A 2-approximation for the preceding-and-crossing structured 2-interval pattern problem

The 2-interval pattern problem over its various models and restrictions was proposed by Vialette (2004) for the application of RNA secondary structure prediction. We present an O(n3 log n)-time 2-approximation algorithm for the problem of finding a largest {<, }-structured subset of 2-intervals given an input 2-interval set of size n. This greatly improves the previous best approximation ratio of 6 by Crochemore et al. (2005). Keywords 2-Interval . Approximation algorithms . RNA secondary structure prediction

• Type: Journal
• Year: 2007
• Where: JCO
• Authors: Minghui Jiang
• Keywords: 2-interval Pattern Problem, JCO 2007, Rna Secondary Structure, Secondary Structure Prediction