Pluto Bioinformatics

GSE92872: Pooled CRISPR screening with single-cell transcriptome read-out

Bulk RNA sequencing

We combined CRISPR genome editing with single-cell RNA sequencing to assess complex phenotypes in pooled cellular screens. Our method for CRISPR droplet sequencing (CROP-seq) comprises four key components: a gRNA vector that makes individual gRNAs detectable in single-cell transcriptomes, a high-throughput assay for single-cell RNA-seq, a computational pipeline for assigning single-cell transcriptomes to gRNAs, and a bioinformatic method for analyzing and interpreting gRNA-induced transcriptional profiles. CROP-seq allowed us to link gRNA expression to the associated transcriptome responses in thousands of single cells using a straightforward and broadly applicable screening workflow. Additional information are available from the CROP-seq website http://crop-seq.computational-epigenetics.org SOURCE: Christoph Bock (cbock@cemm.oeaw.ac.at) - CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences