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SiRNA Scanner - A Fuzzy Logic Based Tool for Small Interference RNA Design

Vijayakumar Saravanan and Piramanaygam Shanmughavel

The discovery of short interfering RNA has admitted the development of facile regulated methods for disruption of gene expression. However, this method continues to grow in popularity, designing effective siRNA can be demanding. So we have developed siRNA Scanner, a siRNA selection program that automatically selects Small Interfering RNA from the given RNA sequences. siRNA Scanner uses a fuzzy logic-based system to calculate siRNA qualities. This program is fully built in Practical Extract Report Language (PERL 5.8.8.6 Build 820) and accessible in a command line interface. siRNA Scanner's high performance, minimal user interaction, and its fast algorithm, make this program useful for selecting Small Interfering RNA for gene expression studies.