RNAMute -- RNA Secondary Structure Mutation Analysis Tool
What you can do:
An application that provides a user friendly interface for analyzing the effects of point mutations on RNAs secondary structure.
Highlights:
- RNAMute is an interactive Java application that calculates the secondary structure of all single point mutations, given an RNA sequence, and organizes them into categories according to their similarity with respect to the wild type predicted structure.
- The secondary structure predictions are performed using the Vienna RNA package.
- Several alternatives are used for the categorization of single point mutations: Vienna's RNAdistance based on dot-bracket representation, as well as tree edit distance and second eigenvalue of the Laplacian matrix based on Shapiro's coarse grain tree graph representation.
- Selecting a category in each one of the processed tables lists all single point mutations belonging to that category.
- Selecting a mutation displays a graphical drawing of the single point mutation and the wild type, and includes basic information such as associated energies, representations and distances.
- RNAMute can be used successfully with very little previous experience and without choosing any parameter value alongside the initial RNA sequence.
- The package runs under LINUX operating system.
Keywords:
- RNA secondary structure
- RNA point mutation
- single point mutation
Literature & Tutorials:
This record last updated: 08-06-2008