Papers matching “single-cell spatial transcriptomics” 388
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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 -
Spatial multi-omics reveals targetable immunosuppressive macrophage T-cell interactions in human AML bone marrow2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Acute Myeloid Leukemia Research Open access
Merel van der Meulen, Emma S. Pool, Alicia Perzolli, Joost B. Koedijk, Eva M. Argiro, Li‐Ting Chen, +18 more
0citations -
Protocol for multispectral imaging on cryosections to map myeloid cell heterogeneity in its spatial context2023 STAR Protocols article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Elias B Wieland, Laura JAP Kempen, Chang Wei Lu, Marjo M. P. C. Donners, Erik A.L. Biessen, Pieter Goossens
2citations -
Same-section spatial metabolo-transcriptomics using Stereo-meta-seq reveals DHA-driven kidney maturation2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Roan H van Scheppingen, Baihua Wu, Yumeng Zhang, Sytske Schep, Ulli Winter, Yilong Zou, +9 more
0citations -
A comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discovery2023 iScience article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Claudio Novella-Rausell, Magda Grudniewska, Dorien J.M. Peters, Ahmed Essam Mahfouz
38citations -
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 -
scACCorDiON: a clustering approach for explainable patient level cell–cell communication graph analysis2025 Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
James Shiniti Nagai, Tiago Maié, Michael T. Schaub, Ivan G. Costa
3citations -
Input data of manuscript "CACTUS: integrating clonal architecture with genomic clustering and transcriptome profiling of single tumor cells"2021 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Shadi Darvish Shafighi, Szymon M. Kiełbasa, Cornelis A.M. van Bergen, Ewa Szczurek
1citations -
Input data of manuscript "CACTUS: integrating clonal architecture with genomic clustering and transcriptome profiling of single tumor cells"2021 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Shadi Darvish Shafighi, Szymon M. Kiełbasa, Cornelis A.M. van Bergen, Ewa Szczurek
0citations -
Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies2020 Frontiers in Oncology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 2 patents
Natasja L. De Vries, Ahmed Essam Mahfouz, Frits Koning, Noel F.C.C. de Miranda
60citations -
LifeTime and improving European healthcare through cell-based interceptive medicine2020 Nature article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Nikolaus Rajewsky, Geneviève Almouzni, Stanislaw A. Gorski, Stein Aerts, Ido Amit, Michela Giulia Bertero, +91 more
154citations -
Cell DiffErential Expression by Pooling (CellDEEP) highlights issues in differential gene expression in scRNA-seq2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yiyi Cheng, Toby Kettlewell, Ross F Laidlaw, Olympia M Hardy, Andrew McCluskey, Thomas D. Otto, +1 more
0citations -
Cell DiffErential Expression by Pooling (CellDEEP) highlights issues in differential gene expression in scRNA-seq2026 NAR Genomics and Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yiyi Cheng, Toby Kettlewell, Ross F Laidlaw, Olympia M Hardy, A. McCluskey, Thomas D. Otto, +1 more
0citations -
spacedeconv: deconvolution of tissue architecture from spatial transcriptomics2024 Research Square preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Constantin Zackl, Maria Zopoglou, Reto Stauffer, Markus Außerhofer, Marieke E. Ijsselsteijn, Gregor Sturm, +2 more
4citations -
Publisher Correction: A community-based transcriptomics classification and nomenclature of neocortical cell types2020 Nature Neuroscience erratum 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, +67 more
2citations -
Author Correction: A community-based transcriptomics classification and nomenclature of neocortical cell types2021 Nature Neuroscience erratum 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, +67 more
2citations -
An integrated multimodal pan-organ atlas of the female reproductive system across the lifespan contextualises gynaecological pathologies2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Celeste E Cohen, Antonio Párraga-Leo, Leticia Rodríguez-Montes, Christina E. Kim, Marie Moullet, Ana Paredes, +49 more
0citations -
Resolving the immune response across clonal cancer evolution in situ with Atera whole transcriptome profiling2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Maarten van der Linde, Chunfang Zhu, Robert B. West, David G.P. van IJzendoorn, Magdalena Matusiak
1citations -
Resolving Temporally Ambiguous Relationships between Single-Nucleus Multimodal Sequencing Derived Cell Populations2025 SSRN Electronic Journal preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Rick Mulders, Mathew Nickel Maunu, Rodrigo Coutinho de Almeida, Marcella van Hoolwerff, H. Eka D. Suchiman, Yavuz Ariyürek, +3 more
0citations