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2022 Articolo in rivista open access

Altered Brain Criticality in Schizophrenia: New Insights From Magnetoencephalography

Alamian Golnoush ; Lajnef Tarek ; Pascarella Annalisa ; Lina Jean Marc ; Knight Laura ; Walters James ; Singh Krish D ; Jerbi Karim

Schizophrenia has a complex etiology and symptomatology that is difficult to untangle. After decades of research, important advancements toward a central biomarker are still lacking. One of the missing pieces is a better understanding of how non-linear neural dynamics are altered in this patient population. In this study, the resting-state neuromagnetic signals of schizophrenia patients and healthy controls were analyzed in the framework of criticality. When biological systems like the brain are in a state of criticality, they are thought to be functioning at maximum efficiency (e.g., optimal communication and storage of information) and with maximum adaptability to incoming information. Here, we assessed the self-similarity and multifractality of resting-state brain signals recorded with magnetoencephalography in patients with schizophrenia patients and in matched controls. Schizophrenia patients had similar, although attenuated, patterns of self-similarity and multifractality values. Statistical tests showed that patients had higher values of self-similarity than controls in fronto-temporal regions, indicative of more regularity and memory in the signal. In contrast, patients had less multifractality than controls in the parietal and occipital regions, indicative of less diverse singularities and reduced variability in the signal. In addition, supervised machine-learning, based on logistic regression, successfully discriminated the two groups using measures of self-similarity and multifractality as features. Our results provide new insights into the baseline cognitive functioning of schizophrenia patients by identifying key alterations of criticality properties in their resting-state brain data.

complexity criticality machine-learning magnetoencephalography multifractal analysis resting-state scale-free dynamics
2022 Articolo in rivista open access

Normalized compression distance to measure cortico-muscular synchronization

Annalisa Pascarella ; Eugenia Gianni ; Matteo Abbondanza ; Karolina Armonaite ; Francesca Pitolli ; Massimo Bertoli ; Teresa L'Abbate ; Joy Grifoni ; Domenico Vitulano ; Vittoria Bruni ; Livio Conti ; Luca Paulon ; Franca Tecchio

The neuronal functional connectivity is a complex and non-stationaryphenomenon creating dynamic networks synchronization determining thebrain states and needed to produce tasks. Here, as a measure that quantifiesthe synchronization between the neuronal electrical activity of two brainregions, we used the normalized compression distance (NCD), which is thelength of the compressed file constituted by the concatenated two signals,normalized by the length of the two compressed files including each singlesignal. To test the NCD sensitivity to physiological properties, we used NCDto measure the cortico-muscular synchronization, a well-known mechanismto control movements, in 15 healthy volunteers during a weak handgrip.Independently of NCD compressor (Huffman or Lempel Ziv), we foundout that the resulting measure is sensitive to the dominant-non dominantasymmetry when novelty management is required (p = 0.011; p = 0.007,respectively) and depends on the level of novelty when moving the non-dominant hand (p = 0.012; p = 0.024). Showing lower synchronization levelsfor less dexterous networks, NCD seems to be a measure able to enrich theestimate of functional two-node connectivity within the neuronal networksthat control the body.

normalized compression distance (NCD) electrophysiology handedness neuronal synchronization feedback
2022 Poster in Atti di convegno open access

Retrieval of surface emissivity from FORUM-EE9 simulated measurements: optimization of constraints

FORUM (Far-infrared Outgoing Radiation Understanding and Monitoring) is a Fourier Transform Spectrometer (FTS) that will fly as the 9th ESA's Earth Explorer mission. FORUM will sound the atmosphere in the 100-1600 cm-1 region, covering the Far Infrared (FIR) and part of the Middle Infrared (MIR), accounting for more than 95% of the outgoing longwave flux lost by our planet. We review the constrains for the emissivity retrieval.

FORUM Emissivity Regularization
2022 Working paper metadata only access

The role of long distance contribution to the B->K(*)l+l- in the Standard Model

Massimo Ladisa ; Pietro Santorelli

We investigate rare semileptonic B->K*l+l- by looking at the long distance contributions. Our analysis is limited to the very small values of physical accessible range of invariant mass of the leptonic couple q2. We show that the light quarks loop has to be accounted for, along with the charming penguin contribution, in order to accurately compute the q2-spectrum in the Standard Model. Such a long distance contribution may also play a role in the analysis of the lepton flavour universality violation in this process.

