High-throughput structure profiling (SP) experiments that provide information at nucleotide resolution are revolutionizing our ability to study RNA structures. Of particular interest are RNA elements whose underlying structures are necessary for their biological functions. We previously introduced patteRNA, an algorithm for rapidly mining SP data for patterns characteristic of such motifs. This work provided a proof-of-concept for the detection of motifs and the capability of distinguishing structures displaying pronounced conformational changes. Here, we describe several improvements and automation routines to patteRNA. We then consider more elaborate biological situations starting with the comparison or integration of results from searche...
Understanding the 3D structural properties of RNAs will play a critical role in identifying their fu...
BackgroundStructure profiling experiments provide single-nucleotide information on RNA structure. Re...
Abstract Background Alignment of RNA secondary structures is important in studying functional RNA mo...
High-throughput structure profiling (SP) experiments that provide information at nucleotide resoluti...
Abstract Establishing a link between RNA structure and function remains a great challenge in RNA bio...
RNA molecules are known to fold into specific structures which often play a central role in their fu...
Many biological processes are RNA-mediated, but higher-order structures for most RNAs are unknown, m...
RNA is a key biopolymer that mechanistically drives many cellular processes. As a single-stranded mo...
<p>Datasets, code and results supporting the manuscript:</p> <p>Radecki P., Ledda M. & Aviran S., A...
The rapidly growing popularity of RNA structure probing methods is leading to increasingly large amo...
<p>Datasets, code and results supporting the manuscript:</p> <p>Ledda M. & Aviran S., patteRNA: tra...
RNA molecules fold into characteristic secondary and tertiary structures that account for their dive...
Pattern discovery aims to find interesting, non-trivial, implicit, previously unknown and potentiall...
Understanding the 3D structural properties of RNAs will play a critical role in identifying their fu...
BackgroundStructure profiling experiments provide single-nucleotide information on RNA structure. Re...
Abstract Background Alignment of RNA secondary structures is important in studying functional RNA mo...
High-throughput structure profiling (SP) experiments that provide information at nucleotide resoluti...
Abstract Establishing a link between RNA structure and function remains a great challenge in RNA bio...
RNA molecules are known to fold into specific structures which often play a central role in their fu...
Many biological processes are RNA-mediated, but higher-order structures for most RNAs are unknown, m...
RNA is a key biopolymer that mechanistically drives many cellular processes. As a single-stranded mo...
<p>Datasets, code and results supporting the manuscript:</p> <p>Radecki P., Ledda M. & Aviran S., A...
The rapidly growing popularity of RNA structure probing methods is leading to increasingly large amo...
<p>Datasets, code and results supporting the manuscript:</p> <p>Ledda M. & Aviran S., patteRNA: tra...
RNA molecules fold into characteristic secondary and tertiary structures that account for their dive...
Pattern discovery aims to find interesting, non-trivial, implicit, previously unknown and potentiall...
Understanding the 3D structural properties of RNAs will play a critical role in identifying their fu...
BackgroundStructure profiling experiments provide single-nucleotide information on RNA structure. Re...
Abstract Background Alignment of RNA secondary structures is important in studying functional RNA mo...