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Single-Cell Transcriptomics Indicate That CD163+ Kidney Macrophages Are Pro-Inflammatory and May Orchestrate Further Immune Cell Recruitment to Kidney Lesions in ANCA-Associated Glomerulonephritis2022 Journal of the American Society of Nephrology conference-abstract Medicine Vasculitis and related conditions
Yosta Vegting, Aldo Jongejan, Ester B. M. Remmerswaal, Perry D. Moerland, Jesper Kers, Liffert Vogt, +2 more
0citations -
Single cell trajectory analysis of human pluripotent stem cells differentiating towards lung and hepatocyte progenitors2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Pluripotent Stem Cells Research Open access
Chaido Ori, Meshal Ansari, Ilias Angelidis, Fabian Joachim Theis, Herbert B. Schiller, Micha Drukker
2citations -
Data from "Single-cell integration and multi-modal profiling reveals phenotypes and spatial organization of neutrophils in colorectal cancer"2025 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Valentin Marteau, Kristina Handler, Peter Johannes Wild, Zlatko Trajanoski
0citations -
Data from "Single-cell integration and multi-modal profiling reveals phenotypes and spatial organization of neutrophils in colorectal cancer"2026 Zenodo (CERN European Organization for Nuclear Research) dataset Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Valentin Marteau, Niloofar Nemati, Kristina Handler, Deeksha Raju, Alexander Kirchmair, Dietmar Rieder, +40 more
0citations -
Single cell RNA sequence analysis of human bone marrow samples reveals new targets for isolation of skeletal stem cells using DNA-coated gold nanoparticles2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Mesenchymal stem cell research Open access
Elloise Matthews, Stuart Lanham, Maria Eleni Kyriazi, Konstantina Alexaki, Afaf Helmy El-Sagheer, Tom Brown, +5 more
3citations -
A Novel Branched DNA-Based Flowcytometric Method for Single-Cell Characterization of Gene Therapy Products and Expression of Therapeutic Genes2021 Frontiers in Immunology article Biochemistry, Genetics and Molecular Biology Virus-based gene therapy research Open access
Laura García-Pérez, Marja C.J.A. van Eggermond, Elisa Maietta, Marie‐Louise van der Hoorn, Karin Pike‐Overzet, Frank J. T. Staal
8citations -
Cell-type-specific damage scores reveal kidney and liver disease trajectories in single-cell and spatial transcriptomics2026 Cell Genomics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Tsimafei Padvitski, Paula Unger Avila, He Chen, Cem Özel, Fabian Braun, Marie-Kristin Kroll, +16 more
2citations -
Characterization of the human fetal rete region by single cell transcriptional analysis of gonads and mesonephros/epididymis2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Sperm and Testicular Function Open access
Jasin Taelman, Sylwia M. Czukiewska, Ioannis Moustakas, Yolanda W. Chang, Sanne Hillenius, Talia van der Helm, +3 more
8citations -
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 -
Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcriptomics data2024 Nature Computational Science article Biochemistry, Genetics and Molecular Biology Gene Regulatory Network Analysis Open access
Daniel Osorio, Anna Capasso, S. Gail Eckhardt, Uma P. Giri, Alexander J. Somma, Todd M. Pitts, +8 more
19citations -
From Mythology to Methodology: Untargeted Single-Cell Metabolomics in R with MeDUSA2026 Journal of the American Society for Mass Spectrometry article Biochemistry, Genetics and Molecular Biology Metabolomics and Mass Spectrometry Studies
Laura Ann Castaneda, Eric Hetzel, Fercan Gül, Thomas Hankemeier
1citations -
PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories2025 Nature Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Mingbo Cheng, Jitske Jansen, Katharina C. Reimer, Vincent P. Grande, James Shiniti Nagai, Zhijian Li, +6 more
10citations -
scDecorr: feature decorrelation based representation learning enables self-supervised alignment of multiple single-cell experiments2026 Scientific Reports article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ritabrata Sanyal, Yang Xu, Hyojin Kim, Rafael Kramann, Sikander Hayat
0citations -
Single Cell Raman and Mass Spectrometry Analysis to Probe Cellular Heterogeneity in Tamoxifen Uptake, Metabolism and Effect2025 SSRN Electronic Journal preprint Biochemistry, Genetics and Molecular Biology Spectroscopy Techniques in Biomedical and Chemical Research Open access
Congrou Zhang, Yasmine Abouleila, Sylvia E. Le Dévédec, Thomas Hankemeier, Arno Germond
0citations -
Tracking One-in-a-Million: Large-Scale Benchmark for Microbial Single-Cell Tracking with Experiment-Aware Robustness Metrics2025 Lecture notes in computer science conference-paper Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access
Johannes Seiffarth, Luisa Blöbaum, Richard Dominik Paul, Nils Friederich, Angelo Jovin Yamachui Sitcheu, Ralf Mikut, +3 more
6citations -
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, +40 more
40citations -
CAVACHON: a hierarchical variational autoencoder to integrate multi-modal single-cell data2024 arXiv (Cornell University) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Ping‐Han Hsieh, Ru-Xiu Hsiao, Katalin Ferenc, Anthony Mathelier, Rebekka Burkholz, Chien‐Yu Chen, +3 more
0citations -
Integrative Learning of Disentangled Representations from Single-Cell RNA-Sequencing Datasets2026 Computational and Structural Biotechnology Journal article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Claudio Novella-Rausell, Dorien J.M. Peters, Ahmed Essam Mahfouz
1citations -
Integrative learning of disentangled representations from single-cell RNA-sequencing datasets2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Claudio Novella-Rausell, Dorien J.M. Peters, Ahmed Essam Mahfouz
0citations