CellProfiler 3.0: Next-generation image processing for biology

• Histopathology-based protein multiplex generation using deep learning

  2025 Nature Machine Intelligence article Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access

  24

  citations
• Genome-scale metabolic network of human carotid plaque reveals the pivotal role of glutamine/glutamate metabolism in macrophage modulating plaque inflammation and vulnerability

  2024 Cardiovascular Diabetology article Biochemistry, Genetics and Molecular Biology Microbial Metabolic Engineering and Bioproduction Open access

  20

  citations
• GM-CSF-activated STAT5A regulates macrophage functions and inflammation in atherosclerosis

  2023 Frontiers in Immunology article Medicine Cytokine Signaling Pathways and Interactions Open access

  22

  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

  1,152

  citations
• Robust 3d Cell Segmentation: Extending The View Of Cellpose

  2022 2022 IEEE International Conference on Image Processing (ICIP) conference-paper Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access cited by 1 patent

  39

  citations
• ClC-3 regulates the excitability of nociceptive neurons and is involved in inflammatory processes within the spinal sensory pathway

  2022 Frontiers in Cellular Neuroscience article Medicine Pain Mechanisms and Treatments Open access

  7

  citations
• 3D fluorescence microscopy data synthesis for segmentation and benchmarking

  2021 PLoS ONE article Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access cited by 1 patent

  23

  citations
• Application of 3D MAPs pipeline identifies the morphological sequence chondrocytes undergo and the regulatory role of GDF5 in this process

  2021 Nature Communications article Medicine Osteoarthritis Treatment and Mechanisms Open access

  20

  citations
• Oral Treatment with RD2RD2 Impedes Development of Motoric Phenotype and Delays Symptom Onset in SOD1G93A Transgenic Mice

  2021 International Journal of Molecular Sciences article Medicine Amyotrophic Lateral Sclerosis Research Open access

  4

  citations
• A Novel Anti-Inflammatory d-Peptide Inhibits Disease Phenotype Progression in an ALS Mouse Model

  2021 Molecules article Medicine Amyotrophic Lateral Sclerosis Research Open access cited by 1 patent

  12

  citations
• Artificial intelligence-based pathology for gastrointestinal and hepatobiliary cancers

  2020 Gut article Computer Science AI in cancer detection

  102

  citations
• VPS72/YL1-Mediated H2A.Z Deposition Is Required for Nuclear Reassembly after Mitosis

  2020 Cells article Biochemistry, Genetics and Molecular Biology Genomics and Chromatin Dynamics Open access

  30

  citations

12 results