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4,187 results on '"Marinari A"'

1. A simple model of a sequence-reading diffusion: non-self-averaging and self-averaging properties

Author

Kalaj, Silvio, Marinari, Enzo, Oshanin, Gleb, and Peliti, Luca

Subjects
Condensed Matter - Statistical Mechanics
Abstract

Motivated by a question about the sensitivity of knots' diffusive motion to the actual sequence of nucleotides placed on a given DNA, here we study a simple model of a sequence-reading diffusion on a stretched chain with a frozen sequence of "letters" $A$ and $B$, having different interaction energies. The chain contains a single distortion - a hernia - which brings the two letters at its bottom together such that they interact. Due to interactions with the solvent, the hernia performs a random hopping motion along the chain with the transition rates dependent on its actual position. Our two focal questions are a) the dependence of various transport properties on the letters' interaction energy and b) whether these properties are self-averaging with respect to different realizations of sequences. We show that the current through a finite interval, the resistance of this interval and the splitting probabilities on this interval lack self-averaging. On the contrary, the mean first-passage time through a finite interval with $N$ sites and the diffusion coefficient in a periodic chain are self-averaging in the limit $N \to \infty$. Concurrently, two latter properties exhibit sample-to-sample fluctuations for finite $N$, as evidenced by numerical simulations., Comment: 38 pages, 9 figures

Published
2025

2. Spin-glass dynamics: experiment, theory and simulation

Author

Dahlberg, E. D., Pemartín, I. González-Adalid, Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Orbach, R. L., Paga, I., Parisi, G., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics, Physics - Computational Physics
Abstract

The study of spin-glass dynamics, long considered the paradigmatic complex system, has reached important milestones. The availability of high-quality single crystals has allowed the experimental measurement of spin-glass coherence lengths of almost macroscopic dimensions, while the advent of special-purpose massive computers enables dynamical simulations that approach experimental time and length scales. This review provides an account of the quantitative convergence of these two avenues of research, with precise experimental measurements of the expected scaling laws and numerical reproduction of classic experimental results, such as memory and rejuvenation. The article opens with a brief review of the defining spin-glass properties, randomness and frustration, and their experimental consequences. These apparently simple characteristics are shown to generate rich and complex physics. Models are introduced that enable quantitative descriptions. After a summary of the main numerical results in equilibrium, paying particular attention to the concept of temperature chaos, this review examines off-equilibrium dynamics in the absence of a magnetic field and shows how it can be related to equilibrium structures through the fluctuation-dissipation relations. The nonlinear response at a given temperature is then developed, including experiments and scaling in the vicinity of the transition temperature $T_\mathrm{g}$. The consequences of temperature change -- including temperature chaos, rejuvenation, and memory -- are reviewed. The interpretation of these phenomena requires identifying several length scales relevant to dynamics, which, in turn, generate new insights. Finally, issues for future investigations are introduced, including what is to be nailed down theoretically, why the Ising Edwards-Anderson model is so successful at modeling spin-glass dynamics, and experiments yet to be undertaken., Comment: 53 pages, 54 figures. Submitted to Reviews of Modern Physics

Published
2024

3. A Very Effective and Simple Diffusion Reconstruction for the Diluted Ising Model

Author

Bae, Stefano, Marinari, Enzo, and Ricci-Tersenghi, Federico

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

Diffusion-based generative models are machine learning models that use diffusion processes to learn the probability distribution of high-dimensional data. In recent years, they have become extremely successful in generating multimedia content. However, it is still unknown if such models can be used to generate high-quality datasets of physical models. In this work, we use a Landau-Ginzburg-like diffusion model to infer the distribution of a $2D$ bond-diluted Ising model. Our approach is simple and effective, and we show that the generated samples reproduce correctly the statistical and critical properties of the physical model.

Published
2024

5. Global 30-Day Morbidity and Mortality of Primary Bariatric Surgery Combined with Another Procedure: The BLEND Study

Author

Martinino, Alessandro, Nanayakkara, Kushan D. L., Madhok, Brij, Wong, Geoffrey Yuet Mun, Abouelazayem, Mohamed, Pereira, Juan Pablo Scarano, Wazir, Ishaan, Balasubaramaniam, Vignesh, Said, Amira, Marques, Cláudia, Abdelbaeth, Amr, Al-Shami, Khayry, Albashari, Muna, Alkaseek, Akram, Almayouf, Mohammad Abdullah, Aloulou, Mohammad, Alqahtan, Awadh Robaan, Askari, Alan, Attia, Meena Faiez Assad, Awad, Ahmed K., Aykota, Muhammed Rasid, Bacalbasa, Nicolae, Barrera-Rodriguez, Francisco J., Benavoli, Domenico, Billa, Srikar, Borrelli, Vincenzo, Çalıkoğlu, İsmail, Campanelli, Michela, Carbajo, Miguel A., Chowdhury, Sharfuddin, Cristin, Luca, Dapri, Giovanni, Dong, Zhiyong, Elfawal, Mohamad Hayssam, Elgazar, Amr, Elhadi, Muhammed, Gentileschi, Paolo, Graham, Yitka, Haj, Bassel, Johnson, Joseph Andrew, Kalmoush, Abd-Elfattah Morsi, Kamal, Ayman, Kamocka, Anna, Khamees, Almu’atasim, Lisi, Giorgio, Hernandez, Edgard Efren Lozada, Marinari, Giuseppe M., Martines, Gennaro, Meric, Serhat, Mier, Fernando, Ali, Ahmed Mohamed, Mohammed, Diyaaldeen, Mohamed, Karim Mostafa, Mulita, Francesk, Musella, Mario, O’Malley, William Edward, Olmi, Stefano, Omarov, Taryel, Osama, Omnya, Perera, HMinali R., Piscitelli, Giovanni, Poghosyan, Tigran, Ramírez, David, Rezvani, Masoud, Ribeiro, Rui, Sabbota, Aaron, Sakran, Nasser, Sawaftah, Khaled Ahmad, Schiavone, Kaci, Şen, Ozan, Sotiropoulou, Maria, Tartaglia, Nicola, Tokocin, Merve, Trotta, Manuela, Türkçapar, Ahmet Gökhan, Uccelli, Matteo, Vargas, Cesar, Verras, Georgios -Ioannis, Wang, Cunchuan, Wei, Zhuoqi, Yang, Wah, Zerrweck, Carlos, Owen, Eloise, Gkoutos, Georgios V., Cardoso, Victor Roth, Singhal, Rishi, and Mahawar, Kamal

Published
2024
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9. Multiscaling in the 3D critical site-diluted Ising ferromagnet

Author

Marinari, E., Martin-Mayor, V., Parisi, G., Ricci-Tersenghi, F., and Ruiz-Lorenzo, J. J.

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics
Abstract

We have studied numerically the appearance of multiscaling behavior in the three-dimensional ferromagnetic Ising site diluted model, in the form of a multifractal distribution of the decay exponents for the spatial correlation functions at the critical temperature. We have computed the exponents of the long-distance decay of higher moments of the correlation function, up to the 10th power, by studying three different quantities: global susceptibilities, local susceptibilities and correlation functions. We have found very clear evidences for multiscaling behavior., Comment: 19 pages and 5 figures. Final version of the paper

Published
2023
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12. Factors associated with successful liberation from continuous renal replacement therapy in children and young adults: analysis of the worldwide exploration of renal replacement outcomes collaborative in Kidney Disease Registry

Author

Stenson, Erin K., Alhamoud, Issa, Alobaidi, Rashid, Bottari, Gabriella, Fernandez, Sarah, Fuhrman, Dana Y., Guzzi, Francesco, Haga, Taiki, Kaddourah, Ahmad, Marinari, Eleonora, Mohamed, Tahagod, Morgan, Catherine, Mottes, Theresa, Neumayr, Tara, Ollberding, Nicholas J., Raggi, Valeria, Ricci, Zaccaria, See, Emily, Stanski, Natalja L., Zang, Huaiyu, Zangla, Emily, and Gist, Katja M.

