MAGIIC-PRO employs a novel constraint model to discover functional motifs that span several large irregular gaps in protein sequences. Using two types of gap constraints for different purposes improves the efficiency of the mining process while keeping high accuracy of mining results.
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MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences.
Hsu CM, Chen CY, Liu BJ.
Nucleic Acids Res. 2008 Mar;36(4):1400-6.