Phylogenetic footprinting is a comparative genomics approach for predicting transcription factor binding sites, where a set of orthologous regulatory regions are compared and short...
Abstract—We consider the problem of aligning multiple protein sequences with the goal of maximizing the SP (Sum-of-Pairs) score, when the number of sequences is large. The QOMA (...
Background: Determining beforehand specific positions to align (anchor points) has proved valuable for the accuracy of automated multiple sequence alignment (MSA) software. This f...
— This paper presents an approach to the multiple sequence alignment (MSA) problem by applying genetic algorithms with a reserve selection mechanism. MSA is one of the most funda...
Yang Chen, Jinglu Hu, Kotaro Hirasawa, Songnian Yu
The problem of multiple sequence alignment is important for bioinformatics. This problem is widely studied and a popular tool to solve this problem is Clustal X. This work introdu...