Confronting false discoveries in single-cell differential expression

• A single-cell multi-omic atlas of the human pancreas reveals potential for cellular plasticity across development, health, and disease

  2026 Cell Metabolism article Medicine Pancreatic function and diabetes Open access

  1

  citations
• Cell DiffErential Expression by Pooling (CellDEEP) highlights issues in differential gene expression in scRNA-seq

  2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  0

  citations
• Single-cell integration and multi-modal profiling reveals phenotypes and spatial organization of neutrophils in colorectal cancer

  2026 Cancer Cell article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  33

  citations
• Drug combination prediction for cancer treatment using disease-specific drug response profiles and single-cell transcriptional signatures

  2025 eLife preprint Computer Science Computational Drug Discovery Methods Open access

  0

  citations
• Drug combination prediction for cancer treatment using disease-specific drug response profiles and single-cell transcriptional signatures

  2025 eLife preprint Computer Science Computational Drug Discovery Methods Open access

  0

  citations
• Infiltrative classical monocyte-derived and SPP1 lipid-associated macrophages mediate inflammation and fibrosis in ANCA-associated glomerulonephritis

  2024 Nephrology Dialysis Transplantation article Medicine Vasculitis and related conditions Open access

  18

  citations
• Multimodal analysis unveils tumor microenvironment heterogeneity linked to immune activity and evasion

  2024 iScience article Medicine Cancer Immunotherapy and Biomarkers Open access

  16

  citations
• Pancreatic β-Cell Identity Change through the Lens of Single-Cell Omics Research

  2024 International Journal of Molecular Sciences article Medicine Pancreatic function and diabetes Open access

  13

  citations
• Infiltrative classical monocyte-derived and SPP1 lipid-associated macrophages mediate inflammation and fibrosis in ANCA-associated glomerulonephritis

  2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Vasculitis and related conditions Open access

  2

  citations
• Analysis of Cancer-Associated Glycosyltransferases Reveals Novel Targets of Non-Small Cell Lung Cancer Pathogenesis

  2024 SSRN Electronic Journal preprint Biochemistry, Genetics and Molecular Biology Glycosylation and Glycoproteins Research Open access

  0

  citations
• MASI enables fast model-free standardization and integration of single-cell transcriptomics data

  2023 Communications Biology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  4

  citations
• Best practices for single-cell analysis across modalities

  2023 Nature Reviews Genetics review Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 7 patents

  1,043

  citations
• Fast model-free standardization and integration of single-cell transcriptomics data

  2023 Research Square preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  0

  citations
• Community-driven ELIXIR activities in single-cell omics

  2022 F1000Research article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  11

  citations
• Drug combination prediction for cancer treatment using disease-specific drug response profiles and single-cell transcriptional signatures

  2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Computer Science Computational Drug Discovery Methods Open access

  4

  citations
• Fast model-free standardization and integration of single-cell transcriptomics data

  2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  0

  citations
• Differential analysis of binarized single-cell RNA sequencing data captures biological variation

  2021 NAR Genomics and Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  29

  citations

17 results