Published
2024
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13. Eigenvector Dreaming

Author

Benedetti, Marco, Carillo, Louis, Marinari, Enzo, and Mèzard, Marc

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Computer Science - Neural and Evolutionary Computing
Abstract

Among the performance-enhancing procedures for Hopfield-type networks that implement associative memory, Hebbian Unlearning (or dreaming) strikes for its simplicity and its clear biological interpretation. Yet, it does not easily lend itself to a clear analytical understanding. Here we show how Hebbian Unlearning can be effectively described in terms of a simple evolution of the spectrum and the eigenvectors of the coupling matrix. We use these ideas to design new dreaming algorithms that are effective from a computational point of view, and are analytically far more transparent than the original scheme.

Published
2023

14. Quantifying memory in spin glasses

Author

Janus Collaboration, Paga, I., He, J., Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Sudupe, A. Muñoz, Navarro, D., Orbach, R. L., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Schlagel, D. L., Seoane, B., Tarancon, A., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

Rejuvenation and memory, long considered the distinguishing features of spin glasses, have recently been proven to result from the growth of multiple length scales. This insight, enabled by simulations on the Janus~II supercomputer, has opened the door to a quantitative analysis. We combine numerical simulations with comparable experiments to introduce two coefficients that quantify memory. A third coefficient has been recently presented by Freedberg et al. We show that these coefficients are physically equivalent by studying their temperature and waiting-time dependence., Comment: 10 pages, 8 figures

Published
2023
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15. Multifractality in spin glasses

Author

Janus Collaboration, Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Sudupe, A. Muñoz, Navarro, D., Paga, I., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Seoane, B., Tarancon, A., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

We unveil the multifractal behavior of Ising spin glasses in their low-temperature phase. Using the Janus II custom-built supercomputer, the spin-glass correlation function is studied locally. Dramatic fluctuations are found when pairs of sites at the same distance are compared. The scaling of these fluctuations, as the spin-glass coherence length grows with time, is characterized through the computation of the singularity spectrum and its corresponding Legendre transform. A comparatively small number of site pairs controls the average correlation that governs the response to a magnetic field. We explain how this scenario of dramatic fluctuations (at length scales smaller than the coherence length) can be reconciled with the smooth, self-averaging behavior that has long been considered to describe spin-glass dynamics., Comment: 15 pages, 15 figures

Published
2023
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16. Machine Learning-Based Prediction Model for ICU Mortality After Continuous Renal Replacement Therapy Initiation in Children

Author

Sameer Thadani, MD, Tzu-Chun Wu, PhD, Danny T. Y. Wu, PhD, Aadil Kakajiwala, MD, Danielle E. Soranno, MD, Gerard Cortina, MD, Rachana Srivastava, MD, Katja M. Gist, DO, Shina Menon, MD, on behalf of the Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Diseases (WE-ROCK) Collaborators, Emily Ahern, CPNP, DNP, Ayse Akcan Arikan, MD, Issa Alhamoud, MD, Rashid Alobaidi, MD, MSc, Pilar Anton-Martin, MD, PhD, Shanthi S. Balani, MD, Matthew Barhight, MD, MS, Abby Basalely, MD, MS, Amee M. Bigelow, MD, MS, Gabriella Bottari, MD, Andrea Cappoli, MD, Abhishek Chakraborty, MD, Eileen A. Ciccia, MD, Michaela Collins, BA, Denise Colosimo, MD, Mihaela A. Damian, MD, MPH, Sara De la Mata Navazo, MD, Gabrielle DeAbreu, MD, Akash Deep, MD, Kathy L. Ding, BS, Kristin J. Dolan, MD, Lama Elbahlawan, MD, Sarah N. Fernandez Lafever, MD, PhD, Dana Y. Fuhrman, DO, MS, Ben Gelbart, MBBS, Katja M. Gist, DO, MSc, Stephen M. Gorga, MD, MSc, Francesco Guzzi, MD, Isabella Guzzo, MD, Taiki Haga, MD, Elizabeth Harvey, MD, Denise C. Hasson, MD, Taylor Hill-Horowitz, BS, Haleigh Inthavong, BS, MS, Catherine Joseph, MD, Ahmad Kaddourah, MD, MS, Aadil Kakajiwala, MD, MSCI, Aaron D. Kessel, MD, MS, Sarah Korn, DO, Kelli A. Krallman, BSN, MS, David M. Kwiatkowski, MD, Msc, Jasmine Lee, MSc, Laurance Lequier, MD, Tina Madani Kia, BS, Kenneth E. Mah, MD, MS, Eleonora Marinari, MD, Susan D. Martin, MD, Tahagod H. Mohamed, MD, Catherine Morgan, MD, MSc, Theresa A. Mottes, APRN, Melissa A. Muff-Luett, MD, Siva Namachivayam, MBBS, Tara M. Neumayr, MD, Jennifer Nhan, MD, MS, Abigail O’Rourke, MD, Nicholas J. Ollberding, PhD, Matthew G. Pinto, MD, Dua Qutob, MD, Valeria Raggi, MD, Stephanie Reynaud, MD, Zaccaria Ricci, MD, Zachary A. Rumlow, DO, María J. Santiago Lozano, MD, PhD, Emily See, MBBS, David T. Selewski, MD, MSCR, Carmela Serpe, MSc, PhD, Alyssa Serratore, RN, MsC, Ananya Shah, BS, Weiwen V. Shih, MD, H. Stella Shin, MD, Cara L. Slagle, MD, Sonia Solomon, DO, Natalja L. Stanski, MD, Michelle C. Starr, MD, MPH, Erin K. Stenson, MD, Amy E. Strong, MD, MSCE, Susan A. Taylor, MSc, Sameer V. Thadani, MD, Amanda M. Uber, DO, Brynna Van Wyk, ARNP, MSN, Tennille N. Webb, MD, MSPH, Huaiyu Zang, PhD, Emily E. Zangla, DO, and Michael Zappitelli, MD, MSc

Subjects
Medical emergencies. Critical care. Intensive care. First aid, RC86-88.9
Abstract

BACKGROUND:. Continuous renal replacement therapy (CRRT) is the favored renal replacement therapy in critically ill patients. Predicting clinical outcomes for CRRT patients is difficult due to population heterogeneity, varying clinical practices, and limited sample sizes. OBJECTIVE:. We aimed to predict survival to ICUs and hospital discharge in children and young adults receiving CRRT using machine learning (ML) techniques. DERIVATION COHORT:. Patients less than 25 years of age receiving CRRT for acute kidney injury and/or volume overload from 2015 to 2021 (80%). VALIDATION COHORT:. Internal validation occurred in a testing group of patients from the dataset (20%). PREDICTION MODEL:. Retrospective international multicenter study utilizing an 80/20 training and testing cohort split, and logistic regression with L2 regularization (LR), decision tree, random forest (RF), gradient boosting machine, and support vector machine with linear kernel to predict ICU and hospital survival. Model performance was determined by the area under the receiver operating characteristic curve (AUROC) and the area under the precision-recall curve (AUPRC) due to the imbalance in the dataset. RESULTS:. Of the 933 patients included in this study, 538 (54%) were male with a median age of 8.97 years and interquartile range (1.81–15.0 yr). The ICU mortality was 35% and hospital mortality was 37%. The RF had the best performance for predicting ICU mortality (AUROC, 0.791 and AUPRC, 0.878) and LR for hospital mortality (AUROC, 0.777 and AUPRC, 0.859). The top two predictors of ICU survival were Pediatric Logistic Organ Dysfunction-2 score at CRRT initiation and admission diagnosis of respiratory failure. CONCLUSIONS:. These are the first ML models to predict survival at ICU and hospital discharge in children and young adults receiving CRRT. RF outperformed other models for predicting ICU mortality. Future studies should expand the input variables, conduct a more sophisticated feature selection, and use deep learning algorithms to generate more precise models.

