Article
Materials Science, Multidisciplinary
Yangyang Xin, Hussein Nesser, Jian Zhou, Gilles Lubineau
Summary: This article clarifies the evolution mechanism of the Seebeck coefficient of nanoparticle clouds under applied strain through experimental evidence and a proposed theoretical model, and successfully develops a temperature sensor that is resistant to mechanical damage.
APPLIED MATERIALS TODAY
(2022)
Review
Biochemical Research Methods
Carlos H. M. Rodrigues, Douglas E. Pires, Tom L. Blundell, David B. Ascher
Summary: Protein-protein interfaces have unique binding geometry and physicochemical properties, with concave binding sites that challenge the previous belief about their flatness. A comprehensive review of protein-protein interface landscape reveals the utilization of small binding pockets even in larger flat interfaces.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Physics, Multidisciplinary
Jingmin Xia, Scott MacLachlan, Timothy J. Atherton, Patrick E. Farrell
Summary: A phenomenological free energy model is proposed to describe the behavior of smectic liquid crystals, showcasing orientational order and layering at the molecular scale. The model is utilized in scenarios involving geometric frustration, unveiling emergent structures such as focal conic domains and oily streaks, providing detailed elucidation of the rich energy landscapes that arise in these problems.
PHYSICAL REVIEW LETTERS
(2021)
Article
Chemistry, Multidisciplinary
Leiqing Hu, Kaiwen Chen, Won-Il Lee, Kim Kisslinger, Clayton Rumsey, Shouhong Fan, Vinh T. Bui, Narjes Esmaeili, Thien Tran, Yifu Ding, Martin Trebbin, Chang-Yong Nam, Mark T. Swihart, Haiqing Lin
Summary: This study demonstrates that branched nanorods with controlled aspect ratios can reduce the required loading for superior gas separation properties while maintaining excellent processability. The advantage of nanorods over nanoparticles and nanowires is highlighted, and right-sizing nanofillers is critical to construct highly sieving pathways.
ADVANCED MATERIALS
(2023)
Article
Nanoscience & Nanotechnology
A. Mukhopadhyay, Y. Yang, Z. Cheng, P. Luan, A. Natan, H. Zhu
Summary: This study developed a novel ion exchange membrane based on bacterial cellulose and hydrophobic copolymer, possessing high ionic selectivity and proton conductivity, along with high tensile strength and thermal stability. The vanadium redox flow battery assembled using this membrane demonstrated very high continuous cycles and energy efficiency.
MATERIALS TODAY NANO
(2021)
Article
Geosciences, Multidisciplinary
Jonathan D. Phillips
Summary: Concentrated or preferential flow patterns are common in hydrologic systems and play a significant role in achieving maximum efficiency. These patterns are shaped by principles such as gradient and resistance selection, positive feedback, network formation, and flow thresholds. The development and persistence of these patterns are emergent phenomena, driven by selection and stability.
Article
Chemistry, Multidisciplinary
Filip Van Lijsebetten, Kevin De Bruycker, Evelyne Van Ruymbeke, Johan M. Winne, Filip E. Du Prez
Summary: Dynamic covalent networks provide a unique way of controlling macroscopic material properties by linking them to the underlying chemistry. Researchers have developed a rheological paradigm that correlates the composition of a reactive polymer segment to the rate of network rearrangement. They discovered that a generalised Maxwell model can separate and quantify the dynamic behavior of each type of reactive segment individually, which is crucial for understanding the mechanics of the final material. By combining statistical modeling and rheology measurements, possible bond catalysis and dissociation were related to structural changes.
Article
Multidisciplinary Sciences
Sandhya Bangaru, Aleksandar Antanasijevic, Nurgun Kose, Leigh M. Sewall, Abigail M. Jackson, Naveenchandra Suryadevara, Xiaoyan Zhan, Jonathan L. Torres, Jeffrey Copps, Alba Torrents de la Pena, James E. Crowe, Andrew B. Ward
Summary: This study investigated the antibody specificity against seasonal coronaviruses and SARS-CoV-2 in serum samples. The results showed that preexisting immunity contained antibodies specific to seasonal coronaviruses, while convalescent serum exhibited reactivity to all coronaviruses. Epitope mapping revealed differential targeting of epitopes by preexisting antibodies and convalescent serum antibodies.
Article
Environmental Studies
Kathleen Buckingham, Bernadette Arakwiye, Sabin Ray, Ornanong Maneerattana, Will Anderson
Summary: This study examines environmental governance in Rwanda through a social network lens, aiming to understand actors' connections, priorities, and values in the restoration landscape at various scales in Gatsibo. It emphasizes the importance of diverse, reliable, and resilient networks of information, finance, and seedlings for sustainable restoration efforts. The study highlights the need to first understand and then strengthen networks by mapping resource flows, priorities, and values among actors, in order to develop effective strategies for change.
