Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping

Christina Laufer, Bernd Fischer, Maximilian Billmann, Wolfgang Huber, Michael Boutros

Research output: Contribution to journalArticlepeer-review

80 Scopus citations

Abstract

Genetic interactions influence many phenotypes and can be used as a powerful experimental tool to discover functional relationships between genes. Here we describe a robust and scalable method to systematically map genetic interactions in human cancer cells using combinatorial RNAi and high-throughput imaging. Through automated, single-cell phenotyping, we measured genetic interactions across a broad spectrum of phenotypes, including cell count, cell eccentricity and nuclear area. We mapped genetic interactions of epigenetic regulators in colon cancer cells, recovering known protein complexes. Our study also revealed the prospects and challenges of studying genetic interactions in human cells using multiparametric phenotyping.

Original languageEnglish (US)
Pages (from-to)427-431
Number of pages5
JournalNature Methods
Volume10
Issue number5
DOIs
StatePublished - May 2013

Bibliographical note

Funding Information:
We thank T. Horn, T. Sandmann and members of the Boutros and Huber groups for helpful discussions. M. Boutros is supported by a European Research Council Advanced Grant (“Syngene”). W.H. acknowledges support by the European Union project Systems Microscopy. C.L. and B.F. were supported by the CellNetworks Cluster of Excellence of the German Research Foundation (DFG).

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