title: DTW-MIC Coexpression Networks from Time-Course Data.
abstract: When modeling coexpression networks from high-throughput time course data, Pearson Correlation Coefficient (PCC) is one of the most effective and popular similarity functions. However, its reliability is limited since it cannot capture non-linear interactions and time shifts. Here we propose to overcome these two issues by employing a novel similarity function, Dynamic Time Warping Maximal Information Coefficient (DTW-MIC), combining a measure taking care of functional interactions of signals (MIC) and a measure identifying time lag (DTW). By using the Hamming-Ipsen-Mikhailov (HIM) metric to quantify network differences, the effectiveness of the DTW-MIC approach is demonstrated on a set of four synthetic and one transcriptomic datasets, also in comparison to TimeDelay ARACNE and Transfer Entropy.
authors.affiliation: Fondazione Bruno Kessler, Trento, Italy.
authors.forename: Samantha
authors.initials: S
authors.lastname: Riccadonna
authors.affiliation: Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy.
authors.forename: Giuseppe
authors.initials: G
authors.lastname: Jurman
authors.affiliation: Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy.
authors.forename: Roberto
authors.initials: R
authors.lastname: Visintainer
authors.affiliation: Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy.
authors.forename: Michele
authors.initials: M
authors.lastname: Filosi
authors.affiliation: Research and Innovation Centre, Fondazione Edmund Mach, San Michele all'Adige, Italy.
authors.forename: Cesare
authors.initials: C
authors.lastname: Furlanello
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D004926:Escherichia coli / Q000235:genetics / Q000378:metabolism; D053263:Gene Regulatory Networks; D006801:Humans; D053858:Metabolic Networks and Pathways; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism; D013601:T-Lymphocytes / Q000378:metabolism