High Energy Physics
2022 Articolo in rivista open access

Explainable Drug Repurposing Approach From Biased Random Walks

Drug repurposing is a highly active research area, aiming at finding novel uses for drugs that have been previously developed for other therapeutic purposes. Despite the flourishing of methodologies, success is still partial, and different approaches offer, each, peculiar advantages. In this composite landscape, we present a novel methodology focusing on an efficient mathematical procedure based on gene similarity scores and biased random walks which rely on robust drug-gene-disease association data sets. The recommendation mechanism is further unveiled by means of the Markov chain underlying the random walk process, hence providing explainability about how findings are suggested. Performances evaluation and the analysis of a case study on rheumatoid arthritis show that our approach is accurate in providing useful recommendations and is computationally efficient, compared to the state of the art of drug repurposing approaches.

Drug repurposing explainable artificial intelligence network medicine Markov chain biased random walk
2022 Articolo in rivista open access

Network Proximity-Based Drug Repurposing Strategy for Early and Late Stages of Primary Biliary Cholangitis

Shahini ; Endrit ; Pasculli ; Giuseppe ; Mastropietro ; Andrea ; Stolfi ; Paola ; Tieri ; Paolo ; Vergni ; Davide ; Cozzolongo ; Raffaele ; Pesce ; Francesco ; Giannelli ; Gianluigi

Primary biliary cholangitis (PBC) is a chronic, cholestatic, immune-mediated, and progressive liver disorder. Treatment to preventing the disease from advancing into later and irreversible stages is still an unmet clinical need. Accordingly, we set up a drug repurposing framework to find potential therapeutic agents targeting relevant pathways derived from an expanded pool of genes involved in different stages of PBC. Starting with updated human protein–protein interaction data and genes specifically involved in the early and late stages of PBC, a network medicine approach was used to provide a PBC “proximity” or “involvement” gene ranking using network diffusion algorithms and machine learning models. The top genes in the proximity ranking, when combined with the original PBC-related genes, resulted in a final dataset of the genes most involved in PBC disease. Finally, a drug repurposing strategy was implemented by mining and utilizing dedicated drug–gene interaction and druggable genome information knowledge bases (e.g., the DrugBank repository). We identified several potential drug candidates interacting with PBC pathways after performing an over-representation analysis on our initial 1121-seed gene list and the resulting disease-associated (algorithm-obtained) genes. The mechanism and potential therapeutic applications of such drugs were then thoroughly discussed, with a particular emphasis on different stages of PBC disease. We found that interleukin/EGFR/TNF-alpha inhibitors, branched-chain amino acids, geldanamycin, tauroursodeoxycholic acid, genistein, antioestrogens, curcumin, antineovascularisation agents, enzyme/protease inhibitors, and antirheumatic agents are promising drugs targeting distinct stages of PBC. We developed robust and transparent selection mechanisms for prioritizing already approved medicinal products or investigational products for repurposing based on recognized unmet medical needs in PBC, as well as solid preliminary data to achieve this goal.

autoimmune liver disease cholestatic diseases primary biliary cirrhosis primary sclerosing cholangitis drug repurposing network medicine
2022 Articolo in rivista restricted access

A moving boundary problem for reaction and diffusion processes in concrete: Carbonation advancement and carbonation shrinkage

The present work is devoted to modeling and simulation of the carbonation process in concrete. To this aim we introduce some free boundary problems which describe the evolution of calcium carbonate stones under the attack of $ {CO}_2 $ dispersed in the atmosphere, taking into account both the shrinkage of concrete and the influence of humidity on the carbonation process. Indeed, two different regimes are described according to the relative humidity in the environment. Finally, some numerical simulations here presented are in substantial accordance with experimental results taken from literature.

