DNA Algorithms

Algorithms for automated DNA assembly

Generating a defined set of genetic constructs within a large combinatorial space provides a powerful method for engineering novel biological functions. However, the process of assembling more than a few specific DNA sequences can be costly, time consuming and error prone. Even if a correct theoretical construction scheme is developed manually, it is likely to be suboptimal by any number of cos...

DNA Mapping Algorithms: Topological Mapping

There are several basic approaches that can be used in attempting to produce high-resolution DNA restriction maps. A standard approach is the match/merge approach in which first the topology of the map units being mapped together is suppressed and lists of potential matches between fragments are generated, and second the topology is introduced to eliminate matchlists which are inconsistent with...

Dna Simulation of Genetic Algorithms: Fitness Computation1

In this paper a computational mode is presented base on DNA molecules. This model incorporates the theoretical simulation of the principal operations in genetic algorithms. It defines the way of coding of individuals, crossing and the introduction of the individuals so created into the population. It resolves satisfactorily the problems of fitness coding. It shows also the model projection for ...

Algorithms for DNA Restri tion Mapping

New algorithms for DNA sequencing by hybridization

The reconstruction of DNA sequences from DNA fragments is one of the most challenging problems in computational biology. In recent years the specific problem of DNA sequencing by hybridization has attracted quite a lot of interest in the optimization community. Despite the fact that well-working constructive heuristics are often the basis for well-working metaheuristics, only two constructive h...