Monge properties of sequence alignment

Multiple Sequence Alignment Multiple Sequence Alignment

An algorithm for progressive multiple alignment of sequences with insertions " , 1. Introduction The problem of sequence alignment is to find the patterns of sequence conservation and similarity between pairs or sets of given sequences. In biological contexts, similarity between biological sequences usually amounts to either functional or structural similarities or divergence from a common ance...

Perspectives of Monge Properties in Optimization

Rainer E . Perspective of Monge properties

An M x n matrix C is called Mange matrix if c,, + cTT < clr + cr, for all 1 < i -c r < rn, 1 < j < s d n. In this paper we present a survey on Monge matrices and related Monge properties and their role in combinatorial optimization. Specifically, we deal with the following three main topics: (i) fundamental combinatorial properties of Monge structures, (ii) applications of Monge properties to o...

Fast Algorithms with Algebraic Monge Properties

When restricted to cost arrays possessing the sum Monge property, many combinatorial optimization problems with sum objective functions become significantly easier to solve. The more general algebraic assignment and transportation problems are similarly easier to solve given cost arrays possessing the corresponding algebraic Monge property. We show that Monge-array results for two sum-of-edge-c...

Sequence Alignment