Bernd Bodenmiller

ZORA Publication List

Publications

• Kuett, Laura; Bollhagen, Alina; Tietscher, Sandra; Sobottka, Bettina; Eling, Nils; Varga, Zsuzsanna; Moch, Holger; de Souza, Natalie; Bodenmiller, Bernd (2025). Distant Metastases of Breast Cancer Resemble Primary Tumors in Cancer Cell Composition but Differ in Immune Cell Phenotypes. Cancer Research, 85(1):15-31.
• Bodenmiller, Bernd (2024). Highly multiplexed imaging in the omics era: understanding tissue structures in health and disease. Nature Methods, 21(12):2209-2211.
• Hurst, Verena; Gerhold, Christian B; Tarashev, Cleo V D; Challa, Kiran; Seeber, Andrew; Yamazaki, Shota; Knapp, Britta; Helliwell, Stephen B; Bodenmiller, Bernd; Harata, Masahiko; Shimada, Kenji; Gasser, Susan M (2024). Loss of cytoplasmic actin filaments raises nuclear actin levels to drive INO80C-dependent chromosome fragmentation. Nature Communications, 15(1):9910.
• Bollhagen, Alina; Bodenmiller, Bernd (2024). Highly Multiplexed Tissue Imaging in Precision Oncology and Translational Cancer Research. Cancer Discovery, 14(11):2071-2088.
• Wegmann, Rebekka; Bonilla, Ximena; Casanova, Ruben; Chevrier, Stéphane; Coelho, Ricardo; Esposito, Cinzia; Ficek-Pascual, Joanna; Goetze, Sandra; Gut, Gabriele; Jacob, Francis; Jacobs, Andrea; Kuipers, Jack; Lischetti, Ulrike; Mena, Julien; Milani, Emanuela S; Prummer, Michael; Del Castillo, Jacobo Sarabia; Singer, Franziska; Sivapatham, Sujana; Toussaint, Nora C; Vilinovszki, Oliver; Wildschut, Mattheus H E; Thavayogarajah, Tharshika; Malani, Disha; TumorProfiler Consortium; et al; Aebersold, Rudolf; Bacac, Marina; Beerenwinkel, Niko; Beisel, Christian; Bodenmiller, Bernd; Koelzer, Viktor H; Moch, Holger (2024). Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia. Nature Communications, 15(1):9402.
• Arekatla, Geethika; Skylaki, Stavroula; Corredor Suarez, David; Jackson, Hartland; Schapiro, Denis; Engler, Stefanie; Auler, Markus; Camargo Ortega, German; Hastreiter, Simon; Reimann, Andreas; Loeffler, Dirk; Bodenmiller, Bernd; Schroeder, Timm (2024). Identification of an embryonic differentiation stage marked by Sox1 and FoxA2 co-expression using combined cell tracking and high dimensional protein imaging. Nature Communications, 15(1):7860.
• Cords, Lena; de Souza, Natalie; Bodenmiller, Bernd (2024). Classifying cancer-associated fibroblasts-The good, the bad, and the target. Cancer Cell, 42(9):1480-1485.
• Immer, Alexander; Stark, Stefan G; Jacob, Francis; Bonilla, Ximena; Thomas, Tinu; Kahles, André; Goetze, Sandra; Milani, Emanuela S; Wollscheid, Bernd; Aebersold, Rudolf; Ak, Melike; Al-Quaddoomi, Faisal S; Albert, Silvana I; Albinus, Jonas; Alborelli, Ilaria; Andani, Sonali; Attinger, Per-Olof; Bacac, Marina; Baumhoer, Daniel; Beck-Schimmer, Beatrice; Beerenwinkel, Niko; Beisel, Christian; Bernasconi, Lara; Bertolini, Anne; Bodenmiller, Bernd; Bonilla, Ximena; Bosshard, Lars; Calgua, Byron; Casanova, Ruben; et al; Pelkmans, Lucas (2024). Probabilistic pathway-based multimodal factor analysis. Bioinformatics, 40(Suppl 1):i189-i198.
• Watson, Spencer S; Duc, Benoit; Kang, Ziqi; de Tonnac, Axel; Eling, Nils; Font, Laure; Whitmarsh, Tristan; Massara, Matteo; IMAXT Consortium; Bodenmiller, Bernd; Hausser, Jean; Joyce, Johanna A (2024). Microenvironmental reorganization in brain tumors following radiotherapy and recurrence revealed by hyperplexed immunofluorescence imaging. Nature Communications, 15(1):3226.