Published
2024
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17. Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Disease (WE-ROCK)

Author

Menon, Shina, Krallman, Kelli A, Arikan, Ayse A, Fuhrman, Dana Y, Gorga, Stephen M, Mottes, Theresa, Ollberding, Nicholas, Ricci, Zaccaria, Stanski, Natalja L, Selewski, David T, Soranno, Danielle E, Zappitelli, Michael, Zang, Huaiyu, Gist, Katja M, Investigators, WE-ROCK, Ahern, Emily, Arikan, Ayse Akcan, Alhamoud, Issa, Alobaidi, Rashid, Anton-Martin, Pilar, Balani, Shanthi S, Barhight, Matthew, Basalely, Abby, Bigelow, Amee M, Bottari, Gabriella, Cappoli, Andrea, Ciccia, Eileen A, Collins, Michaela, Colosimo, Denise, Cortina, Gerard, Damian, Mihaela A, De la Mata Navazo, Sara, DeAbreu, Gabrielle, Deep, Akash, Ding, Kathy L, Dolan, Kristin J, Lafever, Sarah N Fernandez, Gelbart, Ben, Guzzi, Francesco, Guzzo, Isabella, Haga, Taiki, Harvey, Elizabeth, Hasson, Denise C, Hill-Horowitz, Taylor, Inthavong, Haleigh, Joseph, Catherine, Kaddourah, Ahmad, Kakajiwala, Aadil, Kessel, Aaron D, Korn, Sarah, Kwiatkowski, David M, Lee, Jasmine, Lequier, Laurance, Kia, Tina Madani, Mah, Kenneth E, Marinari, Eleonora, Martin, Susan D, Mohamed, Tahagod H, Morgan, Catherine, Mottes, Theresa A, Muff-Luett, Melissa A, Namachivayam, Siva, Neumayr, Tara M, Nhan, Jennifer, O'Rourke, Abigail, Ollberding, Nicholas J, Pinto, Matthew G, Qutob, Dua, Raggi, Valeria, Reynaud, Stephanie, Rumlow, Zachary A, Lozano, María J Santiago, See, Emily, Serpe, Carmela, Serratore, Alyssa, Shah, Ananya, Shih, Weiwen V, Shin, H Stella, Slagle, Cara L, Solomon, Sonia, Srivastava, Rachana, Starr, Michelle C, Stenson, Erin K, Strong, Amy E, Taylor, Susan A, Thadani, Sameer V, Uber, Amanda M, Van Wyk, Brynna, Webb, Tennille N, and Zangla, Emily E

Subjects
Biomedical and Clinical Sciences, Clinical Sciences, Health Sciences, Clinical Trials and Supportive Activities, Pediatric, Prevention, Kidney Disease, Clinical Research, Renal and urogenital, Good Health and Well Being, WE-ROCK Investigators, WE-ROCK, acute kidney injury, continuous renal replacement therapy, database, fluid overload, pediatric, Biomedical and clinical sciences, Health sciences
Abstract

IntroductionContinuous renal replacement therapy (CRRT) is used for the symptomatic management of acute kidney injury (AKI) and fluid overload (FO). Contemporary reports on pediatric CRRT are small and single center in design. Large international studies evaluating CRRT practice and outcomes are lacking. Herein, we describe the design of a multinational collaborative.MethodsThe Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Disease (WE-ROCK) is an international collaborative of pediatric specialists whose mission is to improve short- and long-term outcomes of children treated with CRRT. The aims of this multicenter retrospective study are to describe the epidemiology, liberation patterns, association of fluid balance and timing of CRRT initiation, and CRRT prescription with outcomes.ResultsWe included children (n = 996, 0-25 years) admitted to an intensive care unit (ICU) and treated with CRRT for AKI or FO at 32 centers (in 7 countries) from 2018 to 2021. Demographics and clinical characteristics before CRRT initiation, during the first 7 days of both CRRT, and liberation were collected. Outcomes include the following: (i) major adverse kidney events at 90 days (mortality, dialysis dependence, and persistent kidney dysfunction), and (ii) functional outcomes (functional stats scale).ConclusionThe retrospective WE-ROCK study represents the largest international registry of children receiving CRRT for AKI or FO. It will serve as a broad and invaluable resource for the field of pediatric critical care nephrology that will improve our understanding of practice heterogeneity and the association of CRRT with clinical and patient-centered outcomes. This will generate preliminary data for future interventional trials in this area.

Published
2023

18. Repeated peripheral infusions of anti-EGFRvIII CAR T cells in combination with pembrolizumab show no efficacy in glioblastoma: a phase 1 trial

Author

Bagley, Stephen J., Binder, Zev A., Lamrani, Lamia, Marinari, Eliana, Desai, Arati S., Nasrallah, MacLean P., Maloney, Eileen, Brem, Steven, Lustig, Robert A., Kurtz, Goldie, Alonso-Basanta, Michelle, Bonté, Pierre-Emmanuel, Goudot, Christel, Richer, Wilfrid, Piaggio, Eliane, Kothari, Shawn, Guyonnet, Lea, Guerin, Coralie L., Waterfall, Joshua J., Mohan, Suyash, Hwang, Wei-Ting, Tang, Oliver Y., Logun, Meghan, Bhattacharyya, Meghna, Markowitz, Kelly, Delman, Devora, Marshall, Amy, Wherry, E. John, Amigorena, Sebastian, Beatty, Gregory L., Brogdon, Jennifer L., Hexner, Elizabeth, Migliorini, Denis, Alanio, Cecile, and O’Rourke, Donald M.

Published
2024
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19. Towards a robust criterion of anomalous diffusion

Author

Sposini, Vittoria, Krapf, Diego, Marinari, Enzo, Sunyer, Raimon, Ritort, Felix, Taheri, Fereydoon, Selhuber-Unkel, Christine, Benelli, Rebecca, Weiss, Matthias, Metzler, Ralf, and Oshanin, Gleb

Subjects
Condensed Matter - Statistical Mechanics, Physics - Biological Physics, Quantitative Biology - Quantitative Methods
Abstract

Anomalous-diffusion, the departure of the spreading dynamics of diffusing particles from the traditional law of Brownian-motion, is a signature feature of a large number of complex soft-matter and biological systems. Anomalous-diffusion emerges due to a variety of physical mechanisms, e.g., trapping interactions or the viscoelasticity of the environment. However, sometimes systems dynamics are erroneously claimed to be anomalous, despite the fact that the true motion is Brownian -- or vice versa. This ambiguity in establishing whether the dynamics as normal or anomalous can have far-reaching consequences, e.g., in predictions for reaction- or relaxation-laws. Demonstrating that a system exhibits normal- or anomalous-diffusion is highly desirable for a vast host of applications. Here, we present a criterion for anomalous-diffusion based on the method of power-spectral analysis of single trajectories. The robustness of this criterion is studied for trajectories of fractional-Brownian-motion, a ubiquitous stochastic process for the description of anomalous-diffusion, in the presence of two types of measurement errors. In particular, we find that our criterion is very robust for subdiffusion. Various tests on surrogate data in absence or presence of additional positional noise demonstrate the efficacy of this method in practical contexts. Finally, we provide a proof-of-concept based on diverse experiments exhibiting both normal and anomalous-diffusion., Comment: 13 pages, 6 figures, RevTeX

