W. Kladwang

Identification and targeting of a pan-genotypic influenza A virus RNA structure that mediates packaging and disease.

This paper identifies a conserved RNA structure in influenza A virus that mediates packaging and disease, showing that targeting it inhibits virus production and reduces disease severity.

Cryo-electron Microscopy and Exploratory Antisense Targeting of the 28-kDa Frameshift Stimulation Element from the SARS-CoV-2 RNA Genome

The paper uses cryo-EM and ASO experiments to study the SARS-CoV-2 FSE structure and its potential as an antiviral target, finding a complex tertiary structure but challenges in effective inactivation.

RNA secondary structure packages evaluated and improved by high-throughput experiments

The paper evaluates RNA structure prediction packages using synthetic data and introduces an improved model that performs better on diverse datasets.

De novo 3D models of SARS-CoV-2 RNA elements and small- molecule-binding RNAs to aid drug discovery

The paper provides 3D models of SARS-CoV-2 RNA elements and small-molecule-binding RNAs to support drug discovery efforts using computational modeling and experimental validation.

Anomalous reverse transcription through chemical modifications in polyadenosine stretches

The paper re-analyzes data on reverse transcriptase behavior at chemically modified polyadenosine stretches, finding near-quantitative bypass of modifications.

Ribosolve: Rapid determination of three-dimensional RNA-only structures

Ribosolve rapidly determines 3D RNA-only structures using cryo-EM, chemical mapping, and Rosetta modeling, validated by multiple benchmarks and showing high accuracy.

Automated design of highly diverse riboswitches

This paper introduces an automated method, RiboLogic, to design diverse riboswitches and validates them experimentally, showing improved performance in modulating molecular interactions.

Blind prediction of noncanonical RNA structure at atomic accuracy

This paper introduces a new method for predicting noncanonical RNA structures with high accuracy, validated through benchmarking and blind challenges.

Allosteric Mechanism of the V. vulnificus Adenine Riboswitch Resolved by Four-dimensional Chemical Mapping

This paper introduces a new method called lock-mutate-map-rescue (LM2R) to study the allosteric mechanism of a riboswitch, supporting the MWC model over alternative models.

RNA structure inference through chemical mapping after accidental or intentional mutations

This paper introduces M2-seq, a method to infer RNA structures through chemical mapping and mutations, achieving accurate helix detection with low false positives in vitro and in complex biological environments.