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

ABSTRACT:

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 non-functional 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 o

SUBMITTER: Muhonen P 

PROVIDER: S-EPMC2424050 | biostudies-literature | 2008 May

REPOSITORIES: biostudies-literature