Published
2022

22. Recent trends in foreign body ingestion (FBI) epidemiology: A national cohort study

Author

Mantegazza, Cecilia, Destro, Francesca, Ferraro, Simona, Biganzoli, Davide, Marano, Giuseppe, Quitadamo, Paolo, Nardo, Giovanni Di, Malamisura, Monica, Chiarazzo, Giulia, Renzo, Sara, Scarallo, Luca, Fava, Giorgio, Ichino, Martina, Panceri, Roberto, Sala, Debora, Pellegrino, Maristella, Macchini, Francesco, Gandullia, Paolo, Tantari, Giacomo, Bramuzzo, Matteo, Saccomani, Marco Deganello, Illiceto, Maria Teresa, Orizio, Paolo, Gatti, Simona, Pizzol, Antonio, Felici, Enrico, Romano, Claudio, Iuliano, Silvia, Marinari, Alessandra, Marseglia, Antonio, and Oliva, Salvatore

Published
2025
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23. The Association Between Vasopressin and Adverse Kidney Outcomes in Children and Young Adults Requiring Vasopressors on Continuous Renal Replacement Therapy

Author

Denise C. Hasson, MD, Katja M. Gist, DO, MSc, JangDong Seo, PhD, Erin K. Stenson, MD, Aaron Kessel, MD, MS, Taiki Haga, MD, MSc, Sara LaFever, MD, PhD, Maria Jose Santiago, MD, PhD, Matthew Barhight, MD, MS, David Selewski, MD, MSCR, Zaccaria Ricci, MD, Nicholas J. Ollberding, PhD, Natalja L. Stanski, MD, on behalf of the Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Disease (WE-ROCK) Collaborative, Emily Ahern, CPNP, DNP, Ayse Akcan Arikan, MD, Issa Alhamoud, MD, Rashid Alobaidi, MD, MSc, Pilar Anton-Martin, MD, PhD, Shanthi S. Balani, MD, Abby Basalely, MD, MS, Amee M. Bigelow, MD, MS, Gabriella Bottari, MD, Andrea Cappoli, MD, Eileen A. Ciccia, MD, Michaela Collins, BA, Denise Colosimo, MD, Gerard Cortina, MD, Mihaela A. Damian, MD, MPH, Sara De la Mata Navazo, MD, Gabrielle DeAbreu, MD, Akash Deep, MD, Kathy L. Ding, BS, Kristin J. Dolan, MD, Sarah N. Fernandez Lafever, MD, PhD, Dana Y. Fuhrman, DO, MS, Ben Gelbart, MBBS, Stephen M. Gorga, MD, MSc, Francesco Guzzi, MD, Isabella Guzzo, MD, Taiki Haga, MD, Elizabeth Harvey, MD, Taylor Hill-Horowitz, BS, Haleigh Inthavong, BS, MS, Catherine Joseph, MD, Ahmad Kaddourah, MD, MS, Aadil Kakajiwala, MD, MSCI, Aaron D. Kessel, MD, MS, Sarah Korn, DO, Kelli A. Krallman, BSN, MS, David M. Kwiatkowski, MD, Msc, Jasmine Lee, MSc, Laurance Lequier, MD, Tina Madani Kia, BS, Kenneth E. Mah, MD, MS, Eleonora Marinari, MD, Susan D. Martin, MD, Shina Menon, MD, Tahagod H. Mohamed, MD, Catherine Morgan, MD, MSc, Theresa A. Mottes, APRN, Melissa A. Muff-Luett, MD, Siva Namachivayam, MBBS, Tara M. Neumayr, MD, Jennifer Nhan Md, MS, Abigail O’Rourke, MD, Matthew G. Pinto, MD, Dua Qutob, MD, Valeria Raggi, MD, Stephanie Reynaud, MD, Zachary A. Rumlow, DO, María J. Santiago Lozano, MD, PhD, Emily See, MBBS, David T. Selewski, MD, MSCR, Carmela Serpe, MSc, PhD, Alyssa Serratore, RN, MsC, Ananya Shah, BS, Weiwen V. Shih, MD, H. Stella Shin, MD, Cara L. Slagle, MD, Sonia Solomon, DO, Danielle E. Soranno, MD, Rachana Srivastava, MD, Michelle C. Starr, MD, MPH, Amy E. Strong, MD, MSCE, Susan A. Taylor, MSc, Sameer V. Thadani, MD, Amanda M. Uber, DO, Brynna Van Wyk, ARNP, MSN, Tennille N. Webb, MD, MSPH, Huaiyu Zang, PhD, Emily E. Zangla, DO, Michael Zappitelli, MD, MSc, T. Christine, E. Alvarez, MHI, RN, Elizabeth Bixler, BS, Erica Blender Brown, MA, CRA, Cheryl L. Brown, BS, Ambra Burrell, BA, Anwesh Dash, BS, Jennifer L. Ehrlich, RN, MHA, Simrandeep Farma, HBSc, Kim Gahring, RN, BSN, CCRN, Barbara Gales, RN, Madison R. Hilgenkamp, Sonal Jain, MS, Kate Kanwar, BA, MS, Jennifer Lusk, BSN, RN, CCRN, Christopher J. Meyer, BA AA, Katherine Plomaritas, BSN, RN, Joshua Porter, BS, Jessica Potts, BSN, RN, Alyssa Serratore, BNurs, GDipNP(PIC), RN, MsC, Elizabeth Schneider, BS, Vidushi Sinha, BS, P. J. Strack, RN, BSN, CCRN, Sue Taylor, RN, Katherine Twombley, MD, Brynna Van Wyk, MSN, ARNP, CPNP, Samantha Wallace, MS, Janet Wang, BS, Megan Woods, BS, Marcia Zinger, RN, and Alison Zong, BS

Subjects
Medical emergencies. Critical care. Intensive care. First aid, RC86-88.9
Abstract

OBJECTIVES:. Continuous renal replacement therapy (CRRT) and shock are both associated with high morbidity and mortality in the ICU. Adult data suggest renoprotective effects of vasopressin vs. catecholamines (norepinephrine and epinephrine). We aimed to determine whether vasopressin use during CRRT was associated with improved kidney outcomes in children and young adults. DESIGN:. Secondary analysis of Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Disease (WE-ROCK), a multicenter, retrospective cohort study. SETTING:. Neonatal, cardiac, PICUs at 34 centers internationally from January 1, 2015, to December 31, 2021. PATIENTS/SUBJECTS:. Patients younger than 25 years receiving CRRT for acute kidney injury and/or fluid overload and requiring vasopressors. Patients receiving vasopressin were compared with patients receiving only norepinephrine/epinephrine. The impact of timing of vasopressin relative to CRRT start was assessed by categorizing patients as: early (on or before day 0), intermediate (days 1–2), and late (days 3–7). INTERVENTIONS:. None. MEASUREMENTS AND MAIN RESULTS:. Of 1016 patients, 665 (65%) required vasopressors in the first week of CRRT. Of 665, 248 (37%) received vasopressin, 473 (71%) experienced Major Adverse Kidney Events at 90 days (MAKE-90) (death, renal replacement therapy dependence, and/or > 125% increase in serum creatinine from baseline 90 days from CRRT initiation), and 195 (29%) liberated from CRRT on the first attempt within 28 days. Receipt of vasopressin was associated with higher odds of MAKE-90 (adjusted odds ratio [aOR], 1.80; 95% CI, 1.20–2.71; p = 0.005) but not liberation success. In the vasopressin group, intermediate/late initiation was associated with higher odds of MAKE-90 (aOR, 2.67; 95% CI, 1.17–6.11; p = 0.02) compared with early initiation. CONCLUSIONS:. Nearly two-thirds of children and young adults receiving CRRT required vasopressors, including over one-third who received vasopressin. Receipt of vasopressin was associated with more MAKE-90, although earlier initiation in those who received it appears beneficial. Prospective studies are needed to understand the appropriate timing, dose, and subpopulation for use of vasopressin.

