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RNAthermsw: Direct Temperature Simulations for Predicting the Location of RNA Thermometers
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RNAthermsw: Direct Temperature Simulations for Predicting the Location of RNA Thermometers
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Journal Article
RNAthermsw: Direct Temperature Simulations for Predicting the Location of RNA Thermometers
2014
Overview
The mechanism of RNA thermometers is a subject of growing interest. Also known as RNA thermosensors, these temperature-sensitive segments of the mRNA regulate gene expression by changing their secondary structure in response to temperature fluctuations. The detection of RNA thermometers in various genes of interest is valuable as it could lead to the discovery of new thermometers participating in fundamental processes such as preferential translation during heat-shock. RNAthermsw is a user-friendly webserver for predicting the location of RNA thermometers using direct temperature simulations. It operates by analyzing dotted figures generated as a result of a moving window that performs successive energy minimization folding predictions. Inputs include the RNA sequence, window size, and desired temperature change. RNAthermsw can be freely accessed at http://www.cs.bgu.ac.il/~rnathemsw/RNAthemsw/ (with the slash sign at the end). The website contains a help page with explanations regarding the exact usage.
Publisher
Public Library of Science,Public Library of Science (PLoS)
Subject
/ Analysis
/ Animals
/ Cold
/ Computer and Information Sciences
/ Drosophila melanogaster - genetics
/ Drosophila Proteins - genetics
/ Energy
/ Escherichia coli Proteins - metabolism
/ Genomes
/ Heat
/ Heat-Shock Proteins - metabolism
/ HSP110 Heat-Shock Proteins - genetics
/ HSP70 Heat-Shock Proteins - genetics
/ Humans
/ RNA
/ Software
