Being in the same tweet as Olke Uhlenbeck is a true honor. Thank you @jhdcate.bsky.social

Hi @incarnatolab.bsky.social thanks very much. Yes we ran this already and are processing now. There are many interesting things to checkout.

@rodrigo-reis.bsky.social We are doing that right now. I totally agree.

@gallardo-seq.bsky.social yes, I absolutely agree.

Our results provide a quantitative framework for interpreting DMS reactivity patterns in RNA. This enables more sophisticated structure prediction algorithms that consider local sequence context, non-canonical interactions, and three-dimensional features - moving beyond simple base-pair predictions.

Most significantly, we discover that DMS reactivity correlates strongly with atomic distances in non-canonical base pairs. These quantitative relationships demonstrate that DMS chemical mapping data encodes detailed information about RNA 3D structure.

Our results provide a quantitative framework for interpreting DMS reactivity patterns in RNA. This enables more sophisticated structure prediction algorithms that consider local sequence context, non-canonical interactions, and three-dimensional features - moving beyond simple base-pair predictions.

Our results provide a quantitative framework for interpreting DMS reactivity patterns in RNA. This enables more sophisticated structure prediction algorithms that consider local sequence context, non-canonical interactions, and three-dimensional features - moving beyond simple base-pair predictions.

Most significantly, we discover that DMS reactivity correlates strongly with atomic distances in non-canonical base pairs. These quantitative relationships demonstrate that DMS chemical mapping data encodes detailed information about RNA 3D structure.

We find that 11% of non-Watson-Crick nucleotides show protection from DMS similar to Watson-Crick pairs. This protection stems from hydrogen bonding and reduced solvent accessibility. Sequence context can alter reactivity up to 100-fold in specific non-canonical pairs.

We analyzed flanking WC pairs and found structural features that determine their DMS reactivity. A-U pairs are 19-fold more reactive than G-C pairs, purine neighbors increase reactivity, and junction asymmetry correlates with higher reactivity.

Analysis of our comprehensive dataset reveals DMS reactivity exists on a continuous spectrum rather than discrete states. We observe ~10% overlap between Watson-Crick and non-Watson-Crick nucleotides, demonstrating that simple reactivity thresholds cannot reliably determine base-pairing status.

To correlate DMS reactivity with RNA structure, we built a massive library of 7,500 RNA constructs containing multiple junctions with known 3D structures. Our measurements are highly reproducible (R²=0.99), span four orders of magnitude, and reveal that RNA motifs have unique DMS profiles.

@incarnatolab.bsky.social Same. Thanks for the shoutout. It's nice to see you here.