Published
2024
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24. Digging in the dirt: Searching for effective tools and languages to promote soil awareness

Author

M.C. Moscatelli and S. Marinari

Subjects
Soil security, Soil connectivity, Soil awareness, Soil art, Soil culture, Soil education, Geology, QE1-996.5
Abstract

The aim of the paper is to propose additional viewpoints aimed at enhancing soil perception among the general public that could foster soil awareness, valorisation and, consequently, protection and stewardship.Starting from soil security concept, introducing the pillars (the five Cs) for securing soil, the paper focuses on connectivity, with the aim of suggesting new perspectives to look at and deal with soil. In particular, the article encompasses semantic issues, analyses new attributes, and proposes communications tools, other than scientific language, that can effectively reach a broad audience. The article focuses on art because, in the present era of image-based communication, artworks show an effective and promising way to spread a “soil culture”.

Published
2024
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25. On the superposition principle and non-linear response in spin glasses

Author

Paga, I., Zhai, Q., Baity-Jesi, M., Calore, E., Cruz, A., Cummings, C., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Kenning, G. G., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Muñoz-Sudupe, A., Navarro, D., Orbach, R. L., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Schlagel, D. L., Seoane, B., Tarancon, A., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics
Abstract

The extended principle of superposition has been a touchstone of spin glass dynamics for almost thirty years. The Uppsala group has demonstrated its validity for the metallic spin glass, CuMn, for magnetic fields $H$ up to 10 Oe at the reduced temperature $T_\mathrm{r}=T/T_\mathrm{g} = 0.95$, where $T_\mathrm{g}$ is the spin glass condensation temperature. For $H > 10$ Oe, they observe a departure from linear response which they ascribe to the development of non-linear dynamics. The thrust of this paper is to develop a microscopic origin for this behavior by focusing on the time development of the spin glass correlation length, $\xi(t,t_\mathrm{w};H)$. Here, $t$ is the time after $H$ changes, and $t_\mathrm{w}$ is the time from the quench for $T>T_\mathrm{g}$ to the working temperature $T$ until $H$ changes. We connect the growth of $\xi(t,t_\mathrm{w};H)$ to the barrier heights $\Delta(t_\mathrm{w})$ that set the dynamics. The effect of $H$ on the magnitude of $\Delta(t_\mathrm{w})$ is responsible for affecting differently the two dynamical protocols associated with turning $H$ off (TRM, or thermoremanent magnetization) or on (ZFC, or zero field-cooled magnetization). In this paper, we display the difference between the zero-field cooled $\xi_{\text {ZFC}}(t,t_\mathrm{w};H)$ and the thermoremanent magnetization $\xi_{\text {TRM}}(t,t_\mathrm{w};H)$ correlation lengths as $H$ increases, both experimentally and through numerical simulations, corresponding to the violation of the extended principle of superposition in line with the finding of the Uppsala Group., Comment: 23 pages and 18 figures

Published
2022
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26. Memory and rejuvenation in spin glasses: aging systems are ruled by more than one length scale

Author

Janus Collaboration, Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Muñoz-Sudupe, A., Navarro, D., Paga, I., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Seoane, B., Tarancon, A., Tripiccione, R., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

Memory and rejuvenation effects in the magnetic response of off-equilibrium spin glasses have been widely regarded as the doorway into the experimental exploration of ultrametricity and temperature chaos (maybe the most exotic features in glassy free-energy landscapes). Unfortunately, despite more than twenty years of theoretical efforts following the experimental discovery of memory and rejuvenation, these effects have thus far been impossible to simulate reliably. Yet, three recent developments convinced us to accept this challenge: first, the custom-built Janus II supercomputer makes it possible to carry out "numerical experiments" in which the very same quantities that can be measured in single crystals of CuMn are computed from the simulation, allowing for parallel analysis of the simulation/experiment data. Second, Janus II simulations have taught us how numerical and experimental length scales should be compared. Third, we have recently understood how temperature chaos materializes in aging dynamics. All three aspects have proved crucial for reliably reproducing rejuvenation and memory effects on the computer. Our analysis shows that (at least) three different length scales play a key role in aging dynamics, while essentially all theoretical analyses of the aging dynamics emphasize the presence and the crucial role of a single glassy correlation length., Comment: Main text:13 pages, 4 figures SM: 7 pages, 8 figures

Published
2022
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27. Frequency-frequency correlations of single-trajectory spectral densities of Gaussian processes

Author

Squarcini, Alessio, Marinari, Enzo, Oshanin, Gleb, Peliti, Luca, and Rondoni, Lamberto

Subjects
Condensed Matter - Statistical Mechanics
Abstract

We investigate the stochastic behavior of the single-trajectory spectral density $S(\omega,\mathcal{T})$ of several Gaussian stochastic processes, i.e., Brownian motion, the Ornstein-Uhlenbeck process, the Brownian gyrator model and fractional Brownian motion, as a function of the frequency $\omega$ and the observation time $\mathcal{T}$. We evaluate in particular the variance and the frequency-frequency correlation of $S(\omega,\mathcal{T})$ for different values of $\omega$. We show that these properties exhibit different behaviors for different physical cases and can therefore be used as a sensitive probe discriminating between different kinds of random motion. These results may prove quite useful in the analysis of experimental data., Comment: 29 pages, 7 figures

Published
2022
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28. Noise-to-signal ratio of single-trajectory spectral densities in centered Gaussian processes

Author

Squarcini, Alessio, Marinari, Enzo, Oshanin, Gleb, Peliti, Luca, and Rondoni, Lamberto

Subjects
Condensed Matter - Statistical Mechanics, Physics - Data Analysis, Statistics and Probability
Abstract

We discuss the statistical properties of a single-trajectory power spectral density $S(\omega,\mathcal{T})$ of an arbitrary real-valued centered Gaussian process $X(t)$, where $\omega$ is the angular frequency and $\mathcal{T}$ the observation time. We derive a double-sided inequality for its noise-to-signal ratio and obtain the full probability density function of $S(\omega,\mathcal{T})$. Our findings imply that the fluctuations of $S(\omega,\mathcal{T})$ exceed its average value $\mu(\omega,\mathcal{T})$. This implies that using $\mu(\omega,\mathcal{T})$ to describe the behavior of these processes can be problematic. We finally evaluate the typical behavior of $S(\omega,\mathcal{T})$ and find that it deviates markedly from the average $\mu(\omega,\mathcal{T})$ in most cases., Comment: 10 pages

Published
2022
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29. Characteristics and Outcomes of Children and Young Adults With Sepsis Requiring Continuous Renal Replacement Therapy: A Comparative Analysis From the Worldwide Exploration of Renal Replacement Outcomes Collaborative in Kidney Disease (WE-ROCK)*

