siRNA off-target effects in genome-wide screens identify signaling pathway members.
We introduce a method for analyzing small interfering RNA (siRNA) genetic screens based entirely on off-target effects. Using a screen for members of the Wnt pathway, we demonstrate that this method identifies known pathway components, some of which are not present in the screening library. This technique can be applied to siRNA screen results retroactively to confirm positives and identify genes missed using conventional methods for on-target gene selection.
National Center for Advancing Translational Sciences, National Institutes of Health, Bethesda, MD 20892, USA. eugen.buehler@nih.gov
Eugen
E
Buehler
Aly A
AA
Khan
Shane
S
Marine
Misha
M
Rajaram
Amit
A
Bahl
Julja
J
Burchard
Marc
M
Ferrer
D020413:3' Untranslated Regions / Q000235:genetics; D000465:Algorithms; D000818:Animals; D001483:Base Sequence; D019295:Computational Biology / Q000379:methods; D020869:Gene Expression Profiling; D015723:Gene Library; D016678:Genome / Q000235:genetics*; D023281:Genomics / Q000379:methods*; D006801:Humans; D008957:Models, Genetic; D034622:RNA Interference; D034741:RNA, Small Interfering / Q000235:genetics*; D015203:Reproducibility of Results; D015398:Signal Transduction / Q000235:genetics*; D060449:Wnt Signaling Pathway / Q000235:genetics
D020413:3' Untranslated Regions; D034741:RNA, Small Interfering