Papers matching “single-cell spatial transcriptomics” 116
Not finding it? Sign in to also search OpenAlex live.
-
Single-cell and spatial transcriptomics resolve airway obliteration in bronchiolitis obliterans syndrome2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Transplantation: Methods and Outcomes Open access
Jannik Ruwisch, Hande Yilmaz, Leonard Christian, Lavinia Neubert, Lena Maureen Leiber, Annalea Brüggemann, +29 more
0citations -
Immunogenomic, single-cell and spatial dissection of CD8 + T cell exhaustion reveals critical determinants of cancer immunotherapy2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Cancer Immunotherapy and Biomarkers Open access
Stefan Naulaerts, Daniel Borràs, Asier Antoranz, Julie Messiaen, Yannick Van Herck, Lendert Gelens, +15 more
7citations -
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 -
Fast model-free standardization and integration of single-cell transcriptomics data2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yang Xu, Rafael Kramann, Rachel Patton McCord, Sikander Hayat
0citations -
Cell-type, single-cell, and spatial signatures of brain-region specific splicing in postnatal development2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Anoushka Joglekar, Andrey D. Prjibelski, Ahmed Essam Mahfouz, Paul G. Collier, Susan Lin, Anna Katharina Schlusche, +22 more
5citations -
Encompassing view of spatial and single-cell RNA-seq renews the role of the microvasculature in human atherosclerosis2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access
Tore Bleckwehl, Sidrah Maryam, Anne Babler, Michael Nyberg, Markus Høybye Bosteen, Maurice Halder, +8 more
5citations -
A clusterability measure for single-cell transcriptomics reveals phenotypic subpopulations2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Maria Mircea, Mazène Hochane, Xueying Fan, Susana M. Chuva de Sousa Lopes, Diego Garlaschelli, Stefan Semrau
0citations -
mcBERT: Patient-Level Single-cell Transcriptomics Data Representation2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Benedikt von Querfurth, Johannes Lohmöller, Jan Pennekamp, Tore Bleckwehl, Rafael Kramann, Klaus Wehrle, +1 more
3citations -
Cytosplore-Transcriptomics: a scalable inter-active framework for single-cell RNA sequencing data analysis2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tamim Abdelaal, Jeroen Eggermont, Thomas Höllt, Ahmed Essam Mahfouz, Marcel J. T. Reinders, Boudewijn P. F. Lelieveldt
2citations -
GraphComm: A Graph-based Deep Learning Method to Predict Cell-Cell Communication in single-cell RNAseq data2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Emily So, Sikander Hayat, Sisira Kadambat Nair, Bo Wang, Benjamin Haibe‐Kains
13citations -
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, +37 more
0citations -
Reference-based cell type matching of spatial transcriptomics data2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Yun Zhang, Jeremy A. Miller, Jeongbin Park, Boudewijn P. F. Lelieveldt, Brian Long, Tamim Abdelaal, +12 more
5citations -
Comparison of Resources and Methods to infer Cell-Cell Communication from Single-cell RNA Data2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Daniel Dimitrov, Dénes Türei, Charlotte Boys, James Shiniti Nagai, Ricardo O. Ramirez Flores, Hyojin Kim, +5 more
23citations -
Cell-cell Communication Inference from Single-cell RNA-Seq Data: a Comparison of Methods and Resources2021 Research Square preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Daniel Dimitrov, Dénes Türei, Charlotte Boys, James Shiniti Nagai, Ricardo Ramirez Flores, Hyojin Kim, +5 more
3citations -
Multimodal single-cell analysis uncovers transcription factor networks underlying T-cell aging2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mina Shaigan, Deepika Puri, Giulia Fornero, René Krüger, Mara Steiger, Hannes Klump, +4 more
0citations -
Combi-Seq: Multiplexed transcriptome-based profiling of drug combinations using deterministic barcoding in single-cell droplets2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Lukas Mathur, Bence Szalai, Ramesh Utharala, Martine Ballinger, Jonathan J. M. Landry, Michaël Ryckelynck, +3 more
4citations -
A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing2021 Genome Research preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Brian D. Aevermann, Yun Zhang, Mark A. Novotny, Mohamed Keshk, Trygve E. Bakken, Jeremy A. Miller, +4 more
96citations -
WALDO: community-Wide Annotation of γδ Lymphocytes in single-cell Data, Openly benchmarked2026 Zenodo (CERN European Organization for Nuclear Research) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Farid Keramati, Moosa Rezwani, Likai Tan, David Hamilton, Zheng Song, Tao Yang, +10 more
0citations -
An integrated single-cell RNA-seq atlas of the mouse hypothalamic paraventricular nucleus links transcriptional and functional types2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Jari B. Berkhout, Delaram Poormoghadam, Chun‐Xia Yi, Andries Kalsbeek, Onno Cornelis Meijer, Ahmed Essam Mahfouz
0citations