Computational identification of protein binding sites on RNA using high-throughput RNA structure-probing data



High-throughput sequencing has been used to probe RNA structures, by treating RNAs with reagents that preferentially cleave or mark certain nucleotides according to their local structures, followed by sequencing of the resulting fragments. The data produced contain valuable information for studying various RNA properties.


We developed methods for statistically modeling these structure probing data, and extracting features potentially related to the tertiary structures of RNAs.


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