Analysis by siRNA_profile program displays novel thermodynamic characteristics of highly functional siRNA molecules

Objective: Here we report the improved results of a new siRNA design program and analysis tool called siRNA_profile that reveals an additional criterion for bioinformatic search of highly functional siRNA sequences. Methods: We retrospectively analysed over 2400 siRNA sequences from 34 genes and with known efficacies to categorize factors that differentiate highly, moderately and non-functional siRNA sequences in more detail. We tested the biological relevance of siRNA_profile in CHO cells stably expressing human TRACP. Results: The highly functional siRNA molecules exhibited lower overall stabilities than nonfunctional siRNAs after taking into consideration all the nucleotides from 5'-terminus to the 3'terminus along the siRNA molecule, in addition to the 5'-section of the antisense strand and the region between 9

• Type: Journal
• Year: 2008
• Where: SCFBM
• Authors: Pirkko Muhonen, Ranga N. Parthasarathy, Anthony J. Janckila, Kalman G. Büki, H. Kalervo Väänänen
• Keywords: Functional SiRNA, SCFBM 2008, Sirna Design Programs, SiRNA Sequences