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bioRxiv · 10.1101/083774

Pooled CRISPR screening with single-cell transcriptome read-out

Datlinger, P.·Schmidl, C.·Rendeiro, A. F.·Traxler, P.·Klughammer, J.·Schuster, L.·Bock, C.
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Abstract

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.

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Datlinger, P., Schmidl, C., Rendeiro, A. F., Traxler, P., Klughammer, J., Schuster, L., Bock, C.. 2016-10-27. Pooled CRISPR screening with single-cell transcriptome read-out. https://doi.org/10.1101/083774

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