Publications

Robert Haase, Loic A Royer, Peter Steinbach, Deborah Schmidt, Alexandr Dibrov, Uwe Schmidt, Martin Weigert, Nicola Maghelli, Pavel Tomancak, Florian Jug, und others. CLIJ: GPU-accelerated image processing for everyone. Nature methods, (17)1:5--6, Nature Publishing Group US New York, 2020. [PUMA: zno]

Matús Kalas, Laure Plantard, Natasa Sladoje, Joakim Lindblad, Moritz Alexander Kirschmann, Martin Jones, Anatole Chessel, Leandro Aluisio Scholz, Fabienne Rössler, Alexandre Dufour, und others. EDAM-bioimaging: The ontology of bioimage informatics operations, topics, data, and formats (update 2020). ELIXIR All Hands 2020, 2020. [PUMA: zno]

Akanksha Jain, Vladimir Ulman, Arghyadip Mukherjee, Mangal Prakash, Marina B Cuenca, Lokesh G Pimpale, Stefan Münster, Robert Haase, Kristen A Panfilio, Florian Jug, und others. Regionalized tissue fluidization is required for epithelial gap closure during insect gastrulation. Nature communications, (11)1:5604, Nature Publishing Group UK London, 2020. [PUMA: zno]

Frank Cichos, Santiago Muiños Landin, und Ravi Pradip. Chapter 5 - Artificial intelligence (AI) enhanced nanomotors and active matter. In Yuebing Zheng, und Zilong Wu (Hrsg.), Intelligent Nanotechnology, 113-144, Elsevier, 2023. [PUMA: Active_particles Feedback_control Machine_learning Multi_agent_reinforcement_learning Optical_control Reinforcement_learning nopdf] URL

Robert Haase, Elnaz Fazeli, David Legland, Michael Doube, Siân Culley, Ilya Belevich, Eija Jokitalo, Martin Schorb, Anna Klemm, und Christian Tischer. A hitchhiker's guide through the bio-image analysis software universe. Febs Letters, (596)19:2472--2485, 2022. [PUMA: zno]

Robert Haase, Christian Tischer, Peter Bankhead, Kota Miura, und Beth A Cimini. A Call for FAIR and Open-Access Training Materials to advance Bioimage Analysis. 2024. [PUMA: xack]

Giovanni Volpe, Carolina Wählby, Lei Tian, Michael Hecht, Artur Yakimovich, Kristina Monakhova, Laura Waller, Ivo F. Sbalzarini, Christopher A. Metzler, Mingyang Xie, Kevin Zhang, Isaac C. D. Lenton, Halina Rubinsztein-Dunlop, Daniel Brunner, Bijie Bai, Aydogan Ozcan, Daniel Midtvedt, Hao Wang, Nataša Sladoje, Joakim Lindblad, Jason T. Smith, Marien Ochoa, Margarida Barroso, Xavier Intes, Tong Qiu, Li-Yu Yu, Sixian You, Yongtao Liu, Maxim A. Ziatdinov, Sergei V. Kalinin, Arlo Sheridan, Uri Manor, Elias Nehme, Ofri Goldenberg, Yoav Shechtman, Henrik K. Moberg, Christoph Langhammer, Barbora Špačková, Saga Helgadottir, Benjamin Midtvedt, Aykut Argun, Tobias Thalheim, Frank Cichos, Stefano Bo, Lars Hubatsch, Jesus Pineda, Carlo Manzo, Harshith Bachimanchi, Erik Selander, Antoni Homs-Corbera, Martin Fränzl, Kevin de Haan, Yair Rivenson, Zofia Korczak, Caroline Beck Adiels, Mite Mijalkov, Dániel Veréb, Yu-Wei Chang, Joana B. Pereira, Damian Matuszewski, Gustaf Kylberg, Ida-Maria Sintorn, Juan C. Caicedo, Beth A Cimini, Muyinatu A. Lediju Bell, Bruno M. Saraiva, Guillaume Jacquemet, Ricardo Henriques, Wei Ouyang, Trang Le, Estibaliz Gómez de Mariscal, Daniel Sage, Arrate Muñoz-Barrutia, Ebba Josefson Lindqvist, und Johanna Bergman. Roadmap on Deep Learning for Microscopy. 2023. [PUMA: Deep_Learning Microscopy Roadmap zno] URL

Suse Seidemann, Florian Salomon, Karl Hoffmann, Thomas Kurth, Ivo F Sbalzarini, Robert Haase, und Marius Ader. Automated Quantification of Photoreceptor Outer Segments in Developing and Degenerating Retinas on Microscopic Images across Scales. Investigative Ophthalmology & Visual Science, (65)7:5878--5878, The Association for Research in Vision and Ophthalmology, 2024. [PUMA: yaff]

