Papers matching “single-cell spatial transcriptomics” 391
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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
Shaocheng Wu, Mohita Mahajan, Maarten van der Linde, Chunfang Zhu, Robert B. West, David G.P. van IJzendoorn, +1 more
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 -
D18-09 The Multiorgan Multicenter Spatial Transcriptomics Atlas Reveals Layered Granuloma Architecture and Cellular Programs Driving Sarcoidosis2026 American Journal of Respiratory and Critical Care Medicine article Medicine Sarcoidosis and Beryllium Toxicity Research
Jannik Ruwisch, Leonard Christian, Stephan Traidl, J Dietrich, J-C Kamp, Janis Casper, +19 more
0citations -
Identification of kidney cell types in scRNA-seq and snRNA-seq data using machine learning algorithms2024 Heliyon article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Adam Tisch, Siddharth Madapoosi, Stephen R. Blough, Jan Rosa, Sean F. Eddy, Laura H. Mariani, +9 more
3citations -
Cell-type-specific activation of broadly perceived effector-triggered immunity restricts pathogen invasion in plants2026 Cell Host & Microbe article Agricultural and Biological Sciences Plant-Microbe Interactions and Immunity Open access
Himanshu Chhillar, Leonardo Jo, Volkan Çevik, Amey Redkar, Kaisa Kajala, Jonathan D. G. Jones, +1 more
1citations -
Cell-type-specific execution of effector-triggered immunity2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Agricultural and Biological Sciences Plant-Microbe Interactions and Immunity Open access
Himanshu Chhillar, Leonardo Jo, Amey Redkar, Kaisa Kajala, Jonathan D. G. Jones, Pingtao Ding
5citations -
CellGOSSIP (Cell-specific Graph Operation Strategy on Signaling of Intracellular Pathways) datasets2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Giulia Cesaro, James S. Nagai, Giacomo Baruzzo, Barbara Di Camillo, Ivan G. Costa
0citations -
CellGOSSIP (Cell-specific Graph Operation Strategy on Signaling of Intracellular Pathways) datasets2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Giulia Cesaro, James S. Nagai, Giacomo Baruzzo, Barbara Di Camillo, Ivan G. Costa
0citations -
Human Neocortical Glutamatergic Neurons Revealed Through Multimodal Profiling2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Rachel A. Dalley, Sarah Walling-Bell, Jeremy A. Miller, Femke Waleboer, Julian Thijssen, Audrey McCutcheon, +92 more
3citations -
Batch-effect correction improves downstream imaging mass cytometry data quality and facilitates robust cell type identification in the liver and hepatocellular carcinoma microenvironment2025 Zeitschrift für Gastroenterologie conference-paper Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics
Henrike Salié, Ana Marta Sequeira, Marieke E. Ijsselsteijn, Felix Röttele, Yuan Suo, Lara Wischer, +4 more
0citations -
PILOT-GM-VAE: Patient-Level Analysis of Single Cell Disease Atlas with Optimal Transport of Gaussian Mixtures Variational Autoencoders0citations
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Identification and Characterization of Neoplastic Cells in Keratin-Positive Giant Cell-Rich Tumors2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Sarcoma Diagnosis and Treatment Open access
Maarten van der Linde, John S.A. Chrisinger, Elizabeth G. Demicco, Carina Anja Dehner, Gregory W. Charville, Inge H. Briaire‐de Bruijn, +6 more
1citations -
Additional file 8 of Human cortical spheroids with a high diversity of innately developing brain cell types2023 Figshare dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Kim M. A. De Kleijn, Wieteke Ameliek Zuure, Kirsten R. Straasheijm, M. Cristina Avramut, Roman I. Koning, Gerard J.M. Martens
0citations -
Cell-projected Phenotypes Link Transcriptional and Phenotypic Heterogeneity in Alzheimer’s Disease2026 SSRN Electronic Journal preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Riley J. Mangan, Gerard A. Bouland, Tim Schubert, Danish Anwer, Judy Bai, Gülfem Ekiz, +6 more
0citations -
AtlasOT - The Fused Unbalanced Gromov-Wasserstein for Multimodal Integration of Disease Atlases2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Kai Peng, Mayra L. Ruiz Tejada Segura, Barthélémy Caron, Christoph Kuppe, James Shiniti Nagai, Ivan G. Costa
0citations -
CACTUS: integrating clonal architecture with genomic clustering and transcriptome profiling of single tumor cells2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Shadi Darvish Shafighi, Szymon M. Kiełbasa, Julieta Sepúlveda-Yáñez, Ramin Monajemi, Davy Cats, Hailiang Mei, +5 more
4citations -
Spatial Transcriptomics Reveals Injured Cells, Signature Genes, and Communication Patterns in the Cyst Microenvironment of Polycystic Kidney Disease2025 Journal of the American Society of Nephrology article Biochemistry, Genetics and Molecular Biology Genetic and Kidney Cyst Diseases Open access
Sevtap A. Yasinoglu, Claudio Novella-Rausell, Lisanne E. Wisse, Kyra L. Dijkstra, Ahmed Essam Mahfouz, Hans J. Baelde, +1 more
1citations -
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 -
Comparative transcriptomics reveals human-specific cortical features2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Nikolas L. Jorstad, Janet H. T. Song, David Exposito-Alonso, Hamsini Suresh, Fenna M. Krienen, Anna Marie Yanny, +35 more
24citations -
1381 Deciphering the role of immune cell communities in the initiation and progression of human colorectal cancer2024 Regular and Young Investigator Award Abstracts conference-abstract Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
S. Engels, Ana Marta Sequeira, Marieke E. Ijsselsteijn, Benedetta Manzato, Hao Dang, Jurjen J. Boonstra, +5 more
0citations