Publications

Yuhao Liu, Shubham Rai, Salim Ullah, and Akash Kumar. NetPU-M: a Generic Reconfigurable Neural Network Accelerator Architecture for MLPs. 2023 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), 85-92, 2023. [PUMA: zno]

Florian Levet, Anne E Carpenter, Kevin W Eliceiri, Anna Kreshuk, Peter Bankhead, and Robert Haase. Developing open-source software for bioimage analysis: opportunities and challenges. F1000Research, (10)Faculty of 1000 Ltd, 2021. [PUMA: zno]

Anna Bandurska-Luque, Steffen Löck, Robert Haase, Christian Richter, Klaus Zöphel, Rosalind Perrin, Steffen Appold, Mechthild Krause, Jörg Steinbach, Jörg Kotzerke, and others. Correlation between FMISO-PET based hypoxia in the primary tumour and in lymph node metastases in locally advanced HNSCC patients. Clinical and translational radiation oncology, (15):108--112, Elsevier, 2019. [PUMA: zno]

Falk Tillner, Prasad Thute, Steffen Löck, Antje Dietrich, Andriy Fursov, Robert Haase, Mathias Lukas, Bernd Rimarzig, Manfred Sobiella, Mechthild Krause, and others. Precise image-guided irradiation of small animals: a flexible non-profit platform. Physics in Medicine & Biology, (61)8:3084, IOP Publishing, 2016. [PUMA: zno]

Gabriel G Martins, Fabrice P Cordelières, Julien Colombelli, Rocco D’antuono, Ofra Golani, Romain Guiet, Robert Haase, Anna H Klemm, Marion Louveaux, Perrine Paul-Gilloteaux, and others. Highlights from the 2016-2020 NEUBIAS training schools for Bioimage Analysts: a success story and key asset for analysts and life scientists. F1000Research, (10)Faculty of 1000 Ltd, 2021. [PUMA: zno]

Annika Jakobi, Kristin Stützer, Anna Bandurska-Luque, Steffen Löck, Robert Haase, Linda-Jacqueline Wack, David Mönnich, Daniel Thorwarth, Damien Perez, Armin Lühr, and others. NTCP reduction for advanced head and neck cancer patients using proton therapy for complete or sequential boost treatment versus photon therapy. Acta Oncologica, (54)9:1658--1664, Taylor & Francis, 2015. [PUMA: zno]

Pallavi Subramanian, Sofia Gargani, Alessandra Palladini, Margarita Chatzimike, Michal Grzybek, Mirko Peitzsch, Anastasios D Papanastasiou, Iryna Pyrina, Vasileios Ntafis, Bettina Gercken, and others. The RNA binding protein human antigen R is a gatekeeper of liver homeostasis. Hepatology, (75)4:881--897, 2022. [PUMA: zno]

Robert Haase, Loic A Royer, Peter Steinbach, Deborah Schmidt, Alexandr Dibrov, Uwe Schmidt, Martin Weigert, Nicola Maghelli, Pavel Tomancak, Florian Jug, and 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, and 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, and 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]

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

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, and Johanna Bergman. Roadmap on Deep Learning for Microscopy. 2023. [PUMA: Deep_Learning Microscopy Roadmap zno] URL

Martin Weigert, Uwe Schmidt, Robert Haase, Ko Sugawara, and 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]

A Bandurska-Luque, S Loeck, R Haase, C Richter, K Zoephel, R Perrin, A Seidlitz, S Zschaeck, S Appold, M Krause, and 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]

Anna Bandurska-Luque, Steffen Löck, Robert Haase, Christian Richter, Klaus Zöphel, Nasreddin Abolmaali, Annekatrin Seidlitz, Steffen Appold, Mechthild Krause, Jörg Steinbach, and 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, and others. High-precision image-guided proton irradiation of mouse brain sub-volumes. Radiotherapy and Oncology, (146):205--212, Elsevier, 2020. [PUMA: zno]

Merlin Lange, Alejandro Granados, Shruthi VijayKumar, Jordao Bragantini, Sarah Ancheta, Sreejith Santhosh, Michael Borja, Hirofumi Kobayashi, Erin McGeever, Ahmet Can Solak, and 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, and Ricardo Henriques. NanoPyx: super-fast bioimage analysis powered by adaptive machine learning. bioRxiv, 2023--08, Cold Spring Harbor Laboratory, 2023. [PUMA: zno]

Stefan Leger, Steffen Löck, Volker Hietschold, Robert Haase, Hans Joachim Böhme, and Nasreddin Abolmaali. Physical correction model for automatic correction of intensity non-uniformity in magnetic resonance imaging. Physics and Imaging in Radiation Oncology, (4):32--38, Elsevier, 2017. [PUMA: zno]

Sebastian Zschaeck, Yimin Li, Qin Lin, Marcus Beck, Holger Amthauer, Laura Bauersachs, Marina Hajiyianni, Julian Rogasch, Vincent H Ehrhardt, Goda Kalinauskaite, and others. Prognostic value of baseline 18F-fluorodeoxyglucose positron emission tomography parameters MTV, TLG and asphericity in an international multicenter cohort of nasopharyngeal carcinoma patients. PloS one, (15)7:e0236841, Public Library of Science San Francisco, CA USA, 2020. [PUMA: zno]