TY - JOUR T1 - Pooled CRISPR screening with single-cell transcriptome read-out JF - bioRxiv DO - 10.1101/083774 SP - 083774 AU - Paul Datlinger AU - Christian Schmidl AU - André F Rendeiro AU - Peter Traxler AU - Johanna Klughammer AU - Linda Schuster AU - Christoph Bock Y1 - 2016/01/01 UR - http://biorxiv.org/content/early/2016/10/27/083774.abstract N2 - CRISPR-based genetic screens have revolutionized the search for new gene functions and biological mechanisms. However, widely used pooled screens are limited to simple read-outs of cell proliferation or the production of a selectable marker protein. Arrayed screens allow for more complex molecular read-outs such as transcriptome profiling, but they provide much lower throughput. Here we demonstrate CRISPR genome editing together with single-cell RNA sequencing as a new screening paradigm that combines key advantages of pooled and arrayed screens. This approach allowed us to link guide-RNA expression to the associated transcriptome responses in thousands of single cells using a straightforward and broadly applicable screening workflow. ER -