id="auto-label-section-435550" class="ltx_title_section">Abstract:

By combining droplet based single cell transcriptomics with CRISPR-Cas based perturbations we demonstrate the ability to perform thousands of genetic manipulations in a single pooled experiment. This represents a [100x...put actual number here] improvement in cost over current approaches. By randomly lentivirally integrating several sgRNAs in each cell, we show the ability to extend the method to perform combinatorially screens. The random structure of the experimental design matrix, so constructed, satisfies the incoherence properties in a compressed sensing framework. Finally, by increasing the number of cells per droplet we demonstrate that for a small reduction in sensitivity for differentially expressed genes that decrease in expression we gain a ten fold increase in sample size. Together, these statistical and experimental methods will enable researchers to perform large scale screening of perturbations using RNA transcription as a phenotype.