Author

Stanski, Natalja L., Gist, Katja M., Hasson, Denise, Stenson, Erin K., Seo, JangDong, Ollberding, Nicholas J., Muff-Luett, Melissa, Cortina, Gerard, Alobaidi, Rashid, See, Emily, Kaddourah, Ahmad, Fuhrman, Dana Y., Ahern, Emily, Akcan Arikan, Ayse, Alhamoud, Issa, Alobaidi, Rashid, Anton-Martin, Pilar, Balani, Shanthi S., Barhight, Matthew, Basalely, Abby, Bigelow, Amee M., Bottari, Gabriella, Cappoli, Andrea, Ciccia, Eileen A., Collins, Michaela, Colosimo, Denise, Cortina, Gerard, Damian, Mihaela A., De la Mata Navazo, Sara, DeAbreu, Gabrielle, Deep, Akash, Ding, Kathy L., Dolan, Kristin J., Fernandez Lafever, Sarah N., Fuhrman, Dana Y., Gelbart, Ben, Gist, Katja M., Gorga, Stephen M., Guzzi, Francesco, Guzzo, Isabella, Haga, Taiki, Harvey, Elizabeth, Hasson, Denise C., Hill-Horowitz, Taylor, Inthavong, Haleigh, Joseph, Catherine, Kaddourah, Ahmad, Kakajiwala, Aadil, Kessel, Aaron D., Korn, Sarah, Krallman, Kelli A., Kwiatkowski, David M., Lee, Jasmine, Lequier, Laurance, Madani Kia, Tina, Mah, Kenneth E., Marinari, Eleonora, Martin, Susan D., Menon, Shina, Mohamed, Tahagod H., Morgan, Catherine, Mottes, Theresa A., Muff-Luett, Melissa A., Namachivayam, Siva, Neumayr, Tara M., Nhan, Jennifer, O’Rourke, Abigail, Ollberding, Nicholas J., Pinto, Matthew G., Qutob, Dua, Raggi, Valeria, Reynaud, Stephanie, Ricci, Zaccaria, Rumlow, Zachary A., Santiago Lozano, María J., See, Emily, Selewski, David T., Serpe, Carmela, Serratore, Alyssa, Shah, Ananya, Shih, Weiwen V., Stella Shin, H., Slagle, Cara L., Solomon, Sonia, Soranno, Danielle E., Srivastava, Rachana, Stanski, Natalja L., Starr, Michelle C., Stenson, Erin K., Strong, Amy E., Taylor, Susan A., Thadani, Sameer V., Uber, Amanda M., Van Wyk, Brynna, Webb, Tennille N., Zang, Huaiyu, Zangla, Emily E., Zappitelli, Michael, Alvarez, T. Christine E., Bixler, Elizabeth, Brown, Erica Blender, Brown, Cheryl L., Burrell, Ambra, Dash, Anwesh, Ehrlich, Jennifer L., Farma, Simrandeep, Gahring, Kim, Gales, Barbara, Hilgenkamp, Madison R., Jain, Sonal, Kanwar, Kate, Lusk, Jennifer, Meyer, Christopher J., Plomaritas, Katherine, Porter, Joshua, Potts, Jessica, Serratore, Alyssa, Schneider, Elizabeth, Sinha, Vidushi, Strack, P. J., Taylor, Sue, Twombley, Katherine, Van Wyk, Brynna, Wallace, Samantha, Wang, Janet, Woods, Megan, Zinger, Marcia, and Zong, Alison

Published
2024
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30. The Association Between Vasopressin and Adverse Kidney Outcomes in Children and Young Adults Requiring Vasopressors on Continuous Renal Replacement Therapy

Author

Hasson, Denise C., Gist, Katja M., Seo, JangDong, Stenson, Erin K., Kessel, Aaron, Haga, Taiki, LaFever, Sara, Santiago, Maria Jose, Barhight, Matthew, Selewski, David, Ricci, Zaccaria, Ollberding, Nicholas J., Stanski, Natalja L., Ahern, Emily, Akcan Arikan, Ayse, Alhamoud, Issa, Alobaidi, Rashid, Anton-Martin, Pilar, Balani, Shanthi S., Barhight, Matthew, Basalely, Abby, Bigelow, Amee M., Bottari, Gabriella, Cappoli, Andrea, Ciccia, Eileen A., Collins, Michaela, Colosimo, Denise, Cortina, Gerard, Damian, Mihaela A., De la Mata Navazo, Sara, DeAbreu, Gabrielle, Deep, Akash, Ding, Kathy L., Dolan, Kristin J., Fernandez Lafever, Sarah N., Fuhrman, Dana Y., Gelbart, Ben, Gist, Katja M., Gorga, Stephen M., Guzzi, Francesco, Guzzo, Isabella, Haga, Taiki, Harvey, Elizabeth, Hasson, Denise C., Hill-Horowitz, Taylor, Inthavong, Haleigh, Joseph, Catherine, Kaddourah, Ahmad, Kakajiwala, Aadil, Kessel, Aaron D., Korn, Sarah, Krallman, Kelli A., Kwiatkowski, David M., Lee, Jasmine, Lequier, Laurance, Madani Kia, Tina, Mah, Kenneth E., Marinari, Eleonora, Martin, Susan D., Menon, Shina, Mohamed, Tahagod H., Morgan, Catherine, Mottes, Theresa A., Muff-Luett, Melissa A., Namachivayam, Siva, Neumayr, Tara M., Nhan, Jennifer, O’Rourke, Abigail, Ollberding, Nicholas J., Pinto, Matthew G., Qutob, Dua, Raggi, Valeria, Reynaud, Stephanie, Ricci, Zaccaria, Rumlow, Zachary A., Santiago Lozano, María J., See, Emily, Selewski, David T., Serpe, Carmela, Serratore, Alyssa, Shah, Ananya, Shih, Weiwen V., Stella Shin, H., Slagle, Cara L., Solomon, Sonia, Soranno, Danielle E., Srivastava, Rachana, Stanski, Natalja L., Starr, Michelle C., Stenson, Erin K., Strong, Amy E., Taylor, Susan A., Thadani, Sameer V., Uber, Amanda M., Van Wyk, Brynna, Webb, Tennille N., Zang, Huaiyu, Zangla, Emily E., Zappitelli, Michael, Christine, T., Alvarez, E., Bixler, Elizabeth, Brown, Erica Blender, Brown, Cheryl L., Burrell, Ambra, Dash, Anwesh, Ehrlich, Jennifer L., Farma, Simrandeep, Gahring, Kim, Gales, Barbara, Hilgenkamp, Madison R., Jain, Sonal, Kanwar, Kate, Lusk, Jennifer, Meyer, Christopher J., Plomaritas, Katherine, Porter, Joshua, Potts, Jessica, Serratore, Alyssa, Schneider, Elizabeth, Sinha, Vidushi, Strack, P. J., Taylor, Sue, Twombley, Katherine, Van Wyk, Brynna, Wallace, Samantha, Wang, Janet, Woods, Megan, Zinger, Marcia, and Zong, Alison

Published
2024
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31. Spectral fingerprints of non-equilibrium dynamics: The case of a Brownian gyrator

Author

Cerasoli, S., Ciliberto, S., Marinari, E., Oshanin, G., Peliti, L., and Rondoni, L.

