Pooled genetic perturbation screens with image-based phenotypes
Video protocol for performing optical pooled screens as described in the publication, “Pooled genetic perturbation screens with image-based phenotypes." Developed in the Blainey Lab at the Broad Institute of MIT and Harvard, this protocol uses in situ sequencing of cellular perturbation identities to enable high-throughput measurement of single-cell image phenotypes in pooled samples of genetic perturbations.
Computational resources and instructions for accessing example data are available on GitHub.
Chapters
00:00 Introduction 3:09 Protocol overview 5:38 Sample preparation 7:10 In situ amplification and phenotype imaging 8:43 In situ sequencing-by-synthesis 10:16 Imaging overview 11:11 Ti-E and Micro-Manager imaging 15:12 Ti-2 and NIS Elements AR imaging 17:05 Data processing overview