A benchmark of batch-effect correction methods for single-cell RNA sequencing data

• A systematic analysis of the impact of data variation on AI-based histopathological grading of prostate cancer

  2025 Medical Image Analysis article Computer Science AI in cancer detection Open access

  3

  citations
• Robust, credible, and interpretable AI-based histopathological prostate cancer grading

  2024 medRxiv preprint Computer Science AI in cancer detection Open access

  1

  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
• scDecorr - Feature decorrelation representation learning with domain adaptation enables self-supervised alignment of multiple single-cell experiments

  2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  0

  citations
• Multi-site benchmark classification of major depressive disorder using machine learning on cortical and subcortical measures

  2024 Scientific Reports article Medicine Treatment of Major Depression Open access

  36

  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
• Single cell metabolism: current and future trends

  2022 Metabolomics article Biochemistry, Genetics and Molecular Biology Metabolomics and Mass Spectrometry Studies Open access

  61

  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
• Mapping the cardiac vascular niche in heart failure

  2022 Nature Communications article Medicine Cardiac Fibrosis and Remodeling Open access

  103

  citations
• Identifying commonalities between cell lines and tumors at the single cell level using Sobolev Alignment of deep generative models

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

  2

  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
• CBA: Cluster-Guided Batch Alignment for Single Cell RNA-seq

  2021 Frontiers in Genetics article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access

  3

  citations
• SpaGE: Spatial Gene Enhancement using scRNA-seq

  2020 Nucleic Acids Research article Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 4 patents

  223

  citations
• SpaGE: Spatial Gene Enhancement using scRNA-seq

  2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access cited by 4 patents

  7

  citations

16 results