noRNAlize is a data analysis package to analyze and normalize SHAPE (Selective 2′-Hydroxyl Acylation and Primer Extension) data. Traditionally, SHAPE requires the addition of a 3′ hairpin to the RNA for normalization. noRNAlize elminates the need for this experimental step by performing a global analysis of the SHAPE data, and establishing mean protection values. This is particularly important when SHAPE analysis is used to map crystal contacts in crystal structures as illustrated here.
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Vicens Q, Gooding AR, Laederach A, Cech TR,
Local RNA structural changes induced by crystallization are revealed by SHAPE,