Subjects
Condensed Matter - Statistical Mechanics, Physics - Data Analysis, Statistics and Probability
Abstract

The same system can exhibit a completely different dynamical behavior when it evolves in equilibrium conditions or when it is driven out-of-equilibrium by, e.g., connecting some of its components to heat baths kept at different temperatures. Here we concentrate on an analytically solvable and experimentally-relevant model of such a system -- the so-called Brownian gyrator -- a two-dimensional nanomachine that performs a systematic, on average, rotation around the origin under non-equilibrium conditions, while no net rotation takes place in equilibrium. On this example, we discuss a question whether it is possible to distinguish between two types of a behavior judging not upon the statistical properties of the trajectories of components, but rather upon their respective spectral densities. The latter are widely used to characterize diverse dynamical systems and are routinely calculated from the data using standard built-in packages. From such a perspective, we inquire whether the power spectral densities possess some "fingerprint" properties specific to the behavior in non-equilibrium. We show that indeed one can conclusively distinguish between equilibrium and non-equilibrium dynamics by analyzing the cross-correlations between the spectral densities of both components in the short frequency limit, or from the spectral densities of both components evaluated at zero frequency. Our analytical predictions, corroborated by experimental and numerical results, open a new direction for the analysis of a non-equilibrium dynamics., Comment: 23 pages, 6 figures

Published
2022
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32. Supervised perceptron learning vs unsupervised Hebbian unlearning: Approaching optimal memory retrieval in Hopfield-like networks

Author

Benedetti, Marco, Ventura, Enrico, Marinari, Enzo, Ruocco, Giancarlo, and Zamponi, Francesco

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics, Physics - Biological Physics, Quantitative Biology - Neurons and Cognition
Abstract

The Hebbian unlearning algorithm, i.e. an unsupervised local procedure used to improve the retrieval properties in Hopfield-like neural networks, is numerically compared to a supervised algorithm to train a linear symmetric perceptron. We analyze the stability of the stored memories: basins of attraction obtained by the Hebbian unlearning technique are found to be comparable in size to those obtained in the symmetric perceptron, while the two algorithms are found to converge in the same region of Gardner's space of interactions, having followed similar learning paths. A geometric interpretation of Hebbian unlearning is proposed to explain its optimal performances. Because the Hopfield model is also a prototypical model of disordered magnetic system, it might be possible to translate our results to other models of interest for memory storage in materials., Comment: 11 pages, 13 figures, 43 references

Published
2021
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33. Continuous Kidney Replacement Therapy and Survival in Children and Young Adults: Findings From the Multinational WE-ROCK Collaborative

Author

Ahern, Emily, Arikan, Ayse Akcan, Alhamoud, Issa, Alobaidi, Rashid, Anton-Martin, Pilar, Barhight, Matthew, Basalely, Abby, Bigelow, Amee M., Bottari, Gabriella, Collins, Michaela, Colosimo, Denise, Cortina, Gerard, Damian, Mihaela A., Navazo, Sara de la Mata, DeAbreu, Gabrielle, Deep, Akash, Ding, Kathy L., Dolan, Kristin J., Fernandez Lafever, Sarah N., Fuhrman, Dana Y., Gelbart, Ben, Gorga, Stephen M., Guzzi, Francesco, Guzzo, Isabella, Haga, Taiki, Harvey, Elizabeth, Hasson, Denise C., Hill-Horowitz, Taylor, Inthavong, Haleigh, Kaddourah, Ahmad, Korn, Sarah, Krallman, Kelli A., Kwiatkowski, David M., Lee, Jasmine, Lequier, Laurance, Kia, Tina Madani, Mah, Kenneth E., Marinari, Eleonora, Martin, Susan D., Mohamed, Tahagod H., Morgan, Catherine, Mottes, Theresa A., Namachivayam, Siva, Neumayr, Tara M., Nhan, Jennifer, O’Rourke, Abigail, Qutob, Dua, Raggi, Valeria, Ricci, Zaccaria, Rumlow, Zachary A., See, Emily, Selewski, David T., Serpe, Carmela, Serratore, Alyssa, Shah, Ananya, Shin, H. Stella, Soranno, Danielle E., Stanski, Natalja L., Stenson, Erin K., Strong, Amy E., Taylor, Susan A., Thadani, Sameer V., Uber, Amanda M., Van Wyk, Brynna, Zangla, Emily E., Zappitelli, Michael, Starr, Michelle C., Gist, Katja M., Zang, Huaiyu, Ollberding, Nicholas J., Balani, Shanthi, Cappoli, Andrea, Ciccia, Eileen, Joseph, Catherine, Kakajiwala, Aadil, Kessel, Aaron, Muff-Luett, Melissa, Santiago Lozano, María J., Pinto, Matthew, Reynaud, Stephanie, Solomon, Sonia, Slagle, Cara, Srivastava, Rachana, Shih, Weiwen V., Webb, Tennille, and Menon, Shina

Published
2024
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37. How we are leading a 3-XORSAT challenge: from the energy landscape to the algorithm and its efficient implementation on GPUs

Author

Bernaschi, M., Bisson, M., Fatica, M., Marinari, E., Martin-Mayor, V., Parisi, G., and Ricci-Tersenghi, F.

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics, Computer Science - Distributed, Parallel, and Cluster Computing, Computer Science - Data Structures and Algorithms, Physics - Computational Physics
Abstract

A recent 3-XORSAT challenge required to minimize a very complex and rough energy function, typical of glassy models with a random first order transition and a golf course like energy landscape. We present the ideas beyond the quasi-greedy algorithm and its very efficient implementation on GPUs that are allowing us to rank first in such a competition. We suggest a better protocol to compare algorithmic performances and we also provide analytical predictions about the exponential growth of the times to find the solution in terms of free-energy barriers., Comment: 7 pages, 7 figure, EPL format + SM (2 pages)

Published
2021
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38. Recognition Capabilities of a Hopfield Model with Auxiliary Hidden Neurons

Author

Benedetti, Marco, Dotsenko, Victor, Fischetti, Giulia, Marinari, Enzo, and Oshanin, Gleb

Subjects
Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics, Physics - Biological Physics, Quantitative Biology - Neurons and Cognition
Abstract

We study the recognition capabilities of the Hopfield model with auxiliary hidden layers, which emerge naturally upon a Hubbard-Stratonovich transformation. We show that the recognition capabilities of such a model at zero-temperature outperform those of the original Hopfield model, due to a substantial increase of the storage capacity and the lack of a naturally defined basin of attraction. The modified model does not fall abruptly in a regime of complete confusion when memory load exceeds a sharp threshold.

Published
2021
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39. Spin-glass dynamics in the presence of a magnetic field: exploration of microscopic properties

Author

Paga, I., Zhai, Q., Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A, Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Muñoz-Sudupe, A., Navarro, D., Orbach, R. L., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Schlagel, D. L., Seoane, B., Tarancon, A., Tripiccione, R., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

The synergy between experiment, theory, and simulations enables a microscopic analysis of spin-glass dynamics in a magnetic field in the vicinity of and below the spin-glass transition temperature $T_\mathrm{g}$. The spin-glass correlation length, $\xi(t,t_\mathrm{w};T)$, is analysed both in experiments and in simulations in terms of the waiting time $t_\mathrm{w}$ after the spin glass has been cooled down to a stabilised measuring temperature $T

Published
2021
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41. Identification of a miRNA multi-targeting therapeutic strategy in glioblastoma

Author

Arthur Bassot, Helena Dragic, Sarah Al Haddad, Laurine Moindrot, Soline Odouard, Francesca Corlazzoli, Eliana Marinari, Alexandra Bomane, Augustin Brassens, Antoine Marteyn, Youssef Hibaoui, Tom J. Petty, Mounira Chalabi-Dchar, Louis Larrouquere, Evgeny M. Zdobnov, Noémie Legrand, Jérôme Tamburini, Hubert Lincet, Marie Castets, Mayra Yebra, Denis Migliorini, Valérie Dutoit, Paul R. Walker, Olivier Preynat-Seauve, Pierre-Yves Dietrich, and Érika Cosset

Subjects
Cytology, QH573-671
Abstract

Abstract Glioblastoma (GBM) is a deadly and the most common primary brain tumor in adults. Due to their regulation of a high number of mRNA transcripts, microRNAs (miRNAs) are key molecules in the control of biological processes and are thereby promising therapeutic targets for GBM patients. In this regard, we recently reported miRNAs as strong modulators of GBM aggressiveness. Here, using an integrative and comprehensive analysis of the TCGA database and the transcriptome of GBM biopsies, we identified three critical and clinically relevant miRNAs for GBM, miR-17-3p, miR-222, and miR-340. In addition, we showed that the combinatorial modulation of three of these miRNAs efficiently inhibited several biological processes in patient-derived GBM cells of all these three GBM subtypes (Mesenchymal, Proneural, Classical), induced cell death, and delayed tumor growth in a mouse tumor model. Finally, in a doxycycline-inducible model, we observed a significant inhibition of GBM stem cell viability and a significant delay of orthotopic tumor growth. Collectively, our results reveal, for the first time, the potential of miR-17-3p, miR-222 and miR-340 multi-targeting as a promising therapeutic strategy for GBM patients.

