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Complement Submodular Information Measures for Balanced and Robust Data Selection A Proof of a Conjecture on Positive and Negative Square Energies of Unicyclic Graphs Laplacian Spectrum of the Weakly Zero-Divisor Graph of a Finite Commutative Ring An identity for second Eulerian numbers via lattice-point counting $t$-tone edge coloring of graphs Constructing Maximal Bumpless Pipedreams for Double Grothendieck Polynomials Mubayi's Polynomial-Ideal Conjecture and Cover-Ideal Turán Methods Implicit Binarization via Complex Phase Dynamics in Combinatorial Optimization The limits of Schur multipliers in Pólya conversion problems for the $q$-permanent function Universality theorems for generalized splines Framing Triangulations for Arbitrary Integer Flow Polytopes On the Common Generalization of Gentle Algebras and Framed Directed Acyclic Graphs The complexity of frugal digraph homomorphisms Chaotic and periodic behavior of jeu de taquin on infinite Young tableaux Enumerating Pattern Avoiding Parking Functions Incidence toric ideals and three-point functions Unique Winning Opening Move in Three-Row Chomp Strong majority colorings of graphs A Balancing Theorem for Spanning Trees of Rectangular Grid Graphs Spectral radius and edge-disjoint connected factors of graphs New invariants for rank metric codes, with applications to the classification of rank two semifields of order 256 Flexible DP-4-coloring of planar graphs without 4-cycles and intersecting triangles Balanced intersection size distributions in projective planes List Reconstruction Problem with List Size Two Is Dimensionality a Barrier for Retrieval Models? 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A new 1.375-approximation algorithm for Sorting By Transpositions
L. A. G. Silva, L. A. B. Kowada, N. R. Rocco, M. E. M. T. Walter · 2020-01-31 · via math.CO updates on arXiv.org

In genome rearrangements, the mutational event transposition swaps two adjacent blocks of genes in one chromosome. The Transposition Distance Problem (TDP) aims to find the minimum number of transpositions required to transform one chromosome into another, both represented as permutations. The TDP can be reduced to the problem of Sorting by Transpositions (SBT). SBT is $\mathcal{NP}$-hard and the best approximation algorithm with a $1.375$ ratio was proposed by Elias and Hartman. Their algorithm employs simplification, a technique used to transform an input permutation $π$ into a simple permutation $\hatπ$, presumably easier to handle with. The permutation $\hatπ$ is obtained by inserting new symbols into $π$ in a way that the lower bound of the transposition distance of $π$ is kept on $\hatπ$. The simplification is guaranteed to keep the lower bound, not the transposition distance. In this paper, we first show that the algorithm of Elias and Hartman (EH algorithm) may require one extra transposition above the approximation ratio of $1.375$, depending on how the input permutation is simplified. Next, using an algebraic approach, we propose a new upper bound for the transposition distance and a new $1.375$-approximation algorithm to solve SBT skipping simplification and ensuring the approximation ratio of $1.375$ for all $S_n$. We implemented our algorithm and EH's. Regarding the implementation of the EH algorithm, two issues needed to be fixed. We tested both algorithms against all permutations of size $n$, $2\leq n \leq 12$. The results show that the EH algorithm exceeds the approximation ratio of $1.375$ for permutations with a size greater than $7$. Finally, we investigate the performance of both implementations on longer permutations of maximum length $500$.