Concrete carbonation reaction and diffusion parabolic PDE model calibration finite difference schemes.
2022 Articolo in rivista restricted access

Saliency-based segmentation of dermoscopic images using colour information

Skin lesion segmentation is one of the crucial steps for an efficient non-invasive computer-aided early diagnosis of melanoma. This paper investigates how to use colour information, besides saliency, for determining the pigmented lesion region automatically. Unlike most existing segmentation methods using only the saliency to discriminate against the skin lesion from the surrounding regions, we propose a novel method employing a binarization process coupled with new perceptual criteria, inspired by the human visual perception, related to the properties of saliency and colour of the input image data distribution. As a means of refining the accuracy of the proposed method, the segmentation step is preceded by a pre-processing aimed at reducing the computation burden, removing artefacts, and improving contrast. We have assessed the method on two public databases, including 1497 dermoscopic images. We have also compared its performance with classical and recent saliency-based methods designed explicitly for dermoscopic images. The qualitative and quantitative evaluation indicates that the proposed method is promising since it produces an accurate skin lesion segmentation and performs satisfactorily compared to other existing saliency-based segmentation methods.

Dermoscopic images skin lesion colour image processing segmentation saliency map human visual perception
2022 Articolo in rivista open access

Wavelet-based robust estimation and variable selection in nonparametric additive models

Amato Umberto ; Antoniadis Anestis ; De Feis Italia ; Gijbels Irene

This article studies M-type estimators for fitting robust additive models in the presence of anomalous data. The components in the additive model are allowed to have different degrees of smoothness. We introduce a new class of wavelet-based robust M-type estimators for performing simultaneous additive component estimation and variable selection in such inhomogeneous additive models. Each additive component is approximated by a truncated series expansion of wavelet bases, making it feasible to apply the method to nonequispaced data and sample sizes that are not necessarily a power of 2. Sparsity of the additive components together with sparsity of the wavelet coefficients within each component (group), results into a bi-level group variable selection problem. In this framework, we discuss robust estimation and variable selection. A two-stage computational algorithm, consisting of a fast accelerated proximal gradient algorithm of coordinate descend type, and thresholding, is proposed. When using nonconvex redescending loss functions, and appropriate nonconvex penalty functions at the group level, we establish optimal convergence rates of the estimates. We prove variable selection consistency under a weak compatibility condition for sparse additive models. The theoretical results are complemented with some simulations and real data analysis, as well as a comparison to other existing methods.

Additive regression Contamination M-estimation Nonconvex penalties Variable selection Wavelet thresholding
2022 Articolo in rivista restricted access

QUALITATIVE ANALYSIS OF DYNAMIC EQUATIONS ON TIME SCALES USING LYAPUNOV FUNCTIONS

ELEONORA MESSINA ; YOUSSEF RAFFOUL ; ANTONIA VECCHIO

We employ Lyapunov functions to study boundedness and stability of dynamic equationson time scales. Most of our Lyapunov functions involve the term |x| and its ?-derivative.In particular, we prove general theorems regarding qualitative analysis of solutions of delaydynamical systems and then use Lyapunov functionals that partially include |x| to provide examples.

Time scales delta derivative dynamic equations delay bounded stability
2022 Articolo in rivista restricted access

A non-standard numerical scheme for an age-of-infection epidemic model

We propose a numerical method for approximating integro-differential equations arising in age-of-infection epidemic models. The method is based on a non-standard finite differences approximation of the integral term appearing in the equation. The study of convergence properties and the analysis of the qualitative behavior of the numerical solution show that it preserves all the basic properties of the continuous model with no restrictive conditions on the step-length h of integration and that it recovers the continuous dynamic as h tends to zero.

Non-standard finite difference scheme Volterra integro-differential equations Epidemic models
2022 Working paper metadata only access

Why diffusion-based preconditioning of Richards equation works: spectral analysis and computational experiments at very large scale.

Bertaccini D ; D'Ambra P ; Durastante F ; Filippone S

We consider here a cell-centered finite difference approximation of the Richards equation in three dimensions, averaging for interface values the hydraulic conductivity, a highly nonlinear function, by arithmetic, upstream and harmonic means. The nonlinearities in the equation can lead to changes in soil conductivity over several orders of magnitude and discretizations with respect to space variables often produce stiff systems of differential equations. A fully implicit time discretization is provided by backward Euler one-step formula; the resulting nonlinear algebraic system is solved by an inexact Newton Armijo-Goldstein algorithm, requiring the solution of a sequence of linear systems involving Jacobian matrices. We prove some new results concerning the distribution of the Jacobians eigenvalues and the explicit expression of their entries. Moreover, we explore some connections between the saturation of the soil and the ill conditioning of the Jacobians. The information on eigenvalues justifies the effectiveness of some preconditioner approaches which are widely used in the solution of Richards equation. We also propose a new software framework to experiment with scalable and robust preconditioners suitable for efficient parallel simulations at very large scales. Performance results on a literature test case show that our framework is very promising in the advance towards realistic simulations at extreme scale.

