Papers matching “spatial transcriptomics” in Single-cell and spatial transcriptomics 305
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Pathway-centric visualization of cell-cell communication in single-cell transcriptomics data2026 npj Systems Biology and Applications article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Sidrah Maryam, Martin Manolov, Rafael Kramann, Sikander Hayat
0citations -
Explainable multi-view framework for dissecting intercellular signaling from highly multiplexed spatial data2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jovan Tanevski, Ricardo O. Ramirez Flores, Attila Gábor, Denis Schapiro, Julio Sáez-Rodríguez
28citations -
SIRV: spatial inference of RNA velocity at the single-cell resolution2024 NAR Genomics and Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Laurens Grossouw, R. Jeroen Pasterkamp, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
33citations -
SIRV: Spatial inference of RNA velocity at the single-cell resolution2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Laurens M. Grossouw, R. Jeroen Pasterkamp, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
12citations -
SIRV: Spatial inference of RNA velocity at the single-cell resolution2022 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Laurens Grossouw, R. Jeroen Pasterkamp, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
1citations -
SIRV: Spatial inference of RNA velocity at the single-cell resolution2022 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Laurens Grossouw, R. Jeroen Pasterkamp, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders, Ahmed Essam Mahfouz
0citations -
SpaGE Spatial Gene Enhancement using scRNA-seq2020 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Soufiane M. C. Mourragui, Ahmed Essam Mahfouz, Marcel J. T. Reinders
1citations -
SpaGE Spatial Gene Enhancement using scRNA-seq2020 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Soufiane M. C. Mourragui, Ahmed Essam Mahfouz, Marcel J. T. Reinders
0citations -
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
8citations -
Spatial multi-omic map of human myocardial infarction2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Christoph Kuppe, Ricardo O. Ramirez Flores, Zhijian Li, Monica Toft Hannani, Jovan Tanevski, Maurice Halder, +13 more
78citations -
Spatial patterning of transcriptional and regulatory programs in the primate subcortex2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Shu Dan, Meghan A. Turner, Michael DeBerardine, Lakme Caceres, Victor E. Nieto-Caballero, Jessica Schembri, +27 more
2citations -
Single-cell integration and multi-modal profiling reveals phenotypes and spatial organization of neutrophils in colorectal cancer2026 Cancer Cell article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Valentin Marteau, Niloofar Nemati, Kristina Handler, Deeksha Raju, Alexander Kirchmair, Dietmar Rieder, +41 more
33citations -
Explainable multi-view framework for dissecting intercellular signaling from highly multiplexed spatial data2021 Research Square preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jovan Tanevski, Attila Gábor, Ricardo Ramirez Flores, Denis Schapiro, Julio Sáez-Rodríguez
10citations -
Single-Cell Integration and Multi-Modal Profiling Reveals Phenotypes and Spatial Organization of Neutrophils in Colorectal Cancer2025 SSRN Electronic Journal preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Valentin Marteau, Niloofar Nemati, Kristina Handler, Deeksha Raju, Alexander Kirchmair, Dietmar Rieder, +38 more
0citations -
SpatialCOC: an integrative framework for spatial continuous mapping and cross-omics correction in spatial multi-omics data2026 Nature Communications article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mingxuan Li, Peisen Sun, Yisi Luo, Guancheng Zhou, Xiaofei Yang, Deyu Meng, +1 more
1citations -
A community-based transcriptomics classification and nomenclature of neocortical cell types2020 Nature Neuroscience article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Rafael Yuste, Michael Hawrylycz, Nadia Aalling, Argel Aguilar‐Valles, Detlev Arendt, Rubén Armañanzas, +59 more
30citations