An Ant-Based Model for Multiple Sequence Alignment

Abstract. Multiple sequence alignment is a key process in today’s biology, and finding a relevant alignment of several sequences is much more challenging than just optimizing some improbable evaluation functions. Our approach for addressing multiple sequence alignment focuses on the building of structures in a new graph model: the factor graph model. This model relies on block-based formulation of the original problem, formulation that seems to be one of the most suitable ways for capturing evolutionary aspects of alignment. The structures are implicitly built by a colony of ants laying down pheromones in the factor graphs, according to relations between blocks belonging to the different sequences.

• Type: Conference
• Year: 2007
• Where: LSSC
• Authors: Frédéric Guinand, Yoann Pigné
• Keywords: Applied Computing, Factor Graphs, Graph Model, LSSC 2007, Multiple Sequence Alignment