Bioinformatic Application of Fluorescence-Based In Vivo RNA Regional Accessibility Data to Identify Novel sRNA Targets
| Autor: | Bridget Li, Lydia M. Contreras, Mia K. Mihailovic, Emily K. Bowman |
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| Rok vydání: | 2020 |
| Předmět: |
0303 health sciences
Messenger RNA Chemistry RNA Computational biology Fluorescence 03 medical and health sciences 0302 clinical medicine In vivo Transfer RNA Electrophoretic mobility shift assay Sensing system 030217 neurology & neurosurgery Selection (genetic algorithm) 030304 developmental biology |
| Zdroj: | Methods in Molecular Biology ISBN: 9781071602775 |
| Popis: | Data from fluorescence-based methods that measure in vivo hybridization efficacy of unique RNA regions can be used to infer regulatory activity and to identify novel RNA: RNA interactions. Here, we document the step-by-step analysis of fluorescence data collected using an in vivo regional RNA structural sensing system (iRS3) for the purpose of identifying potential functional sites that are likely to be involved in regulatory interactions. We also detail a step-by-step protocol that couples this in vivo accessibility data with computational mRNA target predictions to inform the selection of potentially true targets from long lists of thermodynamic predictions. |
| Databáze: | OpenAIRE |
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