Open Access. Powered by Scholars. Published by Universities.®
Articles 1 - 1 of 1
Full-Text Articles in Medicine and Health Sciences
A Structural Interpretation Of The Effect Of Gc-Content On Efficiency Of Rna Interference, Chi Yu Chan, C Steven Carmack, Dang D. Long, Anil Maliyekkel, Yu Shao, Igor Roninson, Ye Ding
A Structural Interpretation Of The Effect Of Gc-Content On Efficiency Of Rna Interference, Chi Yu Chan, C Steven Carmack, Dang D. Long, Anil Maliyekkel, Yu Shao, Igor Roninson, Ye Ding
Faculty Publications
BACKGROUND: RNA interference (RNAi) mediated by small interfering RNAs (siRNAs) or short hairpin RNAs (shRNAs) has become a powerful technique for eukaryotic gene knockdown. siRNA GC-content negatively correlates with RNAi efficiency, and it is of interest to have a convincing mechanistic interpretation of this observation. We here examine this issue by considering the secondary structures for both the target messenger RNA (mRNA) and the siRNA guide strand. RESULTS: By analyzing a unique homogeneous data set of 101 shRNAs targeted to 100 endogenous human genes, we find that: 1) target site accessibility is more important than GC-content for efficient RNAi; 2) …