Jessica L. Childs

TL;DR: A dynamic programming algorithm for prediction of RNA secondary structure has been revised to accommodate folding constraints determined by chemical modification and to include free energy increments for coaxial stacking of helices when they are either adjacent or separated by a single mismatch.

TL;DR: The ODMiR approach provides a potential therapeutic strategy applicable to RNAs with secondary or tertiary structures required for function, and is demonstrated with the group I intron from Candida albicans, a human pathogen.

TL;DR: To provide insight into structure-function relationships important for TPRT, alignments that reveal the secondary structure for 22 Drosophila and five silkmoth 3' UTR R2 sequences appear to have common helices that are likely important for function.

TL;DR: The ODMiR method can be applied to RNAs even when folding is facilitated by a cognate protein, and Diethyl pyrocarbonate modification in the presence of 12-mer reveals increased modification of sites in and interacting with P4, suggesting a structural rearrangement of a large pseudoknot important for catalytic activity.

TL;DR: Investigations aimed at targeting RNA with oligonucleotides that can circumvent several of these potential problems are reviewed, with the hallmark of the strategies discussed is the use of short oligon nucleotides, which may have the advantage of higher cellular uptake and improved binding selectivity compared to longer oligon DNA.