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 ӳ��ý 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 .

Chapters

Introduction
Protocol overview
Sample preparation
In situ amplification and phenotype imaging
In situ sequencing-by-synthesis
Imaging overview
Ti-E and Micro-Manager imaging
Ti-2 and NIS Elements AR imaging
Data processing overview