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SARS-CoV-2 infects the human kidney and drives fibrosis in kidney organoids2021 Cell stem cell article Medicine COVID-19 Clinical Research Studies Open access cited by 1 patent
Jitske Jansen, Katharina C. Reimer, James Shiniti Nagai, Finny S. Varghese, Gijs J. Overheul, Marit A. de Beer, +90 more
257citations -
Image-guided alignment of consecutive multi-modal tissue slides2026 Cell Reports Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Benedetta Manzato, Claudio Novella-Rausell, Gangqi Wang, Nina Ogrinc, Rosalie G. J. Rietjens, Marleen E Jacobs, +3 more
0citations -
High-Resolution Spatial Profiling Unveils Cellular Heterogeneity in Murine Atherosclerosis2025 Thrombosis and Haemostasis article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Jan M. Wrobel, Paul Kießling, Emilia Scheidereit, Christoph Kuppe, Venetia Bazioti, Dorothee Atzler, +1 more
2citations -
Ligand–Receptor Interactions Elucidate Sex-Specific Pathways in the Trajectory From Primordial Germ Cells to Gonia During Human Development2021 Frontiers in Cell and Developmental Biology article Biochemistry, Genetics and Molecular Biology Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities Open access cited by 1 patent
Arend W. Overeem, Yolanda W. Chang, Jeroen Spruit, Celine M. Roelse, Susana M. Chuva de Sousa Lopes
23citations -
GRIDGENE: Guided Region Identification based on Density of GENEs – a transcript density-based approach to characterize tissues by spatial transcriptomics2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ana Marta Sequeira, Marieke E. Ijsselsteijn, Miguel Rocha, Jessica P Roelands, Noel F.C.C. de Miranda
3citations -
GRIDGENE: Guided Region Identification based on Density of GENEs—a transcript density-based approach to characterize tissues by spatial transcriptomics2026 Bioinformatics Advances article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ana Marta Sequeira, Marieke E. Ijsselsteijn, M Rocha, Jessica P Roelands, Noel F.C.C. de Miranda
2citations -
673 (Re-) Solving the biology of colorectal cancer onset and progression to improve treatment and prevention2021 Regular and Young Investigator Award Abstracts conference-abstract Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jessica P Roelands, Manon van der Ploeg, Hao Dang, Lukas J.A.C. Hawinkels, Hans Morreau, Noel de Miranda
2citations -
Increased stromal PFKFB3-mediated glycolysis in inflammatory bowel disease contributes to intestinal inflammation2022 Frontiers in Immunology article Biochemistry, Genetics and Molecular Biology Inflammatory Bowel Disease Open access
Zhou Zhou, Leonie G Plug, Thiago A. Patente, Eveline S. M. de Jonge‐Muller, Amir Abou Elmagd, Andrea E. van der Meulen‐de Jong, +3 more
36citations -
Bulk RNA sequencing deconvolution of early-onset pancreatic ductal adenocarcinoma identifies cancer-associated fibroblast subsets associated with survival and tumor microenvironment composition2026 Cancer Treatment and Research Communications article Medicine Pancreatic and Hepatic Oncology Research Open access
Nicole Dam, Mischa Steketee, Gaby J. Strijk, Willem de Koning, Lukas J.A.C. Hawinkels, Vera Kemp, +3 more
0citations -
Bulk RNA sequencing deconvolution of early-onset pancreatic ductal adenocarcinoma identifies cancer-associated fibroblast subsets associated with survival and tumor microenvironment composition2026 Cancer Treatment and Research Communications article Medicine Pancreatic and Hepatic Oncology Research Open access
Nicole Dam, Mischa Steketee, Gaby J. Strijk, Willem de Koning, Lukas J.A.C. Hawinkels, Vera Kemp, +2 more
0citations -
Decoding exon inclusion in the human brain reveals more divergent splicing mechanisms in neurons than glia2026 Genome biology article Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Lieke Michielsen, Justine Hsu, Anoushka Joglekar, Natan Belchikov, Marcel J. T. Reinders, Hagen Tilgner, +1 more
3citations -
Decoding exon inclusion in the human brain reveals more divergent splicing mechanisms in neurons than glia2026 Figshare other Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Lieke Michielsen, Justine Hsu, Anoushka Joglekar, Natan Belchikov, Marcel J. T. Reinders, Hagen Tilgner, +1 more
0citations -
Decoding exon inclusion in the human brain reveals more divergent splicing mechanisms in neurons than glia2026 Figshare supplementary-materials Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Lieke Michielsen, Justine Hsu, Anoushka Joglekar, Natan Belchikov, Marcel J. T. Reinders, Hagen Tilgner, +1 more
0citations -
A 34-Marker Panel for Imaging Mass Cytometric Analysis of Human Snap-Frozen Tissue2020 Frontiers in Immunology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Nannan Guo, Vincent van Unen, Marieke E. Ijsselsteijn, Laura F. Ouboter, Andrea E. van der Meulen‐de Jong, Susana M. Chuva de Sousa Lopes, +3 more
45citations -
A cross-species spatial transcriptomic atlas of the human and non-human primate basal ganglia2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Madeleine N. Hewitt, Meghan A. Turner, Nelson Johansen, Delissa McMillen, Shu Dan, Mike DeBerardine, +46 more
10citations -
Organ Mapping Antibody Panels: a community resource for standardized multiplexed tissue imaging2023 Nature Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ellen M. Quardokus, Diane C. Saunders, Elizabeth McDonough, John W. Hickey, Christopher Werlein, Christine Surrette, +32 more
47citations -
Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering2026 Nature Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jieran Sun, Kirti Biharie, Peiying Cai, Niklas Müller‐Bötticher, Paul Kießling, Meghan A. Turner, +47 more
9citations -
A collection of datasets from Publication: Organ Mapping Antibody Panels (OMAPs): A community resource for standardized multiplexed tissue imaging2025 The Human BioMolecular Atlas Program (HuBMAP) other Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ellen M. Quardokus, Diane C. Saunders, John W. Hickey, Christine Surrette, Presha Rajbhandari, Anna Martinez Casals, +18 more
0citations -
Distinct roles for interleukin-23 receptor signaling in regulatory T cells in sporadic and inflammation-associated carcinogenesis2024 Frontiers in Oncology article Immunology and Microbiology T-cell and B-cell Immunology Open access
Justin Jacobse, Jennifer M. Pilat, Rachel E. Brown, Aaron Kwag, Matthew A. Buendia, Yash A. Choksi, +5 more
8citations -
Hypoxia-Inducible Factor-1α in SM22α-Expressing Cells Modulates Alveolarization2023 American Journal of Respiratory Cell and Molecular Biology article Medicine Neonatal Respiratory Health Research Open access
Elizabeth A. Barnes, Carsten Knutsen, Alida S. D. Kindt, Xibing Che, Lihua Ying, Eloa S. Adams, +5 more
3citations