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368 results on '"Knoedler, Samuel"'

1. Xeno-learning: knowledge transfer across species in deep learning-based spectral image analysis

Author

Sellner, Jan, Studier-Fischer, Alexander, Qasim, Ahmad Bin, Seidlitz, Silvia, Schreck, Nicholas, Tizabi, Minu, Wiesenfarth, Manuel, Kopp-Schneider, Annette, Knödler, Samuel, Haney, Caelan Max, Salg, Gabriel, Özdemir, Berkin, Dietrich, Maximilian, Michel, Maurice Stephan, Nickel, Felix, Kowalewski, Karl-Friedrich, and Maier-Hein, Lena

Subjects
Computer Science - Computer Vision and Pattern Recognition, Computer Science - Artificial Intelligence, Computer Science - Machine Learning
Abstract

Novel optical imaging techniques, such as hyperspectral imaging (HSI) combined with machine learning-based (ML) analysis, have the potential to revolutionize clinical surgical imaging. However, these novel modalities face a shortage of large-scale, representative clinical data for training ML algorithms, while preclinical animal data is abundantly available through standardized experiments and allows for controlled induction of pathological tissue states, which is not ethically possible in patients. To leverage this situation, we propose a novel concept called "xeno-learning", a cross-species knowledge transfer paradigm inspired by xeno-transplantation, where organs from a donor species are transplanted into a recipient species. Using a total of 11,268 HSI images from humans as well as porcine and rat models, we show that although spectral signatures of organs differ across species, shared pathophysiological mechanisms manifest as comparable relative spectral changes across species. Such changes learnt in one species can thus be transferred to a new species via a novel "physiology-based data augmentation" method, enabling the large-scale secondary use of preclinical animal data for humans. The resulting ethical, monetary, and performance benefits of the proposed knowledge transfer paradigm promise a high impact of the methodology on future developments in the field., Comment: Jan Sellner and Alexander Studier-Fischer contributed equally to this work

Published
2024

6. CD71 expressing circulating neutrophils serve as a novel prognostic biomarker for metastatic spread and reduced outcome in pancreatic ductal adenocarcinoma patients

Author

Hansen, Frederik J., Mittelstädt, Anke, Clausen, Finn-Niklas, Knoedler, Samuel, Knoedler, Leonard, Klöckner, Sebastian, Kuchenreuther, Isabelle, Mazurie, Johanne, Arnold, Lisa-Sophie, Anthuber, Anna, Jacobsen, Anne, Merkel, Susanne, Weisel, Nadine, Klösch, Bettina, Karabiber, Alara, Tacyildiz, Irem, Czubayko, Franziska, Reitberger, Helena, Gendy, Amr El, Brunner, Maximilian, Krautz, Christian, Wolff, Kerstin, Mihai, Sidonia, Neufert, Clemens, Siebler, Jürgen, Grützmann, Robert, Weber, Georg F., and David, Paul

Published
2024
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11. The long-term intercorrelation between post-burn pain, anxiety, and depression: a post hoc analysis of the “RE-ENERGIZE” double-blind, randomized, multicenter placebo-controlled trial

Author

Panayi, Adriana C., Heyland, Daren K., Stoppe, Christian, Jeschke, Marc G., Didzun, Oliver, Matar, Dany, Tapking, Christian, Palackic, Alen, Bliesener, Björn, Harhaus, Leila, Knoedler, Samuel, Haug, Valentin, Bigdeli, Amir K., Kneser, Ulrich, Orgill, Dennis P., and Hundeshagen, Gabriel

Published
2024
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22. Robust deep learning-based semantic organ segmentation in hyperspectral images

Author

Seidlitz, Silvia, Sellner, Jan, Odenthal, Jan, Özdemir, Berkin, Studier-Fischer, Alexander, Knödler, Samuel, Ayala, Leonardo, Adler, Tim J., Kenngott, Hannes G., Tizabi, Minu, Wagner, Martin, Nickel, Felix, Müller-Stich, Beat P., and Maier-Hein, Lena