Article
Construction & Building Technology
Ramon Hingorani, Nils Dittrich, Jochen Kohler, Daniel B. Muller
Summary: This study quantifies the future stocks and flows of structural materials and their embodied emissions in German residential buildings using dynamic material flow analysis. The results show that emission mitigation measures, such as the replacement of masonry structures with timber structures and downsizing of structural material quantities, could contribute significantly to achieving emission neutrality.
BUILDING AND ENVIRONMENT
(2023)
Article
Physics, Multidisciplinary
Marco Tomassini
Summary: The study explores the extension of the local optima network model to the real continuous function domain, constructing a weighted directed graph to capture the function's minima basin structure and its relation with function spaces. It is found that function hardness is strongly related to several graph properties of the corresponding local optima network, which opens up possibilities for classifying problem difficulty and designing better metaheuristic approaches.
Article
Biochemical Research Methods
Vigneshwaran Namasivayam, Katja Stefan, Katja Silbermann, Jens Pahnke, Michael Wiese, Sven Marcel Stefan
Summary: This study successfully extracted molecular structural features of inhibitors of the model protein family of ATP-binding cassette (ABC) transporters using a feature-driven computer-aided pattern analysis (C@PA) method and expanded the known multitarget modulator landscape of pan-ABC transporter inhibitors.
Article
Multidisciplinary Sciences
Baobing Fan, Wei Gao, Xuanhao Wu, Xinxin Xia, Yue Wu, Francis R. Lin, Qunping Fan, Xinhui Lu, Wen Jung Li, Wei Ma, Alex K. -Y. Jen
Summary: The researchers developed a class of non-fullerene acceptors that can achieve efficiency as high as 18.3% and good stability when processed in xylene. The study highlights the importance of side-group steric hinderance of acceptors in achieving high-performance, stable, and eco-friendly organic photovoltaics.
NATURE COMMUNICATIONS
(2022)
Review
Computer Science, Artificial Intelligence
Riting Xia, Yan Zhang, Xueyan Liu, Bo Yang
Summary: Sum-product networks (SPNs) have made significant progress in various fields such as computer vision, robotics, neuro-symbolic AI, NLP, probabilistic programming languages. They can balance tractability and expressive efficiency, and are more interpretable than deep neural models. Designing effective SPN structure learning algorithms that balance expressiveness and complexity has become a hot research topic.
Article
Multidisciplinary Sciences
Hao-Bo Guo, Mehran Ghafari, Weiwei Dang, Hong Qin
Summary: The study introduced a novel approach to characterize system-level changes in gene networks during replicative aging in Saccharomyces cerevisiae, revealing distinct roles of essential proteins and hub proteins in the age-dependent interaction potential landscapes. The findings suggest that hub proteins tend to avoid other hub proteins, while essential proteins prefer to interact with each other, shedding light on the uncoupling between protein and transcript levels during replicative aging.
SCIENTIFIC REPORTS
(2021)
Correction
Multidisciplinary Sciences
Anne S. Wentink, Nadinath B. Nillegoda, Jennifer Feufel, Gabriele Ubartaite, Carolyn P. Schneider, Paolo de los Rios, Janosch Hennig, Alessandro Barducci, Bernd Bukau
Summary: A correction to this paper has been published at https://doi.org/10.1038/s41586-020-03090-x.
Article
Chemistry, Multidisciplinary
Daniel Maria Busiello, Shiling Liang, Francesco Piazza, Paolo De Los Rios
Summary: Life is likely originated in non-equilibrium conditions where faster reactions contribute the most to dissipation rate, leading to selection of favorable states. As chemical network complexity increases, reaction path velocity determines state selection, potentially resulting in thermophoresis-like behavior in the presence of temperature gradient. Recent studies suggest energy sources driving nonequilibrium behaviors in chemical reaction networks.
COMMUNICATIONS CHEMISTRY
(2021)
Article
Multidisciplinary Sciences
Muhua Zheng, Guillermo Garcia-Perez, Marian Boguna, M. Angeles Serrano
Summary: The research presented above provides a geometric branching growth model for the self-similar growth of network structure in the evolution of real systems. This model predicts the evolution of networks and explains the observed symmetries, preserving network features in scaled-up network replicas at different scales.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Multidisciplinary Sciences
Avinash Vicholous Dass, Thomas Georgelin, Frances Westall, Frederic Foucher, Paolo De los Rios, Daniel Maria Busiello, Shiling Liang, Francesco Piazza
Summary: The exclusive presence of β-D-ribofuranose in nucleic acids remains a puzzle in prebiotic chemistry, with studies showing a potential population inversion between furanose and pyranose isomers at high temperatures and how a steady temperature gradient can boost furanose beyond equilibrium limits. The authors also demonstrate that non-equilibrium selection of furanose is maximized under optimal dissipation conditions, in line with temperature drops found in hydrothermal vents on the seafloor.
