Web-based platform for analysis of RNA folding from high throughput chemical probing data

Secondary structural ensembles of the SARS-CoV-2 RNA genome in infected cells

(2022) Tammy C. T. Lan et al.   Nature Communications

Sigma factor dependent translational activation in Bacillus subtilis

(2021) Dylan M. McCormick et al.   RNA

Determination of RNA structural diversity and its role in HIV-1 RNA splicing

(2020) Phillip J. Tomezsko et al.   NATURE

The roles of structural dynamics in the cellular functions of RNAs

(2019) Laura R. Ganser et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Computational design of three-dimensional RNA structure and function

(2019) Joseph D. Yesselman et al.   Nature Nanotechnology

A Stress Response that Monitors and Regulates mRNA Structure Is Central to Cold Shock Adaptation

(2018) Yan Zhang et al.   MOLECULAR CELL

Characterizing RNA structures in vitro and in vivo with selective 2′-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq)

(2016) Kyle E. Watters et al.   METHODS

DMS-MaPseq for genome-wide or targeted RNA structure probing in vivo

(2016) Meghan Zubradt et al.   NATURE METHODS

Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE

(2016) Ryan A Flynn et al.   Nature Protocols

Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq

(2015) Yiliang Ding et al.   Nature Protocols

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

(2013) Silvi Rouskin et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Centrality of RNA

(2009) Phillip A. Sharp   CELL