Our compressed Perturb-seq strategy relies on collecting measurements comprising random linear combinations of genetic perturbations, followed by deconvolving the perturbation effects on the transcriptome using sparsity-exploiting algorithms.doi:10.1038/s41587-023-02003-3...
Pooled CRISPR screens with single-cell RNA sequencing readout (Perturb-seq) have emerged as a key technique in functional genomics, but they are limited in scale by cost and combinatorial complexity. In this study, we modified the design of Perturb-seq by incorporating algorithms applied to rand...
Scalable genetic screening for regulatory circuits using compressed Perturb-seq Douglas Yao Loic Binan Brian Cleary Nature Biotechnology (2024) Highly sensitive spatial transcriptomics using FISHnCHIPs of multiple co-expressed genes Xinrui Zhou Wan Yi Seow Kok Hao Chen Nature Communications (2024) ...
Applied to 598 genes in the immune response to bacterial lipopolysaccharide, compressed Perturb-seq achieves the same accuracy as conventional Perturb-seq with an order of magnitude cost reduction and greater power to learn genetic interactions. We identified known and novel regulators of immune ...
Applying compressed Perturb-seq to genetic screensdoi:10.1038/s41588-023-01613-6Wei LiNature GeneticsNature Publishing Group USNature Genetics