105 citations · 275 across the 11 of their papers we have counts for
11 papers
Deep learning models for predicting RNA degradation via dual crowdsourcing
Hannah K. Wayment-Steele, Wipapat Kladwang, Andrew M. Watkins +26
Messenger RNA-based medicines hold immense potential, as evidenced by their rapid deployment as COVID-19 vaccines. However, worldwide distribution of mRNA molecules has been limite…
Correcting a SHAPE-directed RNA structure by a mutate-map-rescue approach
Siqi Tian, Pablo Cordero, Wipapat Kladwang +1
The three-dimensional conformations of non-coding RNAs underpin their biochemical functions but have largely eluded experimental characterization. Here, we report that integrating…
Massively Parallel RNA Chemical Mapping with a Reduced Bias MAP-seq Protocol
Matthew G. Seetin, Wipapat Kladwang, J. P. Bida +1
Chemical mapping methods probe RNA structure by revealing and leveraging correlations of a nucleotide's structural accessibility or flexibility with its reactivity to various chemi…
A mutate-and-map protocol for inferring base pairs in structured RNA
Pablo Cordero, Wipapat Kladwang, Christopher C. VanLang +1
Chemical mapping is a widespread technique for structural analysis of nucleic acids in which a molecule's reactivity to different probes is quantified at single-nucleotide resoluti…
Quantitative DMS mapping for automated RNA secondary structure inference
Pablo Cordero, Wipapat Kladwang, Christopher C. VanLang +1
For decades, dimethyl sulfate (DMS) mapping has informed manual modeling of RNA structure in vitro and in vivo. Here, we incorporate DMS data into automated secondary structure inf…
Ultraviolet Shadowing of RNA Causes Substantial Non-Poissonian Chemical Damage in Seconds
Wipapat Kladwang, Justine Hum, Rhiju Das
Chemical purity of RNA samples is critical for high-precision studies of RNA folding and catalytic behavior, but such purity may be compromised by photodamage accrued during ultrav…