Annika Reinke, Minu D Tizabi, Carole H Sudre, Matthias Eisenmann, Tim Rädsch, Michael Baumgartner, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, und others. Common limitations of image processing metrics: A picture story. arXiv preprint arXiv:2104.05642, 2021. [PUMA: yaff]

Lena Maier-Hein, Annika Reinke, Patrick Godau, Minu D Tizabi, Florian Buettner, Evangelia Christodoulou, Ben Glocker, Fabian Isensee, Jens Kleesiek, Michal Kozubek, und others. Metrics reloaded: recommendations for image analysis validation. Nature methods, (21)2:195--212, Nature Publishing Group US New York, 2024. [PUMA: yaff]

Martin Weigert, Uwe Schmidt, Robert Haase, Ko Sugawara, und Gene Myers. Star-convex polyhedra for 3D object detection and segmentation in microscopy. Proceedings of the IEEE/CVF winter conference on applications of computer vision, 3666--3673, 2020. [PUMA: zno]

Lucrezia C Ferme, Allyson Q Ryan, Robert Haase, Carl D Modes, und Caren Norden. Timely neurogenesis enables increased nuclear packing order during neuronal lamination. bioRxiv, 2024--11, Cold Spring Harbor Laboratory, 2024. [PUMA: yaff]

A Bandurska-Luque, S Loeck, R Haase, C Richter, K Zoephel, R Perrin, A Seidlitz, S Zschaeck, S Appold, M Krause, und others. The prognostic value of FMISO-PET-based synchronous tumor and lymph node hypoxia outperforms that of tumor hypoxia only in patients with advanced stage HNSSC-secondary analysis of Dresden FMISO trail. ONCOLOGY RESEARCH AND TREATMENT, (41):186--186, 2018. [PUMA: zno]

Matthias Arzt, Joran Deschamps, Christopher Schmied, Tobias Pietzsch, Deborah Schmidt, Pavel Tomancak, Robert Haase, und Florian Jug. LABKIT: labeling and segmentation toolkit for big image data. Frontiers in computer science, (4):777728, Frontiers, 2022. [PUMA: yaff]

Anna Bandurska-Luque, Steffen Löck, Robert Haase, Christian Richter, Klaus Zöphel, Nasreddin Abolmaali, Annekatrin Seidlitz, Steffen Appold, Mechthild Krause, Jörg Steinbach, und others. FMISO-PET-based lymph node hypoxia adds to the prognostic value of tumor only hypoxia in HNSCC patients. Radiotherapy and Oncology, (130):97--103, Elsevier, 2019. [PUMA: zno]

Theresa Suckert, Johannes Müller, Elke Beyreuther, Behnam Azadegan, Anja Brüggemann, Rebecca Bütof, Antje Dietrich, Malte Gotz, Robert Haase, Michael Schürer, und others. High-precision image-guided proton irradiation of mouse brain sub-volumes. Radiotherapy and Oncology, (146):205--212, Elsevier, 2020. [PUMA: zno]

Beth A Cimini, Peter Bankhead, Rocco d'Antuono, Elnaz Fazeli, Julia Fernandez-Rodriguez, Caterina Fuster-Barceló, Robert Haase, Helena Klara Jambor, Martin L Jones, Florian Jug, und others. The crucial role of bioimage analysts in scientific research and publication. Journal of cell science, (137)20The Company of Biologists, 2024. [PUMA: xack]

Merlin Lange, Alejandro Granados, Shruthi VijayKumar, Jordao Bragantini, Sarah Ancheta, Sreejith Santhosh, Michael Borja, Hirofumi Kobayashi, Erin McGeever, Ahmet Can Solak, und others. Zebrahub--Multimodal zebrafish developmental atlas reveals the State-transition dynamics of late-vertebrate pluripotent axial progenitors. BioRxiv, 2023--03, Cold Spring Harbor Laboratory, 2023. [PUMA: zno]

Bruno M Saraiva, Inês M Cunha, António D Brito, Gautier Follain, Raquel Portela, Robert Haase, Pedro M Pereira, Guillaume Jacquemet, und Ricardo Henriques. NanoPyx: super-fast bioimage analysis powered by adaptive machine learning. bioRxiv, 2023--08, Cold Spring Harbor Laboratory, 2023. [PUMA: zno]

Luke Sorensen, Adam Humenick, Sabrina SB Poon, Myat Noe Han, Narges S Mahdavian, Matthew C Rowe, Ryan Hamnett, Estibaliz Gómez-de Mariscal, Peter H Neckel, Ayame Saito, und others. Gut Analysis Toolbox--automating quantitative analysis of enteric neurons. Journal of Cell Science, (137)20The Company of Biologists, 2024. [PUMA: yaff]