Papers matching “spatial transcriptomics” 479
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GeneSurfer enables transcriptome-wide exploration and annotation of gene co-expression modules in 3D spatial transcriptomics data2025 iScience article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Thomas Kroes, Ximaine R. van der Burg, Louise van der Weerd, Thomas Höllt, +1 more
0citations -
GeneSurfer Enables Transcriptome-wide Exploration and Functional Annotation of Gene Co-expression Modules in 3D Spatial Transcriptomics Data2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Chang Li, Julian Thijssen, Thomas Kroes, Ximaine R. van der Burg, Louise van der Weerd, Thomas Höllt, +1 more
0citations -
Identifying 3D signal overlaps in spatial transcriptomics data with ovrlpy2026 Nature Biotechnology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics
Sebastian Tiesmeyer, Niklas Müller‐Bötticher, Alexander Malt, Leyao Ma, Sergio Marco Salas, Paul Kießling, +10 more
7citations -
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 -
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 -
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 multicenter spatial transcriptomics atlas of human tuberculosis and non-tuberculous mycobacterial disease2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Tuberculosis Research and Epidemiology Open access
Xun Jiang, Leonard Christian, Liang Zhou, Xiaoyi Zheng, Nienke van Unen, Lavinia Neubert, +14 more
1citations -
306P Evaluating genetic therapies targeting the central nervous system in Duchenne muscular dystrophy using high-resolution spatial transcriptomics2024 Neuromuscular Disorders article Biochemistry, Genetics and Molecular Biology Muscle Physiology and Disorders
Ali Reza Ahmadi, L. van Doorne, L. Heezen, Ophélie Vacca, Annemieke M Aartsma-Rus, M. van Putten, +3 more
1citations -
Spatial transcriptomics uncovers hybrid, pro-inflammatory and pro-fibrotic cellular niches in pulmonary granuloma of patients with chronic sarcoidosis2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Sarcoidosis and Beryllium Toxicity Research Open access
Leonard Christian, Hande Yilmaz, Jannik Ruwisch, Leon Giercke, Benjamin Seeliger, Jan C. Kamp, +16 more
3citations -
Spatial transcriptomics uncovers hybrid, proinflammatory, and profibrotic cellular niches in pulmonary granuloma of patients with chronic sarcoidosis2026 American Journal of Respiratory and Critical Care Medicine article Medicine Sarcoidosis and Beryllium Toxicity Research Open access
Leonard Christian, Hande Yilmaz, Jannik Ruwisch, Leon Giercke, Benjamin Seeliger, Jan C. Kamp, +19 more
2citations -
Multi-omics single-cell spatial profiling of paediatric and adult acute myeloid leukaemia links spatial organization, molecular genetics and microenvironmental interactions
Merel van der Meulen, Joost B. Koedijk, Emma S. Pool, Eva M. Argiro, Marijn A. Scheijde-Vermeulen, Livius Penter, +12 more
0citations -
Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data2020 Life Science Alliance article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jovan Tanevski, Thin Nguyen, Buu Minh Thanh Truong, Nikos Karaiskos, Mehmet Eren Ahsen, Xinyu Zhang, +32 more
25citations -
Comprehensive spatial profiling of the spleen in murine and human myelofibrosis identifies targetable immune-stromal interactions2025 Zenodo (CERN European Organization for Nuclear Research) dataset Medicine Myeloproliferative Neoplasms: Diagnosis and Treatment Open access
Bérénice Dugué, Wanner Pia, Mayra L. Ruiz Tejada Segura, Charles Dussiau, Rebekka K. Schneider
0citations -
Comprehensive spatial profiling of the spleen in murine and human myelofibrosis identifies targetable immune-stromal interactions2025 Zenodo (CERN European Organization for Nuclear Research) dataset Medicine Myeloproliferative Neoplasms: Diagnosis and Treatment Open access
Bérénice Dugué, Wanner Pia, Mayra L. Ruiz Tejada Segura, Charles Dussiau, Rebekka K. Schneider
0citations -
Inferring spatially transient gene expression pattern from spatial transcriptomic studies2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jan Kueckelhaus, Jasmin von Ehr, Vidhya Madapusi Ravi, Paulina Will, Kevin Joseph, Jürgen Beck, +4 more
53citations -
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 -
Explainable multiview framework for dissecting spatial relationships from highly multiplexed data2022 Genome biology article 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
291citations