Visualizing structure and transitions in high-dimensional biological data

• Proteome modulation by opposite inotropic drugs in human engineered cardiac tissue revealed by topology-driven cross-modal integration

  2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Chemistry Advanced Proteomics Techniques and Applications Open access

  0

  citations
• Atherosclerotic plaque fibroblasts derive from adventitial and medial Pdgfra -lineage-positive cells and predominantly maintain fibroblast identity

  2026 Cardiovascular Research article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access

  0

  citations
• PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories

  2025 Nature Methods article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  9

  citations
• scACCorDiON: a clustering approach for explainable patient level cell–cell communication graph analysis

  2025 Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  3

  citations
• Wnt-dependent spatiotemporal reprogramming of bone marrow niches drives fibrosis

  2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Medicine Myeloproliferative Neoplasms: Diagnosis and Treatment Open access

  1

  citations
• Controlled human hookworm infection remodels plasmacytoid dendritic cells and regulatory T cells towards profiles seen in natural infections in endemic areas

  2024 Nature Communications article Immunology and Microbiology Parasites and Host Interactions Open access

  7

  citations
• Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)

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

  36

  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
• Platelet-instructed SPP1+ macrophages drive myofibroblast activation in fibrosis in a CXCL4-dependent manner

  2023 Cell Reports article Medicine Cardiac Fibrosis and Remodeling Open access

  336

  citations
• Human and murine fibroblast single-cell transcriptomics reveals fibroblast clusters are differentially affected by ageing and serum cholesterol

  2023 Cardiovascular Research article Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access

  48

  citations
• From cell to cell: Identification of actionable targets in bone marrow fibrosis using single-cell technologies

  2021 Experimental Hematology article Medicine Myeloproliferative Neoplasms: Diagnosis and Treatment Open access

  4

  citations

11 results