Richards equation Parallel scalability spectral analy AMG preconditioners
2022 Articolo in rivista open access

The core-radius approach to supercritical fractional perimeters, curvatures and geometric flows

De Luca L ; Kubin A ; Ponsiglione M

We consider a core-radius approach to nonlocal perimeters governed by isotropic kernels having critical and supercritical exponents, extending the nowadays classical notion of s-fractional perimeter, defined for 0<1, to the case s>=1. We show that, as the core-radius vanishes, such core-radius regularized s-fractional perimeters, suitably scaled, ?-converge to the standard Euclidean perimeter. Under the same scaling, the first variation of such nonlocal perimeters gives back regularized s-fractional curvatures which, as the core radius vanishes, converge to the standard mean curvature; as a consequence, we show that the level set solutions to the corresponding nonlocal geometric flows, suitably reparametrized in time, converge to the standard mean curvature flow. Furthermore, we show the same asymptotic behavior as the core-radius vanishes and s->s?>=1 simultaneously. Finally, we prove analogous results in the case of anisotropic kernels with applications to dislocation dynamics.

Fractional perimeters; Gamma-convergence; local and nonlocal geometric evolutions; viscosity solutions; level set formulation; fractional mean curvature flow; dislocation dynamics
2022 Abstract in Atti di convegno metadata only access

Semiflexible polymers under external fields

matematica applicata
2022 Articolo in rivista restricted access

A hybrid metaheuristic for the Knapsack Problem with Forfeits

Capobianco Giovanni ; D'Ambrosio Ciriaco ; Pavone Luigi ; Raiconi Andrea ; Vitale Gaetano ; Sebastiano Fabio

In this paper, we present a novel hybrid metaheuristic for the Knapsack Problem with Forfeits (KPF). KPF is a recently introduced generalization of the Knapsack Problem. In this variant, a penalty cost incurs whenever both items composing a so-called forfeit pair belong to the solution. Our proposed algorithm, called GA-CG Forfeits, combines the strengths of the Genetic and Carousel Greedy paradigms. In this work, we define the algorithm and compare it with two previously proposed heuristics on a set of benchmark instances. In these tests, GA-CG Forfeits provided significantly better solutions than the other two algorithms on all instances.

Carousel Greedy Conflicts Forfeits Genetic algorithm Knapsack Problem
2022 Articolo in rivista metadata only access

Theoretical model for diffusion-reaction based drug delivery from a multilayer spherical capsule

Jain A ; McGinty S ; Pontrelli G ; Zhou L

Controlled drug delivery from a multilayer spherical capsule is used for several therapeutic applications. Developing a theoretical understanding of mass transfer in the multilayer capsule is critical for understanding and optimizing targeted drug delivery. This paper presents an analytical solution for the mass transport problem in a general multilayer sphere involving diffusion as well as drug immobilization in various layers due to binding reactions. An eigenvalue-based solution for this multilayer diffusion-reaction problem is derived in terms of various non-dimensional quantities including Sherwood and Damköhler numbers. It is shown that unlike diffusion-reaction problems in heat transfer, the present problem does not admit imaginary eigenvalues. The effect of binding reactions represented by the Damköhler numbers and outer surface boundary condition represented by the Sherwood number on drug delivery profile is analyzed. It is shown that a low Sherwood number not only increases drug delivery time, but also reduces the total mass of drug delivered. The mass of drug delivered is also shown to reduce with increasing Damköhler number. The impact of shell thickness is analyzed. The effect of a thin outer coating is accounted for by lumping the mass transfer resistance in series with convective boundary resistance, and a non-dimensional number involving the thickness and diffusion coefficient of the coating is shown to govern its impact on drug delivery characteristics. The analytical model presented here improves the understanding of mass transfer in a multilayer spherical capsule in presence of binding reactions, and may help design appropriate experiments for down-selecting candidate materials and geometries for drug delivery applications of interest.

