Ferhat Alkan ; Türker Bıyıkoğlu ; Marc Demange ; Cesim Erten - Structure of conflict graphs in constraint alignment problems and algorithms

dmtcs:3857 - Discrete Mathematics & Theoretical Computer Science, September 11, 2019, vol. 21 no. 4 - https://doi.org/10.23638/DMTCS-21-4-10
Structure of conflict graphs in constraint alignment problems and algorithmsArticle

Authors: Ferhat Alkan ORCID; Türker Bıyıkoğlu ; Marc Demange ; Cesim Erten ORCID

    We consider the constrained graph alignment problem which has applications in biological network analysis. Given two input graphs $G_1=(V_1,E_1), G_2=(V_2,E_2)$, a pair of vertex mappings induces an {\it edge conservation} if the vertex pairs are adjacent in their respective graphs. %In general terms The goal is to provide a one-to-one mapping between the vertices of the input graphs in order to maximize edge conservation. However the allowed mappings are restricted since each vertex from $V_1$ (resp. $V_2$) is allowed to be mapped to at most $m_1$ (resp. $m_2$) specified vertices in $V_2$ (resp. $V_1$). Most of results in this paper deal with the case $m_2=1$ which attracted most attention in the related literature. We formulate the problem as a maximum independent set problem in a related {\em conflict graph} and investigate structural properties of this graph in terms of forbidden subgraphs. We are interested, in particular, in excluding certain wheals, fans, cliques or claws (all terms are defined in the paper), which corresponds in excluding certain cycles, paths, cliques or independent sets in the neighborhood of each vertex. Then, we investigate algorithmic consequences of some of these properties, which illustrates the potential of this approach and raises new horizons for further works. In particular this approach allows us to reinterpret a known polynomial case in terms of conflict graph and to improve known approximation and fixed-parameter tractability results through efficiently solving the maximum independent set problem in conflict graphs. Some of our new approximation results involve approximation ratios that are function of the optimal value, in particular its square root; this kind of results cannot be achieved for maximum independent set in general graphs.

    Volume: vol. 21 no. 4
    Section: Discrete Algorithms
    Published on: September 11, 2019
    Accepted on: August 6, 2019
    Submitted on: August 14, 2017
    Keywords: Computer Science - Data Structures and Algorithms,Computer Science - Computational Engineering, Finance, and Science
      Source : OpenAIRE Graph
    • Geometric Representations and Symmetries of Graphs, Maps and Other Discrete Structures and Applications in Science; Funder: Türkiye Bilimsel ve Teknolojik Araştırma Kurumu; Code: 210T173
    • Bionetalign: Biyokimyasal Ağlarda Fonksiyonel Ortoloji Çıkarımı Amaçlı Global Hizalamalar; Funder: Türkiye Bilimsel ve Teknolojik Araştırma Kurumu; Code: 112E137

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