Modules of human micro-RNA co-target network

Basu, Mahashweta; Bhattacharyya, Nitai P.; Mohanty, P. K.

doi:10.1088/1742-6596/297/1/012002

Cited by 3 publications

(3 citation statements)

References 21 publications

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“…Moreover the situation gets worse when substantial number of small communities coexist with large ones. This observation is also true for weighted networks [36]. Therefore modularity maximization uncovers only large mod-ules missing important substructures which are small.…”

Section: Introductionmentioning

confidence: 66%

Communities of dense weighted networks: MicroRNA co-target network as an example

Basu

2014

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Complex networks are intrinsically modular. Resolving small modules is particularly difficult when the network is densely connected; wide variation of link weights invites additional complexities. In this article we present an algorithm to detect community structure in densely connected weighted networks. First, modularity of the network is calculated by erasing the links having weights smaller than a cutoff q. Then one takes all the disjoint components obtained at q = q c , where the modularity is maximum, and modularize the components individually using Newman Girvan's algorithm for weighted networks. We show, taking microRNA (miRNA) co-target network of Homo sapiens as an example, that this algorithm could reveal miRNA modules which are known to be relevant in biological context.

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Section: Introductionmentioning

confidence: 66%

Communities of dense weighted networks: MicroRNA co-target network as an example

Basu

2014

Preprint

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“…The miRNA co-target network is formed by joining a pair of miRNA by link and associating the number of co-targets as the weight of the link. Community structures of these densely weighted networks are then obtained using certain modularization algorithms [22,24].Surprisingly the weight distribution of these networks show amazing universal features, which extends over many species classes, families and genera [25]. In other words the distribution function P (w) of the number of co-targets w is found to be a scaled form of an universal function; the species are characterized by a unique scale factor λ.…”

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Universality splitting in distribution of number of miRNA co-targets

2014

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In a recent work (Basu et al., in EPL 105:28007, 2014) it was pointed out that the link-weight distribution of microRNA co-target network of a wide class of species are universal up to scaling. The number cell types, widely accepted as a measure of complexity, turns out to be proportional to these scale-factor. In this article we discuss additional universal features of these networks and show that, this universality splits if one considers distribution of number of common targets of three or more number of microRNAs. These distributions for different species can be collapsed onto two distinct set of universal functions, revealing the fact that the species which appeared in early evolution have different complexity measure compared to those appeared late.

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Biological Robustness and the Role of MicroRNAs

Peláez

Carthew

2012

Current Topics in Developmental Biology

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Over the past decade, microRNA molecules have emerged as critical regulators in the expression and function of animal genomes. This review discusses the relationship between microRNA-mediated regulation and the robustness of biochemical networks that contain microRNAs. Most biochemical networks are robust; they are relatively insensitive to the precise values of reaction constants and concentrations of molecules acting within the network. MicroRNAs involved in network robustness may appear to be nonessential under favourable uniform conditions used in conventional laboratory experiments. However, the function of these molecules can be revealed under environmental and genetic perturbations. Recent advances have revealed unexpected features of microRNA organization in networks that help explain their promotion of robustness.

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Modules of human micro-RNA co-target network

Cited by 3 publications

References 21 publications

Communities of dense weighted networks: MicroRNA co-target network as an example

Communities of dense weighted networks: MicroRNA co-target network as an example

Universality splitting in distribution of number of miRNA co-targets

Biological Robustness and the Role of MicroRNAs

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