An algorithm for motif-based network design
Research output: Contribution to journal › Article › Scientific › peer-review
|Journal||IEEE - ACM Transactions on Computational Biology and Bioinformatics|
|Early online date||7 Jun 2016|
|Publication status||Published - 2017|
|Publication type||A1 Journal article-refereed|
A determinant property of the structure of a biological network is the distribution of local connectivity patterns, i.e. network motifs. In this work, a method for creating directed, unweighted networks while promoting a certain combination of motifs is presented. This motif-based network algorithm starts with an empty graph and randomly connects the nodes by advancing or discouraging the formation of chosen motifs. The in- or out-degree distribution of the generated networks can be explicitly chosen. The algorithm is shown to perform well in producing networks with high occurrences of the targeted motifs, both ones consisting of 3 nodes as well as ones consisting of 4 nodes. Moreover, the algorithm can also be tuned to bring about global network characteristics found in many natural networks, such as small-worldness and modularity.
- Algorithm design and analysis, Biological system modeling, Computers, Heuristic algorithms, Indexes, Prediction algorithms, Signal processing algorithms, graph algorithm, network generation, network motifs, network structure, random attachment