI-MRI with morphological CT and 3D pathology in lung cancer staging and tumor biology. Radiological Society of North America. QRR008

Laue H, Kohlmann P, Lotz J, Sedlaczek O, Müller B, Breuhahn K, Grabe N, Warth A, Hahn HK (2015) Software Support for Combined Staging of Lung Cancer in CT, Functional MRI and Pathology. Proc. of the 16th World Conference on Lung Cancer

Weiss N, Lotz J, Modersitzki J (2015) Multimodal Image Registration in Digital Pathology Using Cell Nuclei Densities. Bildverarbeitung für die Medizin 2015. pp 245–250

2014

Bronsert P, Enderle-Ammour K, Bader M, Timme S, Kuehs M, Csanadi A, Kayser G, Kohler I, Bausch D, Hoeppner J, Hopt UT, Keck T, Stickeler E, Passlick B, Schilling O, Reiss CP, Vashist Y, Brabletz T, Berger J, Lotz J, Olesch J, Werner M, Wellner UF (2014) Cancer cell invasion and EMT marker expression: a three-dimensional study of the human cancer-host interface. J Pathol 234(3):410–422

Georgii J, Bartscherer T, Degel C, Fonfara H, Hewener H, Kipshagen T, Kocev B, Lotz J, Ojdanic D, Olesch J, Rothlübbers S, Speicher D, Tretbar S, Hahn HK, Günther M (2014) Improving Breast Biopsies by Motion Tracking. Proc. of Image-Guided Interventions (IGIC). pp 79–80

Kowallick JT, Lamata P, Hussain ST, Kutty S, Steinmetz M, Sohns JM, Fasshauer M, Staab W, Unterberg-Buchwald C, Bigalke B, Lotz J, Hasenfuss G, Schuster A (2014) Quantification of left ventricular torsion and diastolic recoil using cardiovascular magnetic resonance myocardial feature tracking. PLoS ONE 9(10):e109164

Laue HOA, Kohlmann P, Dicken V, Moltz J, Sedlaczek O, Olesch J, Lotz J, Kikinis R, Hahn HK (2014) An application for comparing quantitative DCE- and DWI-MRI with pathology supporting investigators correlating radiology, pathology and tumor biology in lung cancer. Annual Meeting Radiological Society of North America (RSNA). QRR005

Lotz J, Berger J, Thiele H, Olesch J, Müller B, Breuhahn K, Warth A, Grabe N, Lahrmann B, Sedlaczek O, Heldmann S (2014) Elastic image registration on whole slide images for digital double staining and 3D reconstruction. European Molecular Imaging Meeting – EMIM. Poster Submission at the European Molecular Imaging Meeting – EMIM

Lotz J, Berger J, Müller B, Breuhahn K, Grabe N, Heldmann S, Homeyer A, Lahrmann B, Laue H, Olesch J, Schwier M, Sedlaczek O, Warth A (2014) Zooming in: High Resolution 3D Reconstruction of Differently Stained Histological Whole Slide Images. Proceeding of SPIE Medical Imaging: Digital Pathology. 904104:pp 1–7

Zhang S, Joseph AA, Voit D, Schaetz S, Merboldt K-D, Unterberg-Buchwald C, Hennemuth A, Lotz J, Frahm J (2014) Real-time magnetic resonance imaging of cardiac function and flow-recent progress. Quant Imaging Med Surg 4(5):313–329

2013

Lotz J, Fischer B, Olesch J, Günther M (2013) Real time motion analysis in 4D medical imaging using conditional density propagation. Proceedings of SPIE Medical Imaging. 86690T:pp 1–7

Mueller B, Olesch J, Lotz J, Barendt S, Sedlaczek O, Lahrmann B, Grabe N, Bestvater F, Kauczor U, Schnabel PA, Hoffmann H, Fischer B, Schirmacher P, Warth A, Breuhahn K (2013) 3D reconstruction of lung adenocarcinomas – one module for the development of mathematical multiscale models of lung cancer. Der Pathologe. 140