Author: Delli Ponti, Riccardo; Marti, Stefanie; Armaos, Alexandros; Tartaglia, Gian Gaetano
Title: A high-throughput approach to profile RNA structure Document date: 2017_3_17
ID: k23xlzj0_12
Snippet: Since one technique might not be sufficient to capture structural properties of long transcripts (14) , we evaluated different approaches to combine the five CROSS models (PARS-Human, PARS-Yeast, SHAPE-HIV, icSHAPE-Mouse and NMR/X-ray) into a consensus prediction. To this aim, we measured the performances of the models on an independent test set of 67 NMR/X-ray structures (15) for which SHAPE data are available (17 145 fragments in total), evalua.....
Document: Since one technique might not be sufficient to capture structural properties of long transcripts (14) , we evaluated different approaches to combine the five CROSS models (PARS-Human, PARS-Yeast, SHAPE-HIV, icSHAPE-Mouse and NMR/X-ray) into a consensus prediction. To this aim, we measured the performances of the models on an independent test set of 67 NMR/X-ray structures (15) for which SHAPE data are available (17 145 fragments in total), evaluating precision (PPV) and Area Under the ROC Curve (AUC; Supplementary Figure S3 ). Consistently with the type of information contained in the training set, we observed the best performances for the NMR/X-ray model (PPV: 0.69; AUC: 0.64) followed by HIV-SHAPE (PPV: 0.64; AUC: 0.63). Comparing the scores of the five models, we did not find strong correlations (Supplementary Table S2), except for PARS-Human and PARS-Yeast (Pearson's correlation = 0.50) that were trained on data obtained with the same experimental techniques (Figure 1 ; Supplementary Figures S1 and S2 ).
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