Drug delivery Mass transfer Diffusion-reaction equation Multilayer Sphere
2022 Articolo in rivista restricted access

An Agent-Based Interpretation of Leukocyte Chemotaxis in Cancer-on-Chip Experiments

The present paper was inspired by recent developments in laboratory experiments within the framework of cancer-on-chip technology, an immune-oncology microfluidic chip aiming at studying the fundamental mechanisms of immunocompetent behavior. We focus on the laboratory setting where cancer is treated with chemotherapy drugs, and in this case, the effects of the treatment administration hypothesized by biologists are: the absence of migration and proliferation of tumor cells, which are dying; the stimulation of the production of chemical substances (annexin); the migration of leukocytes in the direction of higher concentrations of chemicals. Here, following the physiological hypotheses made by biologists on the phenomena occurring in these experiments, we introduce an agent-based model reproducing the dynamics of two cell populations (agents), i.e., tumor cells and leukocytes living in the microfluidic chip environment. Our model aims at proof of concept, demonstrating that the observations of the biological phenomena can be obtained by the model on the basis of the explicit assumptions made. In this framework, close adherence of the computational model to the biological results, as shown in the section devoted to the first calibration of the model with respect to available observations, is successfully accomplished.

differential equations; cellular automata; mathematical biology; cell migration; microfluidic chip; biased random walks
2022 Articolo in rivista open access

A forecasting model for the porosity variation during the carbonation process

Bretti G ; Ceseri M ; Natalini R ; Ciacchella MC ; Santarelli ML ; Tiracorrendo G

In this paper we introduce a mathematical model of concrete carbonation Portland cement specimens. The main novelty of this work is to describe the intermediate chemical reactions, occurring in the carbonation process of concrete, involving the interplay of carbon dioxide with the water present into the pores. Indeed, the model here proposed, besides describing transport and diffusion processes inside the porous medium, takes into account both fast and slow phenomena as intermediate reactions of the carbonation process. As a model validation, by using the mathematical based simulation algorithm we are able to describe the effects of the interaction between concrete and CO on the porosity of material as shown by the numerical results in substantial accordance with experimental results of accelerated carbonation taken from literature. We also considered a further reaction: the dissolution of calcium carbonate under an acid environment. As a result, a trend inversion in the evolution of porosity can be observed for long exposure times. Such an increase in porosity results in the accessibility of solutions and pollutants within the concrete leading to an higher permeability and diffusivity thus significantly affecting its durability.

Concrete carbonation · Reaction and diffusion models · Model parameter estimation · Finite difference schemes
2022 Articolo in rivista metadata only access

Parameter estimation techniques for a chemotaxis model inspired by Cancer-on-Chip (COC) experiments

The present work is inspired by laboratory experiments, investigating the cross-talk between immune and cancer cells in a confined environment given by a microfluidic chip, the so called Organ-on-Chip (OOC). Based on a mathematical model in form of coupled reaction-diffusion-transport equations with chemotactic functions, our effort is devoted to the development of a parameter estimation methodology that is able to use real data obtained from the laboratory experiments to estimate the model parameters and infer the most plausible chemotactic function present in the experiment. In particular, we need to estimate the model parameters representing the convective and diffusive regimes included in the PDE model, in order to evaluate the diffusivity of the chemoattractant produced by tumor cells and its biasing effect on immune cells. The main issues faced in this work are the efficient calibration of the model against noisy synthetic data, available as macroscopic density of immune cells. A calibration algorithm is derived based on minimization methods which applies several techniques such as regularization terms and multigrids application to improve the results, which show the robustness and accuracy of the proposed algorithm.

Inverse Problems PDE Chemotaxis models Parameter Estimation Data assimiliation Microfluidic Chip
2022 Articolo in rivista open access

A non-local semilinear eigenvalue problem

Franzina G ; Licheri D

We prove that positive solutions of the fractional Lane-Emden equation with homogeneous Dirichlet boundary conditions satisfy pointwise estimates in terms of the best constant in Poincaré's inequality on all open sets, and are isolated in $L^1$ on smooth bounded ones, whence we deduce the isolation of the first non-local semilinear eigenvalue .

eigenvalues constrained critical points Lane-Emden equation