Publications by authors named "J F de Jonghe"
Understanding the rapidly evolving landscape of single-cell and spatial omic technologies is crucial for advancing biomedical research and drug development. We provide a living review of both mature and emerging commercial platforms, highlighting key methodologies and trends shaping the field. This review spans from foundational single-cell technologies such as microfluidics and plate-based methods to newer approaches like combinatorial indexing; on the spatial side, we consider next-generation sequencing and imaging-based spatial transcriptomics.
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- Precision medicine relies on understanding genetic variants that cause disease and their effects, exemplified by the von Hippel-Lindau (VHL) gene involved in tumor suppression.
- VHL mutations are linked to specific types of tumors, like clear cell renal cell carcinoma, necessitating refined methods to assess their consequences.
- Researchers developed a technique to analyze nearly all single-nucleotide variants in VHL, leading to the identification of key pathogenic variants and enhancing the ability to classify these genetic changes in clinical settings.
Article Synopsis
- Droplet microfluidic methods have improved the efficiency of single-cell sequencing but face challenges like increased background noise and lower RNA capture rates due to the lack of effective cell enrichment strategies.
- The presented methodology uses fluorescence-activated droplet sorting to isolate droplets containing viable or specific cell types and employs picoinjection for multi-step processes, enhancing gene detection by five times and reducing noise by up to 50%.
- This approach successfully creates a high-quality molecular atlas of mouse brain development and nascent RNA transcription during organogenesis, and can be adapted for various other droplet-based workflows to achieve cost-effective and precise single-cell profiling.
Article Synopsis
- Biomechanical cues are crucial for embryonic development and cell differentiation, and studying these can reveal how physical stimuli influence gene expression during early mammalian development.
- By using microfluidic techniques to encapsulate mouse embryonic stem cells, researchers found that Plakoglobin (Jup), a key protein, enhances the network responsible for maintaining naive pluripotency.
- The study highlights Plakoglobin's role as a mechanosensitive regulator, suggesting that its expression during blastocyst formation in both human and mouse embryos is vital for understanding cell fate transitions influenced by the physical environment.