• de Souza, Natalie; Zhao, Shan; Bodenmiller, Bernd (2024). Multiplex protein imaging in tumour biology. Nature Reviews Cancer, 24(3):171-191.
• Cords, Lena; Engler, Stefanie; Haberecker, Martina; Rüschoff, Jan Hendrik; Moch, Holger; de Souza, Natalie; Bodenmiller, Bernd (2024). Cancer-associated fibroblast phenotypes are associated with patient outcome in non-small cell lung cancer. Cancer Cell, 42(3):396-412.e5.
• Kirchberger, Stefanie; Shoeb, Mohamed R; Lazic, Daria; Wenninger-Weinzierl, Andrea; Fischer, Kristin; Shaw, Lisa E; Nogueira, Filomena; Rifatbegovic, Fikret; Bozsaky, Eva; Ladenstein, Ruth; Bodenmiller, Bernd; Lion, Thomas; Traver, David; Farlik, Matthias; Schöfer, Christian; Taschner-Mandl, Sabine; Halbritter, Florian; Distel, Martin (2024). Comparative transcriptomics coupled to developmental grading via transgenic zebrafish reporter strains identifies conserved features in neutrophil maturation. Nature Communications, 15(1):1792.
• Meyer, Lasse; Eling, Nils; Bodenmiller, Bernd (2024). cytoviewer: an R/Bioconductor package for interactive visualization and exploration of highly multiplexed imaging data. BMC Bioinformatics, 25(1):9.
• Windhager, Jonas; Zanotelli, Vito R T; Schulz, Daniel; Meyer, Lasse; Daniel, Michelle; Bodenmiller, Bernd; Eling, Nils (2023). An end-to-end workflow for multiplexed image processing and analysis. Nature Protocols, 18(11):3565-3613.
• Hosogane, Tsuyoshi; Casanova, Ruben; Bodenmiller, Bernd (2023). DNA-barcoded signal amplification for imaging mass cytometry enables sensitive and highly multiplexed tissue imaging. Nature Methods, 20(9):1304-1309.
• Strotton, Merrick; Hosogane, Tsuyoshi; di Michiel, Marco; Moch, Holger; Varga, Zsuzsanna; Bodenmiller, Bernd (2023). Multielement Z-tag imaging by X-ray fluorescence microscopy for next-generation multiplex imaging. Nature Methods, 20(9):1310-1322.
• Hiltbrunner, Stefanie; Cords, Lena; Kasser, Sabrina; Freiberger, Sandra N; Kreutzer, Susanne; Toussaint, Nora C; Grob, Linda; Opitz, Isabelle; Messerli, Michael; Zoche, Martin; Soltermann, Alex; Rechsteiner, Markus; van den Broek, Maries; Bodenmiller, Bernd; Curioni-Fontecedro, Alessandra (2023). Acquired resistance to anti-PD1 therapy in patients with NSCLC associates with immunosuppressive T cell phenotype. Nature Communications, 14(1):5154.
• Cords, Lena; Tietscher, Sandra; Anzeneder, Tobias; Langwieder, Claus; Rees, Martin; de Souza, Natalie; Bodenmiller, Bernd (2023). Cancer-associated fibroblast classification in single-cell and spatial proteomics data. Nature Communications, 14(1):4294.
• Fischer, Jana Raja; Jackson, Hartland Warren; de Souza, Natalie; Varga, Zsuzsanna; Schraml, Peter; Moch, Holger; Bodenmiller, Bernd (2023). Multiplex imaging of breast cancer lymph node metastases identifies prognostic single-cell populations independent of clinical classifiers. Cell Reports Medicine, 4(3):100977.
• Bost, Pierre; Schulz, Daniel; Engler, Stefanie; Wasserfall, Clive; Bodenmiller, Bernd (2023). Optimizing multiplexed imaging experimental design through tissue spatial segregation estimation. Nature Methods, 20(3):418-423.

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