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To create an effective predictive model, it is important to know what properties of an oligonucleotide sequence associate significantly with antisense activity.

Kyle A McQuisten et al.

BMC Bioinformatics 8 (7), 07 Jun 2007

Also, for the model to be efficient we must know what properties do not associate significantly and can be omitted from the model.

Kyle A McQuisten et al.

BMC Bioinformatics 8 (7), 07 Jun 2007

This paper will discuss the results of a randomization procedure to find motifs that associate significantly with either high or low antisense suppression activity, analysis of their properties, as well as the results of support vector machine modelling using these significant motifs as features.

Kyle A McQuisten et al.

BMC Bioinformatics 8 (7), 07 Jun 2007

We discovered 155 motifs that associate significantly with high antisense suppression activity and 202 motifs that associate significantly with low suppression activity.

Kyle A McQuisten et al.

BMC Bioinformatics 8 (7), 07 Jun 2007

The thermodynamic properties of the significantly associated motifs support existing data correlating the thermodynamic properties of the antisense oligonucleotide with antisense efficiency, reinforcing our hypothesis that antisense suppression is strongly associated with probe/target thermodynamics, as there are no enzymatic mediators to speed the process along like the RNA Induced Silencing Complex (RISC) in RNAi.

Kyle A McQuisten et al.

BMC Bioinformatics 8 (7), 07 Jun 2007

12312 further examples >>

Identification of sequence motifs significantly associated with antisense activity

Kyle A McQuisten et al.

BMC Bioinformatics , 07 Jun 2007

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Journal of Biomedicine and Biotechnology , 2008

12307 further publications >>