Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram

• AtlasOT - The Fused Unbalanced Gromov-Wasserstein for Multimodal Integration of Disease Atlases

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

  0

  citations
• Next-generation kidney tissue analysis — spatial omics and digital pathology

  2026 Nature Reviews Nephrology review Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics

  1

  citations
• Targeting modulated vascular smooth muscle cells in atherosclerosis via FAP-directed immunotherapy

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

  34

  citations
• Advancing Cardiovascular Research With Single-Cell and Spatial Transcriptomics

  2026 Circulation Research article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics

  12

  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
• Spatial Transcriptomics Reveals Injured Cells, Signature Genes, and Communication Patterns in the Cyst Microenvironment of Polycystic Kidney Disease

  2025 Journal of the American Society of Nephrology article Biochemistry, Genetics and Molecular Biology Genetic and Kidney Cyst Diseases Open access

  1

  citations
• Targeting Modulated Vascular Smooth Muscle Cells in Atherosclerosis via FAP-Directed Immunotherapy

  2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Immunology and Microbiology Atherosclerosis and Cardiovascular Diseases Open access

  5

  citations
• SIRV: spatial inference of RNA velocity at the single-cell resolution

  2024 NAR Genomics and Bioinformatics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  33

  citations
• Spatial multi-omics: novel tools to study the complexity of cardiovascular diseases

  2024 Genome Medicine article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  106

  citations
• Single-cell, whole-embryo phenotyping of mammalian developmental disorders

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

  41

  citations
• Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain

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

  20

  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
• Reference-based cell type matching of spatial transcriptomics data

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

  5

  citations
• SIRV: Spatial inference of RNA velocity at the single-cell resolution

  2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  12

  citations

14 results

• Eleven grand challenges in single-cell data science

  2020 Genome biology article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 2 patents

  1,504

  citations

1 result