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Article
Open AccessForce and kinetics of fast and slow muscle myosin determined with a synthetic sarcomere–like nanomachine
Myosin II is the muscle molecular motor that works in two bipolar arrays in each thick filament of the striated (skeletal and cardiac) muscle, converting the chemical energy into steady force and shortening by...
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Article
Open AccessFrom individual elements to macroscopic materials: in search of new superconductors via machine learning
An approach to supervised classification and regression of superconductive materials is proposed which builds on the DeepSet technology. This enables us to provide the chemical constituents of the examined com...
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Article
Open AccessSpectral pruning of fully connected layers
Training of neural networks can be reformulated in spectral space, by allowing eigenvalues and eigenvectors of the network to act as target of the optimization instead of the individual weights. Working in thi...
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Chapter
Pattern Formation on Hypergraphs
We present a general framework that enables one to model high-order interactions among entangled dynamical systems, via hypergraphs. Several relevant processes can be ideally traced back to the proposed scheme...
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Article
Open AccessDeep learning and alignment of spatially resolved single-cell transcriptomes with Tangram
Charting an organs’ biological atlas requires us to spatially resolve the entire single-cell transcriptome, and to relate such cellular features to the anatomical scale. Single-cell and single-nucleus RNA-seq ...
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Article
Open AccessReconstruction scheme for excitatory and inhibitory dynamics with quenched disorder: application to zebrafish imaging
An inverse procedure is developed and tested to recover functional and structural information from global signals of brains activity. The method assumes a leaky-integrate and fire model with excitatory and inh...
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Article
Open AccessMachine learning in spectral domain
Deep neural networks are usually trained in the space of the nodes, by adjusting the weights of existing links via suitable optimization protocols. We here propose a radically new approach which anchors the le...
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Article
A universal route to pattern formation in multicellular systems
A general framework for the generation of long wavelength patterns in multi-cellular (discrete) systems is proposed, which extends beyond conventional reaction-diffusion (continuum) paradigms. The standard pa...
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Article
Open AccessAuthor Correction: Pattern invariance for reaction-diffusion systems on complex networks
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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Article
Reactive explorers to unravel network topology
A procedure is developed and tested to recover the distribution of connectivity of an a priori unknown network, by sampling the dynamics of an ensemble made of reactive walkers. The relative weight between re...
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Chapter and Conference Paper
Intransitiveness in Games and Random Walks
In this paper we introduce the concept of intransitiveness for games, which is the condition for which there is no first-player winning strategy, and the second player can statistically win. We show that the...
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Article
Quantifying the degree of average contraction of Collatz orbits
We here elaborate on a quantitative argument to support the validity of the Collatz conjecture, also known as the \((3x+1)\) ...
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Article
Open AccessPattern invariance for reaction-diffusion systems on complex networks
Given a reaction-diffusion system interacting via a complex network, we propose two different techniques to modify the network topology while preserving its dynamical behaviour. In the region of parameters whe...
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Article
Spectral control for ecological stability
A system made up of N interacting species is considered. Self-reaction terms are assumed of the logistic type. Pairwise interactions take place among species according to different modalities, thus yielding a co...
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Article
Topological stabilization for synchronized dynamics on networks
A general scheme is proposed and tested to control the symmetry breaking instability of a homogeneous solution of a spatially extended multispecies model, defined on a network. The inherent discreteness of th...
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Article
Tune the topology to create or destroy patterns
We consider the dynamics of a reaction-diffusion system on a multigraph. The species share the same set of nodes but can access different links to explore the embedding spatial support. By acting on the topol...
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Article
Open AccessThe second will be first: competition on directed networks
Multiple sinks competition is investigated for a walker diffusing on directed complex networks. The asymmetry of the imposed spatial support makes the system non transitive. As a consequence, it is always poss...
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Article
Open AccessConformation-controlled binding kinetics of antibodies
Antibodies are large, extremely flexible molecules, whose internal dynamics is certainly key to their astounding ability to bind antigens of all sizes, from small hormones to giant viruses. In this paper, we b...
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Article
Pattern formation for reactive species undergoing anisotropic diffusion
Turing instabilities for a two species reaction-diffusion system is studied under anisotropic diffusion. More specifically, the diffusion constants which characterize the ability of the species to relocate in ...
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Article
Open AccessTuring instabilities on Cartesian product networks
The problem of Turing instabilities for a reaction-diffusion system defined on a complex Cartesian product network is considered. To this end we operate in the linear regime and expand the time dependent pertu...
