Thursday, February 14, 2013
Publication and contact
Assays & screens
High throughput small
hairpin RNA-based genetic interaction mapping in human cells
throughput method to analyze genetic interactions in human cells could help
identify new disease pathways and targets. A library of shRNAs was
synthesized against all annotated human protein-coding genes that carried, on
average, 25 independent shRNAs per target. In cultured human cells treated
with the library, quantification of shRNA levels by deep sequencing
identified shRNAs against a series of targets, including HMG-CoA reductase, which
decreased ricin toxicity compared with control shRNA. In a secondary screen
of positive shRNA hits, a library containing every pairwise combination of
two shRNAs identified synergistic or suppressive genetic interactions, which
led to the identification of multiple putative protein pathways or complexes
that affect ricin sensitivity. Next steps include using the method to analyze
genetic interactions in cancer cells.
Published online Feb. 14, 2013
Patent and licensing status
Bassik, M.C. et al. Cell;
published online Feb. 7, 2013;
Contact: Martin Kampmann University of California, San
Contact: Michael C. Bassik, same affiliation as above
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