Subjects
Electrical Engineering and Systems Science - Image and Video Processing, Computer Science - Computer Vision and Pattern Recognition, Computer Science - Machine Learning, I.2.10, I.4.6, J.3
Abstract

Semantic image segmentation is an important prerequisite for context-awareness and autonomous robotics in surgery. The state of the art has focused on conventional RGB video data acquired during minimally invasive surgery, but full-scene semantic segmentation based on spectral imaging data and obtained during open surgery has received almost no attention to date. To address this gap in the literature, we are investigating the following research questions based on hyperspectral imaging (HSI) data of pigs acquired in an open surgery setting: (1) What is an adequate representation of HSI data for neural network-based fully automated organ segmentation, especially with respect to the spatial granularity of the data (pixels vs. superpixels vs. patches vs. full images)? (2) Is there a benefit of using HSI data compared to other modalities, namely RGB data and processed HSI data (e.g. tissue parameters like oxygenation), when performing semantic organ segmentation? According to a comprehensive validation study based on 506 HSI images from 20 pigs, annotated with a total of 19 classes, deep learning-based segmentation performance increases, consistently across modalities, with the spatial context of the input data. Unprocessed HSI data offers an advantage over RGB data or processed data from the camera provider, with the advantage increasing with decreasing size of the input to the neural network. Maximum performance (HSI applied to whole images) yielded a mean DSC of 0.90 ((standard deviation (SD)) 0.04), which is in the range of the inter-rater variability (DSC of 0.89 ((standard deviation (SD)) 0.07)). We conclude that HSI could become a powerful image modality for fully-automatic surgical scene understanding with many advantages over traditional imaging, including the ability to recover additional functional tissue information. Code and pre-trained models: https://github.com/IMSY-DKFZ/htc., Comment: The first two authors (Silvia Seidlitz and Jan Sellner) contributed equally to this paper

Published
2021
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30. Machine learning-based analysis of hyperspectral images for automated sepsis diagnosis

Author

Dietrich, Maximilian, Seidlitz, Silvia, Schreck, Nicholas, Wiesenfarth, Manuel, Godau, Patrick, Tizabi, Minu, Sellner, Jan, Marx, Sebastian, Knödler, Samuel, Allers, Michael M., Ayala, Leonardo, Schmidt, Karsten, Brenner, Thorsten, Studier-Fischer, Alexander, Nickel, Felix, Müller-Stich, Beat P., Kopp-Schneider, Annette, Weigand, Markus A., and Maier-Hein, Lena

Subjects
Electrical Engineering and Systems Science - Image and Video Processing, Computer Science - Computer Vision and Pattern Recognition, Computer Science - Machine Learning, I.2.10, I.4, I.5, J.3
Abstract

Sepsis is a leading cause of mortality and critical illness worldwide. While robust biomarkers for early diagnosis are still missing, recent work indicates that hyperspectral imaging (HSI) has the potential to overcome this bottleneck by monitoring microcirculatory alterations. Automated machine learning-based diagnosis of sepsis based on HSI data, however, has not been explored to date. Given this gap in the literature, we leveraged an existing data set to (1) investigate whether HSI-based automated diagnosis of sepsis is possible and (2) put forth a list of possible confounders relevant for HSI-based tissue classification. While we were able to classify sepsis with an accuracy of over $98\,\%$ using the existing data, our research also revealed several subject-, therapy- and imaging-related confounders that may lead to an overestimation of algorithm performance when not balanced across the patient groups. We conclude that further prospective studies, carefully designed with respect to these confounders, are necessary to confirm the preliminary results obtained in this study., Comment: Maximilian Dietrich and Silvia Seidlitz contributed equally. Markus A. Weigand and Lena Maier-Hein contributed equally

Published
2021

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