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Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain2023 Scientific Reports article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yun Zhang, Jeremy A. Miller, Jeongbin Park, Boudewijn P. F. Lelieveldt, Brian Long, Tamim Abdelaal, +12 more
20citations -
Spatial multi-omics in whole skeletal muscle reveals complex tissue architecture2024 Communications Biology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Clara Martínez Mir, Paola Pisterzi, Isabel de Poorter, Maria Rilou, Melissa van Kranenburg, Bram Heijs, +3 more
18citations -
Transcriptomic-based evaluation of trichloroethylene glutathione and cysteine conjugates demonstrate phenotype-dependent stress responses in a panel of human in vitro models2022 Archives of Toxicology article Biochemistry, Genetics and Molecular Biology Carcinogens and Genotoxicity Assessment Open access
Liliana Capinha, Yaran Zhang, Anna‐Katharina Holzer, Anna‐Katharina Ückert, Melinda Zana, Giada Carta, +8 more
12citations -
The Stroma Liquid Biopsy Panel Contains a Stromal-Epithelial Gene Signature Ratio That Is Associated with the Histologic Tumor-Stroma Ratio and Predicts Survival in Colon Cancer2021 Cancers article Biochemistry, Genetics and Molecular Biology Cancer Genomics and Diagnostics Open access
Cor J. Ravensbergen, Matthew Kuruc, Meaghan Polack, Stijn Crobach, Hein Putter, Hans A. J. Gelderblom, +3 more
12citations -
Trypanosoma cruzi cell atlas as a single-cell resource for understanding parasite population heterogeneity and differentiation2026 Nature Communications article Medicine Trypanosoma species research and implications Open access
Ross F Laidlaw, Marta García-Sánchez, Juliana da Silva Pacheco, Luciana S. Paradela, Thomas D. Otto, Manu De Rycker
10citations -
Biomarker identification for endometriosis as a target for real-time intraoperative fluorescent imaging: A new approach using transcriptomic analysis to broaden the search for potential biomarkers2023 European Journal of Obstetrics & Gynecology and Reproductive Biology article Medicine Endometriosis Research and Treatment Open access
Fokkedien H.M.P. Tummers, Maria K. Bazelmans, Frank Willem Jansen, Mathijs D. Blikkendaal, Alexander L. Vahrmeijer, Peter J.K. Kuppen
7citations -
Plant PhysioSpace: a robust tool to compare stress response across plant species2021 PLANT PHYSIOLOGY article Biochemistry, Genetics and Molecular Biology Bioinformatics and Genomic Networks Open access
Ali Hadizadeh Esfahani, Janina Maß, Asis Hallab, David Nevarez, Björn Usadel, Mark‐Christoph Ott, +2 more
7citations -
SpaceWalker enables interactive gradient exploration for spatial transcriptomics data2023 Cell Reports Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Thomas Kroes, Mitchell M. de Boer, Tamim Abdelaal, Thomas Höllt, +1 more
4citations -
Systematic assessment of transcriptomic and phenotypic biological profiling for mechanism-based hazard assessment using target-annotated reference chemicals in renal proximal tubular epithelial cells2026 Archives of Toxicology article Pharmacology, Toxicology and Pharmaceutics Computational Drug Discovery Methods Open access
Hugo W van Kessel, Marlene Wedler, Palle Steen Helmke, Dace Zigure, Stephen Ferguson, Joshua Harrill, +5 more
2citations -
Cell-type-specific damage scores reveal kidney and liver disease trajectories in single-cell and spatial transcriptomics2026 Cell Genomics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tsimafei Padvitski, Paula Unger Avila, He Chen, Cem Özel, Fabian Braun, Marie-Kristin Kroll, +16 more
2citations -
Proteomic, metabolomic, and transcriptomic examination of APOE transgenic mice2020 Alzheimer s & Dementia article Medicine Alzheimer's disease research and treatments Open access
Eric G. Mohler, Janina S. Ried, Lamiaa Bahnassawy, Peter Reinhardt, Marco Rocha Curado, Margot H.M. Bakker, +6 more
1citations -
Phagocytosis of necroptotic cells optimizes type 1 conventional dendritic cells for induction of a cytotoxic T-cell response2026 Cell Death and Differentiation article Immunology and Microbiology Immunotherapy and Immune Responses Open access
Mo D. Staal, Zhixian Wang, Douwe M. T. Bosma, Julia Busselaar, Ellen Schrama, Evert de Vries, +2 more
1citations -
Exploring transcriptomic and genomic latent variable correction approaches in differential expression analysis2026 Scientific Reports article Biochemistry, Genetics and Molecular Biology Gene expression and cancer classification Open access
Yadusayan Appulingam, John Jammal, Aminah Ali, Simon Topp, Hemali P. Phatnani, Justin Kwan, +85 more
1citations