Graphlets and motifs in biological networks
Webthe vector of graphlet degrees, counting the number of graphlets that the node touches; graphlets are small connected non-isomorphic induced subgraphs of a large network (Przˇulj et al., 2004) (see Figure 1). As opposed to partial subgraphs (e.g., network motifs (Milo et al., 2002)), graphlets must be induced, i.e., they must con-
Graphlets and motifs in biological networks
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WebJun 20, 2024 · Network motifs defined as small graphlets that occur more frequently than expected by chance have revolutionized our understanding of feed-back circuits in cellular networks. However, with their definition solely based on statistical over-representation, network motifs often lack biological context, which limits their usefulness. WebJan 15, 2007 · Understanding cellular networks is a major problem in current computational biology. These networks are commonly modeled by graphs (also called networks) …
WebJan 28, 2024 · Typed graphlets are a powerful generalization of the notion of graphlet (network motif) to heterogeneous networks as they capture both the induced subgraph of interest and the types associated with the nodes in the induced subgraph. To address this problem, we propose a fast, parallel, and space-efficient framework for counting typed … WebApr 1, 2024 · Graphlets. A graphlet is a connected non-isomorphic subgraph. Graphlets are used to provide node-level subgraph metrics and enable the generalisation of the notion of degree from the count of the …
WebThe article was published on 2010-12-01. It has received 10 citation(s) till now. The article focuses on the topic(s): Graph (abstract data type). WebDec 28, 2024 · Analogous to biological sequence comparison, comparing cellular networks is an important problem that could provide insight into biological understanding and therapeutics. For technical reasons, comparing large networks is computationally infeasible, and thus heuristics, such as the degree distribution, clustering coefficient, …
WebOct 13, 2016 · To analyse directed networks, we extend graphlets (small induced sub-graphs) and their degrees to directed data. Using these …
Graphlet degree vectors (signatures) and signature similarities were applied to biological networks to identify groups (or clusters) of topologically similar nodes in a network and predict biological properties of yet uncharacterized nodes based on known biological properties of characterized nodes. See more Graphlets in mathematics are induced subgraph isomorphism classes in a graph, i.e. two graphlet occurrences are isomorphic, whereas two graphlets are non-isomorphic. Graphlets differ from network motifs in … See more RGF-distance and GDD-agreement were used to evaluate the fit of various network models to real-world networks and to discover a new, well-fitting, geometric random graph model for protein-protein interaction networks, as well as other types of See more Relative graphlet frequency distance RGF-distance compares the frequencies of the appearance of all 3-5-node graphlets in two networks. Let Ni(G) be the number of graphlets of type $${\displaystyle i}$$ ($${\displaystyle i\in \{1,\ldots ,29\}}$$) … See more • [1] See more r-car g4mh cr52WebJan 28, 2024 · Typed graphlets are a powerful generalization of the notion of graphlet (network motif) to heterogeneous networks as they capture both the induced subgraph … rc arf glidersWebMotifs. Network motifs are repeated graphlets (small subgraphs of a larger network that appear at any frequency) in a specific network capturing particular patterns of interactions between vertices. They are often associated with particular functions (Stone et al., 2024) and are used for many applications in biological networks (Kim et al ... rc arfsWebGraphlets: Node feature vectors. From paper Biological network comparison using graphlet degree distribution. Graphlets are connected non-isomorphic subgraphs. Below … rca rldedv3255-a-eWebDec 6, 2011 · Biological and engineered networks have recently been shown to display network motifs: a small set of characteristic patterns that occur much more frequently than in randomized networks with the ... rca ric102 ice makerWebWhile the most popular techniques to study conservation of patterns in biological networks are through the use of network alignment techniques or the identification of network … r carlos weber 1288WebOct 13, 2016 · To analyse directed networks, we extend graphlets (small induced sub-graphs) and their degrees to directed data. Using these directed graphlets, we generalise state-of-the-art network distance ... sims 4 low waist jeans