GA-PPI-Net: A Genetic Algorithm for Community Detection in Protein-Protein Interaction Networks
Ben M’barek, Marwa; Borgi, Amel; Ben Hmida, Sana; Rukoz, Marta (2020), GA-PPI-Net: A Genetic Algorithm for Community Detection in Protein-Protein Interaction Networks, in van Sinderen, Marten; Maciaszek, Leszek A., Software Technologies, Springer International Publishing : Berlin Heidelberg, p. 133-155. 10.1007/978-3-030-52991-8_7
Type
Communication / ConférenceDate
2020Conference title
14th International Conference, ICSOFT 2019 (Revised Selected Papers)Conference date
2020-07Conference city
PragueConference country
Czech RepublicBook title
Software TechnologiesBook author
van Sinderen, Marten; Maciaszek, Leszek A.Publisher
Springer International Publishing
Published in
Berlin Heidelberg
ISBN
978-3-030-52990-1; 978-3-030-52991-8
Number of pages
229Pages
133-155
Publication identifier
Metadata
Show full item recordAuthor(s)
Ben M’barek, MarwaLaboratoire d'analyse et modélisation de systèmes pour l'aide à la décision [LAMSADE]
Borgi, Amel
Laboratoire d'Informatique, Programmation, Algorithmique et Heuristique [LIPAH]
Ben Hmida, Sana
Laboratoire d'analyse et modélisation de systèmes pour l'aide à la décision [LAMSADE]
Rukoz, Marta
Laboratoire d'analyse et modélisation de systèmes pour l'aide à la décision [LAMSADE]
Abstract (EN)
Community detection has become an important research direction for data mining in complex networks. It aims to identify topological structures and discover patterns in complex networks, which presents an important problem of great significance. In this paper, we are interested in the detection of communities in the Protein-Protein or Gene-gene Interaction (PPI) networks. These networks represent a set of proteins or genes that collaborate at the same cellular function. The goal is to identify such semantic and topological communities from gene annotation sources such as Gene Ontology. We propose a Genetic Algorithm (GA) based approach to detect communities having different sizes from PPI networks. For this purpose, we introduce three specific components to the GA: a fitness function based on a similarity measure and the interaction value between proteins or genes, a solution for representing a community with dynamic size and a specific mutation operator. In the computational tests carried out in this work, the introduced algorithm achieved excellent results to detect existing or even new communities from PPI networks.Subjects / Keywords
Community detection; Genetic algorithm Protein-Protein or gene-gene interaction networks; Semantic Similarity; Gene OntologyRelated items
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