Current Protocols in Chemical Biology has just published our SHAPE-Seq protocol paper “SHAPE-Seq: High-Throughput RNA Structure Analysis”. The full text can be found here. This is the best place to start to get a sense of the background behind the technique, and a very detailed step-by-step protocol of all aspects of the protocol including data analysis using the spats package (more info here).
Congratulations to the SHAPE-Seq team on making this technique widely accessible and let’s hope this spurs the next wave of SHAPE-Seq development!
Lucks Laboratory 