Published
2023
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42. Temperature chaos is present in off-equilibrium spin-glass dynamics

Author

Janus Collaboration, Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Muñoz-Sudupe, A., Navarro, D., Paga, I., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Seoane, B., Tarancon, A., Tripiccione, R., and Yllanes, D.

Subjects
Condensed Matter - Disordered Systems and Neural Networks
Abstract

We find a dynamic effect in the non-equilibrium dynamics of a spin glass that closely parallels equilibrium temperature chaos. This effect, that we name dynamic temperature chaos, is spatially heterogeneous to a large degree. The key controlling quantity is the time-growing spin-glass coherence length. Our detailed characterization of dynamic temperature chaos paves the way for the analysis of recent and forthcoming experiments. This work has been made possible thanks to the most massive simulation to date of non-equilibrium dynamics, carried out on the Janus~II custom-built supercomputer., Comment: Version accepted for publication in Communication Physics 10 pages, 9 figures

Published
2020
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43. Scaling law describes the spin-glass response in theory, experiments and simulations

Author

Zhai, Q., Paga, I., Baity-Jesi, M., Calore, E., Cruz, A., Fernandez, L. A., Gil-Narvion, J. M., Pemartin, I. Gonzalez-Adalid, Gordillo-Guerrero, A., Iñiguez, D., Maiorano, A., Marinari, E., Martin-Mayor, V., Moreno-Gordo, J., Muñoz-Sudupe, A., Navarro, D., Orbach, R. L., Parisi, G., Perez-Gaviro, S., Ricci-Tersenghi, F., Ruiz-Lorenzo, J. J., Schifano, S. F., Schlagel, D. L., Seoane, B., Tarancon, A., Tripiccione, R., and Yllanes, D.

Subjects
Condensed Matter - Statistical Mechanics, Condensed Matter - Disordered Systems and Neural Networks
Abstract

The correlation length $\xi$, a key quantity in glassy dynamics, can now be precisely measured for spin glasses both in experiments and in simulations. However, known analysis methods lead to discrepancies either for large external fields or close to the glass temperature. We solve this problem by introducing a scaling law that takes into account both the magnetic field and the time-dependent spin-glass correlation length. The scaling law is successfully tested against experimental measurements in a CuMn single crystal and against large-scale simulations on the Janus II dedicated computer., Comment: Revised version, including supplemental material

Published
2020
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44. Foreign body ingestion in children: Definition of a nomogram to predict surgical or endoscopic intervention

Author

Biganzoli, Elia Mario, Marano, Giuseppe, Bucci, Cristina, Caldore, Mariano, Murciano, Manuel, Chiarazzo, Giulia, Ichino, Martina, Macchini, Francesco, Marinari, Alessandra, Nardo, Giovanni Di, Marseglia, Antonio, Saccomani, Marco Deganello, Sala, Debora, Balestra, Elia, Iuliano, Silvia, Mantegazza, Cecilia, Ferraro, Simona, Biganzoli, Davide, Destro, Francesca, Quitadamo, Paolo, Isoldi, Sara, Torroni, Filippo, Malamisura, Monica, Renzo, Sara, Fioretti, Lorenzo, Gandullia, Paolo, Tantari, Giacomo, Maino, Marta, Fava, Giorgio, Bramuzzo, Matteo, Zingarella, Silvia, Illiceto, Maria Teresa, Norsa, Lorenzo, Pellegrino, Maristella, Antoniello, Luca Maria, Orizio, Paolo, Nanni, Alessio, Cisarò, Fabio, Felici, Enrico, Romano, Claudio, and Oliva, Salvatore

Published
2024
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47. Epigenetic changes to gene pathways linked to male fertility in ex situ black‐footed ferrets

Author

Stavi R. Tennenbaum, Robyn Bortner, Colleen Lynch, Rachel Santymire, Adrienne Crosier, Jenny Santiestevan, Paul Marinari, Budhan S. Pukazhenthi, Pierre Comizzoli, Melissa T. R. Hawkins, Jesús E. Maldonado, Klaus‐Peter Koepfli, Bridgett M. vonHoldt, and Alexandra L. DeCandia

Subjects
conservation, DNA methylation, infertility, Mustela nigripes, reproduction, sperm, Evolution, QH359-425
Abstract

Abstract Environmental variation can influence the reproductive success of species managed under human care and in the wild, yet the mechanisms underlying this phenomenon remain largely mysterious. Molecular mechanisms such as epigenetic modifiers are important in mediating the timing and progression of reproduction in humans and model organisms, but few studies have linked epigenetic variation to reproductive fitness in wildlife. Here, we investigated epigenetic variation in black‐footed ferrets (Mustela nigripes), an endangered North American mammal reliant on ex situ management for survival and persistence in the wild. Despite similar levels of genetic diversity in human‐managed and wild‐born populations, individuals in ex situ facilities exhibit reproductive problems, such as poor sperm quality. Differences across these settings suggest that an environmentally driven decline in reproductive capacity may be occurring in this species. We examined the role of DNA methylation, one well‐studied epigenetic modifier, in this emergent condition. We leveraged blood, testes, and semen samples from male black‐footed ferrets bred in ex situ facilities and found tissue‐type specificity in DNA methylation across the genome, although 1360 Gene Ontology terms associated with male average litter size shared functions across tissues. We then constructed gene networks of differentially methylated genomic sites associated with three different reproductive phenotypes to explore the putative biological impact of variation in DNA methylation. Sperm gene networks associated with average litter size and sperm count were functionally enriched for candidate genes involved in reproduction, development, and its regulation through transcriptional repression. We propose that DNA methylation plays an important role in regulating these reproductive phenotypes, thereby impacting the fertility of male ex situ individuals. Our results provide information into how DNA methylation may function in the alteration of reproductive pathways and phenotypes in artificial environments. These findings provide early insights to conservation hurdles faced in the protection of this rare species.

Published
2024
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48. Trends and safety of bariatric revisional surgery in Italy: multicenter, prospective, observational study

Author

Di Biasio, Alberto, Trotta, Manuela, Di Capua, Francesco, Bianciardi, Emanuela, Campanelli, Michela, Sensi, Bruno, Arolfo, Simone, Salzano, Antonio, Oldani, Alberto, Mancini, Rudj, Fiorello, Luigi, Filippone, Emanuela, Rottoli, Matteo, Veroux, Gastone, Celiento, Marta, Boru, Cristian E., Marinari, Giuseppe M., Olmi, Stefano, Gentileschi, Paolo, Morino, Mario, Anselmino, Marco, Foletto, Mirto, Bernante, Paolo, Piazza, Luigi, Perrotta, Nicola, Morganti, Riccardo, and Silecchia, Gianfranco

Published
2023
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