473 citations · 911 across the 17 of their papers we have counts for
17 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…
SentRNA: Improving computational RNA design by incorporating a prior of human design strategies
Jade Shi, Rhiju Das, Vijay S. Pande
Solving the RNA inverse folding problem is a critical prerequisite to RNA design, an emerging field in bioengineering with a broad range of applications from reaction catalysis to…
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…
Serverification of Molecular Modeling Applications: the Rosetta Online Server that Includes Everyone (ROSIE)
Sergey Lyskov, Fang-Chieh Chou, Shane Ó Conchúir +14
The Rosetta molecular modeling software package provides experimentally tested and rapidly evolving tools for the 3D structure prediction and high-resolution design of proteins, nu…
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…