RT Journal Article
SR Electronic
T1 <em>CROSSalive</em>: a web server for predicting the <em>in vivo</em> structure of RNA molecules
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 626085
DO 10.1101/626085
A1 Riccardo Delli Ponti
A1 Alexandros Armaos
A1 Gian Gaetano Tartaglia
YR 2019
UL http://biorxiv.org/content/early/2019/05/05/626085.abstract
AB Here we introduce CROSSalive, an algorithm to predict the RNA secondary structure profile (double and single stranded regions) in vivo and without sequence length limitations. Using predictions of protein interactions CROSSalive predicts the effect of N6 adenosine methylation (m6a) on RNA structure. Trained on icSHAPE data in presence (m6a+) and absence (m6a-) of methylation CROSSalive achieves an accuracy of 0.88 on the test set. The algorithm was also applied to the murine long non-coding RNA Xist (17900 nt, not present in the training) and shows a Pearson’s correlation of 0.45 with SHAPE-map data. CROSSalive webserver is freely accessible at the following page: http://service.tartaglialab.com/new_submission/CROSSalive