![]() The UCLA researchers say they believe scDesign3 “offers the first probabilistic model that unifies the generation and inference for single-cell and spatial omics data. We introduced the scDesign3, which we believe is the most realistic and versatile simulator to date, to fill the gap between researchers’ benchmarking needs and the limitations of existing tools,” said Li, senior author of a study published May 11 in Nature Biotechnology. Few can generate realistic single-cell RNA sequencing data from continuous cell trajectories by mimicking real data, and most lack the ability to simulate data of multi-omics and spatial transcriptomics. “Although simulators have evolved and become more powerful, there are numerous limitations. Li leads a research group titled the Junction of Statistics and Biology. Li is also affiliated with the Gene Regulation research area at the UCLA Jonsson Comprehensive Cancer Center. “Thousands of computational methods have been developed to analyze single-cell and spatial omics data for a variety of tasks, making method benchmarking a pressing challenge for method developers and uses,” said Jingyi Jessica Li, PhD, a UCLA researcher and professor in statistics, biostatistics, computational medicine, and human genetics. The introduction of additional “omics” offered detail on a range of molecular features, and in recent years, spatial transcriptomic technologies made it possible to profile gene expression levels with spatial location information of cell “neighborhoods,” showing precise locations and movements of cells within tissue. ![]() Single-cell RNA sequencing, called single-cell transcriptomics, is the foundation for analyzing genetic makeup (genome-wide gene expression levels) of cells. Specifically, the new computer-modeling – or “in silico” – system can help researchers evaluate and validate computational methods. ![]() UCLA researchers have developed an “all-in-one,” next-generation statistical simulator capable of assimilating a wide range of information to generate realistic synthetic data and provide a benchmarking tool for medical and biological researchers who use advanced technologies to study diseases and potential therapies. ![]()
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