NATURE COMMUNICATIONS
(2021)
Article
Engineering, Multidisciplinary
Roya Aliakbarisani, Abdorasoul Ghasemi, M. Angeles Serrano
Summary: This paper presents a link prediction method called Laplacian Perturbation Method (LPM) based on perturbation theory, which significantly improves prediction accuracy and outperforms other methods.
IEEE TRANSACTIONS ON NETWORK SCIENCE AND ENGINEERING
(2022)
Article
Biochemistry & Molecular Biology
Satyam Tiwari, Bruno Fauvet, Salvatore Assenza, Paolo De Los Rios, Pierre Goloubinoff
Summary: The lack of comprehensive characterization of heterogeneous protein aggregates has hindered the detailed understanding of how Hsp70 chaperones protect cells against aggregation. In this study, a reporter chaperone substrate called MLucV was designed, which formed discrete small aggregates upon denaturation. Utilizing Forster resonance energy transfer and enzymatic activity measurements, unprecedented details about the aggregated, unfolded, Hsp70-bound, and native conformations of MLucV were obtained. The results reveal that Hsp70 first facilitates ATP-fueled disaggregation and unfolding of the pre-aggregated substrate, stretching MLucV beyond unfolded conformations, followed by native refolding.
NATURE CHEMICAL BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Pedro Almagro, Marian Boguna, M. Angeles Serrano
Summary: Reducing dimensionality is an essential approach to detect and analyze patterns in large datasets and complex networks. In this study, the authors propose a method to infer the intrinsic dimensionality of high-dimensional networks and reproduce their complex structure using a reduced geometric representation.
NATURE COMMUNICATIONS
(2022)
Article
Physics, Multidisciplinary
Jasper van der Kolk, M. Angeles Serrano, Marian Boguna
Summary: The BKT model shows that finite temperature phase transitions can be driven by topological defects, rather than symmetry breaking. The authors demonstrate that a transition in a certain class of random network models is topological in nature, without any symmetry breaking. In addition, the study finds that clustering in random geometric graphs undergoes a continuous phase transition, with anomalous features observed in the non-geometric phase.
COMMUNICATIONS PHYSICS
(2022)
Article
Mathematics, Interdisciplinary Applications
Elisenda Ortiz, M. Angeles Serrano
Summary: We introduce the Multiscale Voter Model (MVM) to investigate clan influence at multiple scales on opinion formation, and find that enhancing group diversity promotes consensus while strong kinship yields metastable clusters of same opinion. The segregated domains, represented as spatial patterns in network embeddings, signal opinion polarization.
CHAOS SOLITONS & FRACTALS
(2022)
Correction
Biochemistry & Molecular Biology
Satyam Tiwari, Bruno Fauvet, Salvatore Assenza, Paolo de los Rios, Pierre Goloubinoff
NATURE CHEMICAL BIOLOGY
(2023)
Article
Physics, Multidisciplinary
Jasper van der Kolk, Guillermo Garcia-Perez, Nikos E. Kouvaris, M. angeles Serrano, Marian Boguna
Summary: Turing patterns are important for describing nonequilibrium self-organization in nature and have been extensively studied. Recent research has found that the Turing instability can produce topological patterns in networks with scale-free degree distributions and the small-world property. By studying geometric random graph models, it has been demonstrated that geometric patterns can be observed and their wavelength can be estimated using eigenvectors of the annealed graph Laplacian. Additionally, Turing patterns can be found in geometric embeddings of real networks.
Article
Multidisciplinary Sciences
Duccio Malinverni, Stefano Zamuner, Mathieu E. Rebeaud, Alessandro Barducci, Nadinath B. Nillegoda, Paolo De Los Rios
Summary: The 70-kD heat shock protein (Hsp70) chaperone system plays a vital role in protein homeostasis. The J-domain protein (JDP) family acts as co-chaperones and regulates the recruitment of Hsp70 for specific cellular functions. Despite their importance in cellular proteostasis and development, the overall understanding of the JDP family is limited. Through the use of artificial neural networks, this study provides an overview of the JDP repertoire and reveals the coevolution of key residues within the J-domains and Hsp70.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Physics, Applied
Marian Boguna, Ivan Bonamassa, Manlio De Domenico, Shlomo Havlin, Dmitri Krioukov, M. Angeles Serrano
Summary: Networks are finite metric spaces with various forms of geometry, including latent spaces and effective geometry induced by dynamical processes. These three approaches are highly efficient in discovering fundamental symmetries in networks. Network geometry has wide applications in theoretical and practical contexts, playing crucial roles in understanding brain functions and Internet routing.
NATURE REVIEWS PHYSICS
(2021)
Article
Multidisciplinary Sciences
Anne S. Wentink, Nadinath B. Nillegoda, Jennifer Feufel, Gabriele Ubartaite, Carolyn P. Schneider, Paolo De Los Rios, Janosch Hennig, Alessandro Barducci, Bernd Bukau
Meeting Abstract
Biophysics
Daniel Maria Busiello, Shiling Liang, Paolo De Los Rios
BIOPHYSICAL JOURNAL
(2020)